Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 284 of 318
Found at i:89837305 original size:41 final size:42
Alignment explanation
Indices: 89837233--89837325 Score: 134
Period size: 41 Copynumber: 2.2 Consensus size: 42
89837223 CGGGTTTCCT
** ** *
89837233 AATTATTTTTGGACTTTGAGTTTTTGGACTTTATTTAGATAA
1 AATTATTTTTGGACTTTGAACTTTTCAACTTTAATTAGATAA
89837275 AATTATTTTTGGA-TTTGAACTTTTCAACTTTAATTAGATAA
1 AATTATTTTTGGACTTTGAACTTTTCAACTTTAATTAGATAA
89837316 AATTATTTTT
1 AATTATTTTT
89837326 TAGATTTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 33 0.72
42 13 0.28
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (42 bp):
AATTATTTTTGGACTTTGAACTTTTCAACTTTAATTAGATAA
Found at i:89848002 original size:2 final size:2
Alignment explanation
Indices: 89847997--89848027 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89847987 AAAAAAGGAA
89847997 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89848028 AAATGACTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89854766 original size:21 final size:21
Alignment explanation
Indices: 89854741--89854806 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
89854731 TAGCCTTCGG
*
89854741 GCTTCTGTTTAGCATTTGTGT
1 GCTTCAGTTTAGCATTTGTGT
* *
89854762 GCTTCAG-TTAGCCTTCG-G-
1 GCTTCAGTTTAGCATTTGTGT
* *
89854780 GCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTTAGCATTTGTGT
89854801 GCTTCA
1 GCTTCA
89854807 ATTAGCCTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 9 0.26
21 11 0.32
ACGTcount: A:0.11, C:0.23, G:0.24, T:0.42
Consensus pattern (21 bp):
GCTTCAGTTTAGCATTTGTGT
Found at i:89854769 original size:39 final size:39
Alignment explanation
Indices: 89854723--89854862 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
89854713 GCTCTGATGA
* *
89854723 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCATTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
89854762 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
89854801 GCTTCAATTAGCCTTCGGGCTTCCGTTCAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
89854840 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
89854863 AGATCATGAT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:89854843 original size:21 final size:19
Alignment explanation
Indices: 89854749--89854844 Score: 61
Period size: 20 Copynumber: 4.9 Consensus size: 19
89854739 GGGCTTCTGT
* *
89854749 TTAGCATTTGTGTGCTTCAG
1 TTAGCACTT-TGTGCTTCCG
* *
89854769 TTAGC-CTTCGGGCTTCCG
1 TTAGCACTTTGTGCTTCCG
**
89854787 TTTAGCACTTGTGTGCTTCAA
1 -TTAGCACTT-TGTGCTTCCG
* *
89854808 TTAGC-CTTCGGGCTTCCG
1 TTAGCACTTTGTGCTTCCG
89854826 TTCAGCACTTATGTGCTTC
1 TT-AGCACTT-TGTGCTTC
89854845 AGCTAGACTT
Statistics
Matches: 56, Mismatches: 14, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
18 15 0.27
19 13 0.23
20 16 0.29
21 12 0.21
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (19 bp):
TTAGCACTTTGTGCTTCCG
Found at i:89859206 original size:64 final size:64
Alignment explanation
Indices: 89859105--89859225 Score: 233
Period size: 64 Copynumber: 1.9 Consensus size: 64
89859095 ACAGGGGTTG
*
89859105 CACGGGTGAGGACGTAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACTAGAGTCA
1 CACGGGTGAGGACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACTAGAGTCA
89859169 CACGGGTGAGGACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACT
1 CACGGGTGAGGACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACT
89859226 GCCTGAGACA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (64 bp):
CACGGGTGAGGACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACTAGAGTCA
Found at i:89862128 original size:20 final size:20
Alignment explanation
Indices: 89862103--89862145 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
89862093 TATATTACAT
89862103 CAAATCTTAATTTGACAATG
1 CAAATCTTAATTTGACAATG
*
89862123 CAAATCTTAATTTGATAATG
1 CAAATCTTAATTTGACAATG
89862143 CAA
1 CAA
89862146 TTTGGGGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (20 bp):
CAAATCTTAATTTGACAATG
Found at i:89884914 original size:30 final size:30
Alignment explanation
Indices: 89884878--89884938 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
89884868 GTCTTAACTC
89884878 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
89884908 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
89884938 A
1 A
89884939 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:89892110 original size:39 final size:39
Alignment explanation
Indices: 89892049--89892168 Score: 141
Period size: 39 Copynumber: 3.1 Consensus size: 39
89892039 TCGTGATTTG
* * *
89892049 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGA
1 AAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAACGA
* * *
89892088 AAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACGG
1 AAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAACGA
* * * *
89892127 AAGCCTGAAGGCTAACTAAAGCTCATCAGAGCTAAACTGA
1 AAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAAC-GA
89892167 AA
1 AA
89892169 CCCCAAAAAG
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 64 0.96
40 3 0.04
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.15
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAACGA
Found at i:89893652 original size:26 final size:24
Alignment explanation
Indices: 89893611--89893658 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
89893601 ATTTATATGA
*
89893611 AAAAATAATAACATATACCATAGT
1 AAAAATAATAAAATATACCATAGT
*
89893635 AAAAATAAATTAAAATATGCCATA
1 AAAAAT-AA-TAAAATATACCATA
89893659 TACATGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 2 0.10
26 12 0.60
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAAATAATAAAATATACCATAGT
Found at i:89895881 original size:180 final size:180
Alignment explanation
Indices: 89895584--89896559 Score: 1468
Period size: 180 Copynumber: 5.5 Consensus size: 180
89895574 AGATGAGATT
* * * * **
89895584 AAATCTGCTCTATTGCCAATACATGGAAATAAAATT--CCAT-T-TTCA-ATCTGCTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* * * *
89895644 ACTTCAAGGAGACAAAATCTTCAGTTCTCAGTCTGCTTCCTTGTTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
89895709 ATTCTTCAACCTGCTCTTTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* *
89895759 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCTGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* *
89895824 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTTTGCTTCCTTGCAACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* * * ** * *
89895889 ATTTTTCAACCTGTTCTCCTGCTATTTTAGAGAGATAAGGC-T--TAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* *
89895936 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTACA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
*
89896001 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* *
89896066 ATTCTTCAACCTGCTCCCTTGCTACCTCGGAGAGATGAGGCTTGGTAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* *
89896116 AAATCTGCTCCATTGCTGATACATAGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* *
89896181 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCCGTTTCCTTGCTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
89896246 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTG
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* * * * ** *
89896296 AAATCTGCTCCATTGCCGATATATGAAGATAAGATT--CCATCTGCGAGGATCTATTCCACTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* * *
89896359 ACTTCAGGGAAATAAAATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAAGATAAAACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
89896424 ATTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* * *
89896474 AAATCTGCTCCATTGTCGATACATGGAGATAATATTCACCATCTGTGAAGATCTACTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
89896539 ACTTCAGGGAGATAAAATCTT
66 ACTTCAGGGAGATAAAATCTT
89896560 TAATCTTTAC
Statistics
Matches: 722, Mismatches: 69, Indels: 15
0.90 0.09 0.02
Matches are distributed among these distances:
175 33 0.05
177 164 0.23
178 166 0.23
179 3 0.00
180 356 0.49
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (180 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
Found at i:89896242 original size:93 final size:92
Alignment explanation
Indices: 89895785--89896242 Score: 223
Period size: 88 Copynumber: 5.1 Consensus size: 92
89895775 CAATACATGG
*
89895785 AGATAAGATTCACCATCTGTGAAGATCTGCTCTGCTGCAACTTCAGGGAGATAAAATCTTCAATT
1 AGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATT
* *
89895850 CTCAGTTTGC-TTCCTTGCAACCTCAGGA
66 CTCAG--TCCATTCCTTGCTACCTCAGGA
* * ** * * * * * * ** *
89895878 AGATAAGA--C-TCAT-TTTTCA-ACCTGTTCTC-CTGCTATTTTAGAGAGAT-AAGGCTTAGTA
1 AGATAAGATTCACCATCTGTGAAGATCTGCTC-CGCTGCAACTTCAGGGAGATAAAATC-T--TC
* * * * *
89895936 AAATCT--GCTCCATT-GTCGATACAT--GG-
62 AATTCTCAG-TCCATTCCTTGCTACCTCAGGA
*
89895962 AGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTACAACTTCAGGGAGATAAAATCTTCAATT
1 AGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATT
*
89896027 CTCAGTCTACTTCCTTGCTACCTCAGGA
66 CTCAGTCCA-TTCCTTGCTACCTCAGGA
* * * * * * *** *
89896055 AGATAAGACTCA--TTCT-T-CA-ACCTGCTCC-CTTGCTACCTC-GGAGAGATGAGGCTTGGTA
1 AGATAAGATTCACCATCTGTGAAGATCTGCTCCGC-TGCAACTTCAGG-GAGAT-A-AAAT-CT-
* * * * *
89896113 GTAAAATCT--GCTCCATTGC-TGATACAT-A-G-
60 -TCAATTCTCAG-TCCATTCCTTGCTACCTCAGGA
89896142 AGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATT
1 AGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATT
*
89896207 CTCAGTCCGTTTCCTTGCTACCTCAGGA
66 CTCAGTCC-ATTCCTTGCTACCTCAGGA
89896235 AGATAAGA
1 AGATAAGA
89896243 CTCATTCTTC
Statistics
Matches: 249, Mismatches: 75, Indels: 82
0.61 0.18 0.20
Matches are distributed among these distances:
84 8 0.03
85 2 0.01
86 1 0.00
87 39 0.16
88 54 0.22
89 37 0.15
90 34 0.14
91 12 0.05
92 26 0.10
93 36 0.14
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (92 bp):
AGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATT
CTCAGTCCATTCCTTGCTACCTCAGGA
Found at i:89896488 original size:358 final size:356
Alignment explanation
Indices: 89895584--89896559 Score: 1444
Period size: 357 Copynumber: 2.7 Consensus size: 356
89895574 AGATGAGATT
* * * * * * *
89895584 AAATCTGCTCTATTGCCAATACATGGAA-ATAAAATT-CCATTTTC--A-ATCTGCTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACAT-GAAGATAAGATTACCATCTGCGAAGATCTACTCCACTGCA
* * * *
89895644 ACTTCAAGGAGACAAAATCTTCAGTTCTCAGTCTGCTTCCTTGTTACCTCAGGAAGATAAGACTC
65 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
**
89895709 ATTCTTCAACCTGCTCTTTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTG
130 ATTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTG
** *
89895774 CCAATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCTGCTGCAACTTCAGGGAGATAA
195 CTGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAA
** * *
89895839 AATCTTCAATTCTCAGTTTGCTTCCTTGCAACCTCAGGAAGATAAGACTCATTTTTCAACCTGTT
260 AATCTTCAATTCTCAGTCCGCTTCCTTGCAACCTCAGGAAGATAAGACTCATTCTTCAACCTGCT
** *
89895904 CTCCTGCTATTTTAGAGAGATAAGGCTTAGTA
325 CTCCTGCTACCTCAGAGAGATAAGGCTTAGTA
* * * * * *
89895936 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTACA
1 AAATCTGCTCCATTGCCGATACATGAAGATAAGATT-ACCATCTGCGAAGATCTACTCCACTGCA
*
89896001 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTC
65 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
89896066 ATTCTTCAACCTGCTCCCTTGCTACCTCGGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTG
130 ATTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTG
*
89896131 CTGATACATAGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAA
195 CTGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAA
* *
89896196 AATCTTCAATTCTCAGTCCGTTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCT
260 AATCTTCAATTCTCAGTCCGCTTCCTTGCAACCTCAGGAAGATAAGACTCATTCTTCAACCTGCT
* * *
89896261 CTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTG
325 CTCCTGCTACCTCAGAGAGATAAGGC-T--TAGTA
* * *
89896296 AAATCTGCTCCATTGCCGATATATGAAGATAAGATT-CCATCTGCGAGGATCTATTCCACTGCAA
1 AAATCTGCTCCATTGCCGATACATGAAGATAAGATTACCATCTGCGAAGATCTACTCCACTGCAA
* * *
89896360 CTTCAGGGAAATAAAATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAAGATAAAACTCA
66 CTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCA
89896425 TTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTG-
131 TTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGC
* *
89896489 TCGATACATGGAGATAATATTCACCATCTGTGAAGATCTACTCCGCTGCAACTTCAGGGAGATAA
196 T-GATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAA
89896554 AATCTT
260 AATCTT
89896560 TAATCTTTAC
Statistics
Matches: 564, Mismatches: 50, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
351 2 0.00
352 28 0.05
354 5 0.01
356 1 0.00
357 278 0.49
358 213 0.38
360 37 0.07
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (356 bp):
AAATCTGCTCCATTGCCGATACATGAAGATAAGATTACCATCTGCGAAGATCTACTCCACTGCAA
CTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCA
TTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGC
TGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAA
ATCTTCAATTCTCAGTCCGCTTCCTTGCAACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTC
TCCTGCTACCTCAGAGAGATAAGGCTTAGTA
Found at i:89907883 original size:26 final size:25
Alignment explanation
Indices: 89907841--89907897 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
89907831 CAAAGCTTGT
* *
89907841 TTTTTCTTATATTATGTACTT-TAAA
1 TTTTTATTATATCATGTA-TTCTAAA
*
89907866 TTTTTATTATCATCATGTATTCTAAG
1 TTTTTATTAT-ATCATGTATTCTAAA
89907892 TTTTTA
1 TTTTTA
89907898 CATATTTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (25 bp):
TTTTTATTATATCATGTATTCTAAA
Found at i:89915069 original size:2 final size:2
Alignment explanation
Indices: 89915062--89915093 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
89915052 ACAAGTAACA
89915062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89915094 GAAAAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89919853 original size:19 final size:20
Alignment explanation
Indices: 89919831--89919878 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
89919821 TTTTCAAAAA
*
89919831 TTTTAAATA-TTCTAATTTT
1 TTTTAAATAGTTATAATTTT
*
89919850 TTTTGAAATAGTTATACTTTT
1 TTTT-AAATAGTTATAATTTT
*
89919871 TTTAAAAT
1 TTTTAAAT
89919879 TTTGATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 11 0.46
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTAAATAGTTATAATTTT
Found at i:89924504 original size:25 final size:23
Alignment explanation
Indices: 89924452--89924506 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
89924442 TATAAATAGT
89924452 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
89924475 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
89924500 AATAGTG
1 AATAGTG
89924507 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:89924625 original size:22 final size:24
Alignment explanation
Indices: 89924567--89924658 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 24
89924557 AATAGATATA
* *
89924567 AAAAAAATATACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
89924591 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
89924615 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
* *
89924640 AGAAAAAATATATATAATA
1 A-AAAATATATACATAATA
89924659 ATATAGTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
22 16 0.30
23 1 0.02
24 3 0.06
25 20 0.37
27 14 0.26
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.28
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:89924687 original size:23 final size:21
Alignment explanation
Indices: 89924649--89924702 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
89924639 TAGAAAAAAT
*
89924649 ATATATAATAATATAGTATTAAAG
1 ATATAT-ATAAAATAGTA-T-AAG
*
89924673 ATATATATAAAATAGTATAAT
1 ATATATATAAAATAGTATAAG
89924694 ATATATATA
1 ATATATATA
89924703 CGTAATATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.39
22 1 0.04
23 10 0.36
24 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (21 bp):
ATATATATAAAATAGTATAAG
Found at i:89924698 original size:47 final size:48
Alignment explanation
Indices: 89924642--89924776 Score: 118
Period size: 47 Copynumber: 2.9 Consensus size: 48
89924632 TAACATGTAG
*
89924642 AAAAAATATATATA-ATAATATAGTATTAAAGATATATATAAAATAGT
1 AAAAGATATATATACATAATATAGTATTAAAGATATATATAAAATAGT
* * * * * * *
89924689 ATAATATATATATACGTAATATAGAATT-TAGA-ATATACCTAATATATT
1 AAAAGATATATATACATAATATAGTATTAAAGATATATA--TAAAATAGT
* * *
89924737 AAAAGA-ATATATATATAATATAATATTAAAAATATA-ATAA
1 AAAAGATATATATACATAATATAGTATTAAAGATATATATAA
89924777 TAAAAAAAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
46 8 0.12
47 32 0.47
48 25 0.37
49 3 0.04
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (48 bp):
AAAAGATATATATACATAATATAGTATTAAAGATATATATAAAATAGT
Found at i:89924770 original size:14 final size:14
Alignment explanation
Indices: 89924753--89924782 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89924743 ATATATATAT
*
89924753 AATATAATATTAAA
1 AATATAATAATAAA
89924767 AATATAATAATAAA
1 AATATAATAATAAA
89924781 AA
1 AA
89924783 AAAAAGAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATAATAATAAA
Found at i:89925278 original size:30 final size:30
Alignment explanation
Indices: 89925242--89925309 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
89925232 AGGTACAAGT
89925242 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
* *
89925272 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
89925302 GGTGGTGG
1 GGTGGTGG
89925310 CAAAGGCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
Found at i:89926095 original size:87 final size:87
Alignment explanation
Indices: 89925944--89926149 Score: 245
Period size: 87 Copynumber: 2.4 Consensus size: 87
89925934 TCCTGAGCTT
* * *
89925944 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
1 AACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
* *
89926009 GCTCAGCACGTGAGCCAAGGCTC
65 CCTCAGCACGTGACCCAAGGCTC
* **
89926032 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAAC-AAA-ATTTGTAAAACAGATTTTGAAAAT
1 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-TT-AAAAACAGAAATTGAAAAT
* * * *
89926095 ACCTCGGTATGTGACCCGAGGCTC
64 ACCTCAGCACGTGACCCAAGGCTC
* *
89926119 AACTCACCTCTCGTAATATGAGTTGATTTTT
1 AACTCACTTCTCGCAATATGAGTTGATTTTT
89926150 GCAAAGCATA
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 72 0.71
88 24 0.24
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (87 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATAC
CTCAGCACGTGACCCAAGGCTC
Found at i:89926372 original size:13 final size:14
Alignment explanation
Indices: 89926340--89926372 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
89926330 TGATTTTTTG
89926340 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
89926354 GAAAAACAGAATTT
1 GAAAAACAAAATTT
89926368 GAAAA
1 GAAAA
89926373 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:89926425 original size:91 final size:87
Alignment explanation
Indices: 89926187--89926536 Score: 386
Period size: 86 Copynumber: 4.0 Consensus size: 87
89926177 AATAAAAATC
* *
89926187 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTAAAAATACCTCAGCGTGT-A--TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* * *
89926252 TTGACAAACATAAATTG-AAAAGA-
63 TTGAAAAACAGAAATTGAAAAACAG
* * * *
89926275 AATTAAAAATATCTCAGCGTGTCCTGA-GCTTGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTAAAAATACCTCAGCGTGT-ATGAGGC-TCAACTCACCTCTCGCAATATGAGCTGATTTTTT
*
89926339 GGAAAAACA-AAATTTGAAAAACAG
64 TGAAAAACAGAAA-TTGAAAAACAG
* * *
89926363 AATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTT
1 AA-TTAAAAATACCTCAGCGTGT-A-T-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
* *
89926428 TTTGAAACACAGAAATTGAAGAACAG
62 TTTGAAAAACAGAAATTGAAAAACAG
* * * *
89926454 AAATAAAAACACCTCAGCGTCT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTT
1 AATTAAAAATACCTCAGCGTGTATGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTT
*
89926518 GAAAGACAGAAATTGAAAA
65 GAAAAACAGAAATTGAAAA
89926537 TACCTCAACG
Statistics
Matches: 224, Mismatches: 28, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
85 5 0.02
86 76 0.34
87 30 0.13
88 22 0.10
89 18 0.08
90 17 0.08
91 51 0.23
92 5 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (87 bp):
AATTAAAAATACCTCAGCGTGTATGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG
AAAAACAGAAATTGAAAAACAG
Found at i:89926490 original size:177 final size:176
Alignment explanation
Indices: 89926189--89926515 Score: 482
Period size: 177 Copynumber: 1.8 Consensus size: 176
89926179 TAAAAATCAA
* * *
89926189 TTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
* * * *
89926254 GACAAACATAAATTGAAAAGAAATTAAAAATATCTCAGCGTGTCCTGAGCTTGAACTCACCTCTC
66 GACAAACAGAAATTGAAAAGAAATTAAAAACACCTCAGCG-GTCCTGAGCTTCAACTCACCTCTC
*
89926319 GCAATATGAGTTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
130 GCAATATGAGCTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
89926366 TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
1 TTGAAAATACCTCAGCGTGTGA-TCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
* *
89926430 TGA-AACACAGAAATTGAAGAACAGAAA-TAAAAACACCTCAGC-GTCTTGAGGTTCAACTCACC
65 TGACAA-ACAGAAATTG-A-AA-AGAAATTAAAAACACCTCAGCGGTCCTGAGCTTCAACTCACC
89926492 TCTCGCAATATGAGCTGATTTTTT
126 TCTCGCAATATGAGCTGATTTTTT
89926516 TTGAAAGACA
Statistics
Matches: 135, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
176 2 0.01
177 110 0.81
178 3 0.02
179 15 0.11
180 5 0.04
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (176 bp):
TTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
GACAAACAGAAATTGAAAAGAAATTAAAAACACCTCAGCGGTCCTGAGCTTCAACTCACCTCTCG
CAATATGAGCTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
Found at i:89926720 original size:75 final size:75
Alignment explanation
Indices: 89926443--89926855 Score: 511
Period size: 73 Copynumber: 5.6 Consensus size: 75
89926433 AACACAGAAA
* * *
89926443 TTGAAGAACAGAAA-TAAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
89926505 GCTGATTTTTT
66 GTTGA-TTTTT
* * *
89926516 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
89926581 GTTGA--TTT
66 GTTGATTTTT
* * * *
89926589 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
89926652 GTTGATTTTT
66 GTTGATTTTT
* * * *
89926662 TTGAAAAACAGAAATTGAAAACACATCAACGAGTCTTGAGGTTCAACTAACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
89926727 GCTGATTTTT
66 GTTGATTTTT
* * * *
89926737 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
89926802 GTTGA--TTT
66 GTTGATTTTT
* * * * * * *
89926810 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAA
89926856 GTTGATTTTT
Statistics
Matches: 295, Mismatches: 38, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
71 37 0.13
72 1 0.00
73 105 0.36
74 11 0.04
75 104 0.35
76 37 0.13
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:89926984 original size:74 final size:73
Alignment explanation
Indices: 89926864--89927033 Score: 241
Period size: 74 Copynumber: 2.3 Consensus size: 73
89926854 AAGTTGATTT
* * *
89926864 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAATAT
1 TTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATAT
89926929 GAGTTGAG
66 GAGTTGAG
* *
89926937 TTTTGACAAACAAAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATA
1 TTTTGAAAAACAAAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATA
*
89927002 TGAGTTGAT
65 TGAGTTGAG
* * * *
89927011 TTTTTAGAAACATAAATTAAAAA
1 TTTTGAAAAACAAAAATTGAAAA
89927034 AACGAAAATT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 21 0.24
74 65 0.76
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (73 bp):
TTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATAT
GAGTTGAG
Found at i:89927238 original size:14 final size:13
Alignment explanation
Indices: 89927203--89927247 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
89927193 TTGATTTTTG
89927203 AAAAACAGAAATT
1 AAAAACAGAAATT
*
89927216 AAAAGCAGAAATT
1 AAAAACAGAAATT
89927229 GAAAAACAGAAATT
1 -AAAAACAGAAATT
89927243 AAAAA
1 AAAAA
89927248 TACCTCGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:89927328 original size:100 final size:100
Alignment explanation
Indices: 89927031--89927333 Score: 427
Period size: 99 Copynumber: 3.0 Consensus size: 100
89927021 CATAAATTAA
*
89927031 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
89927095 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
64 TGATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
89927130 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
89927195 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
65 GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* * *
89927230 AAAAACAGAAATTAAAAATACCTC-GACGTGCCCGTGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAG-CGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* **
89927294 GATTTTTGAAAAGCATAAATTGAAAAAAAAAAATTG
65 GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
89927330 AAAA
1 AAAA
89927334 TACCTCAGCG
Statistics
Matches: 184, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
98 2 0.01
99 110 0.60
100 57 0.31
101 15 0.08
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.23
Consensus pattern (100 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
Found at i:89927389 original size:89 final size:86
Alignment explanation
Indices: 89927216--89927389 Score: 224
Period size: 89 Copynumber: 2.0 Consensus size: 86
89927206 AACAGAAATT
* * * * *
89927216 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGACGTGCCCGTGGCTCAGCTCACCTCT
1 AAAAGCAGAAATTGAAAAAAAAAAATTAAAAATACCTCGACGTGCCCGAGGCCCAACTCACCTCT
89927281 CGCAATATGAGTTGATTTTTG
66 CGCAATATGAGTTGATTTTTG
* * *
89927302 AAAAGCATAAATTGAAAAAAAAAAATTGAAAATACCTC-AGCGTGTGACCTGAGGCCCAACTCAC
1 AAAAGCAGAAATTGAAAAAAAAAAATTAAAAATACCTCGA-C--GTG-CCCGAGGCCCAACTCAC
*
89927366 TTCTCGCAATATGAGTTGATTTTT
62 CTCTCGCAATATGAGTTGATTTTT
89927390 TTGAAAGATA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 1 0.01
86 35 0.47
88 3 0.04
89 36 0.48
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (86 bp):
AAAAGCAGAAATTGAAAAAAAAAAATTAAAAATACCTCGACGTGCCCGAGGCCCAACTCACCTCT
CGCAATATGAGTTGATTTTTG
Found at i:89939363 original size:2 final size:2
Alignment explanation
Indices: 89939356--89939380 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89939346 TGTACGTAAA
89939356 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
89939381 AATAGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89939439 original size:25 final size:23
Alignment explanation
Indices: 89939387--89939441 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
89939377 TATAAATAGT
89939387 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
89939410 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
89939435 AATAGTG
1 AATAGTG
89939442 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:89939613 original size:25 final size:25
Alignment explanation
Indices: 89939507--89939713 Score: 105
Period size: 23 Copynumber: 8.6 Consensus size: 25
89939497 ATATAAAAAA
* * * *
89939507 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
89939532 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
89939554 ATATATACATAAGATAACATGTAGAAAAA
1 ATATATACAT-A-AT-ATA-GTATTAAAG
* *
89939583 AAATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
89939608 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
89939631 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
89939655 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
89939677 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
89939702 A-ATATA-ATAATA
1 ATATATACATAATA
89939714 ACAAAAAAAA
Statistics
Matches: 139, Mismatches: 30, Indels: 29
0.70 0.15 0.15
Matches are distributed among these distances:
21 1 0.01
22 17 0.12
23 42 0.30
24 19 0.14
25 39 0.28
26 6 0.04
27 2 0.01
28 5 0.04
29 8 0.06
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:89939619 original size:29 final size:28
Alignment explanation
Indices: 89939515--89939620 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 28
89939505 AAATATGTAC
* *
89939515 ATAATATAGT-GTAAAA-A-ATACATAC
1 ATAATATAGTATTAAAATATATACATAA
89939540 ATAATATA--ATTAAAATATATACATAA
1 ATAATATAGTATTAAAATATATACATAA
* * * *
89939566 GATAACAT-GTA-GAAAA-A-AAATATAA
1 -ATAATATAGTATTAAAATATATACATAA
89939591 ATAATATAGTATTAAAGATATATACATAA
1 ATAATATAGTATTAAA-ATATATACATAA
89939620 A
1 A
89939621 ATAGTATAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 18
0.68 0.11 0.20
Matches are distributed among these distances:
24 11 0.18
25 18 0.30
26 11 0.18
27 11 0.18
28 2 0.03
29 7 0.12
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:89940209 original size:30 final size:30
Alignment explanation
Indices: 89940173--89940270 Score: 178
Period size: 30 Copynumber: 3.3 Consensus size: 30
89940163 AGGTACAAGT
*
89940173 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
89940203 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
89940233 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
89940263 GGTGGTGG
1 GGTGGTGG
89940271 CAAAGGCTAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:89940230 original size:18 final size:18
Alignment explanation
Indices: 89940207--89940260 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
89940197 GGAGTAGGTG
89940207 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
89940225 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
89940237 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
89940255 GTGGAG
1 GTGGAG
89940261 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:89945911 original size:19 final size:22
Alignment explanation
Indices: 89945872--89945911 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
89945862 AGAAACCCAA
89945872 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
89945894 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
89945912 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:89946028 original size:28 final size:27
Alignment explanation
Indices: 89945973--89946086 Score: 99
Period size: 27 Copynumber: 4.2 Consensus size: 27
89945963 AGCATGGCTG
*
89945973 CCAG-AACAGATAATGTGACAGAGTCA
1 CCAGAAACAGATAATGTGACAGAGCCA
* * *
89945999 CCAGAAATAGATAATCGTGCCAGAACCA
1 CCAGAAACAGATAAT-GTGACAGAGCCA
*
89946027 CCAG-AACAGATATATGTGGCAGAGCCA
1 CCAGAAACAGATA-ATGTGACAGAGCCA
* * * *
89946054 CCAG-ATCAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATA-ATGTGACAGAGCCA
89946081 CCAGAA
1 CCAGAA
89946087 CGCTTCCTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.05
27 54 0.73
28 16 0.22
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGAAACAGATAATGTGACAGAGCCA
Found at i:89947743 original size:26 final size:25
Alignment explanation
Indices: 89947704--89947813 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 25
89947694 CATGAAATTC
89947704 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
89947730 TTATCATGATACATTTACCTAACCCA
1 TTATCATGA-ACATTTACCTAACCCA
*
89947756 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
*
89947782 TTATCATTGAACATTTACCTAACCTA
1 TTATCA-TGAACATTTACCTAACCCA
89947808 TTATCA
1 TTATCA
89947814 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
25 1 0.01
26 76 0.95
27 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:89957179 original size:4 final size:4
Alignment explanation
Indices: 89957172--89957197 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
89957162 AAAAAAAAGT
89957172 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
89957198 CAATATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:89957536 original size:25 final size:24
Alignment explanation
Indices: 89957490--89957536 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
89957480 AATTATAGGG
* *
89957490 TAAAATTAAAATAAATAGATAATA
1 TAAAATTAAAATAAAAAAATAATA
*
89957514 TAAAATTGAAATTAAAAAAATAA
1 TAAAATT-AAAATAAAAAAATAA
89957537 AGGATTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (24 bp):
TAAAATTAAAATAAAAAAATAATA
Found at i:89957777 original size:311 final size:310
Alignment explanation
Indices: 89957187--89957819 Score: 975
Period size: 311 Copynumber: 2.0 Consensus size: 310
89957177 ATAAATAAAT
* * *
89957187 AAATAAATAAACAATATAAAATTGAAATTAAATAGACAGGATTTAATTGAAATCTAAACGAAATT
1 AAATAAATAAACAATATAAAATTGAAATTAAAAAGAAAGGATTTAAATGAAATCTAAACGAAATT
* *
89957252 AGGGGGTCATAAATTGCAAAAATAATAAAAAATAGATTGATAAGGATCAATGTGCAACGCGTTAA
66 AGGGGGTCATAAATTGC-AAAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTAA
* *
89957317 AAAGGATAGGGACTGAATAGAAAAATATCCCTTGTCTTTATGTACACCATTTCCCAAAAGGACTA
130 AAAAGATAGGGACCGAATAGAAAAATATCCCTTGTCTTTATGTACACCATTTCCCAAAAGGACTA
* *
89957382 AAATATAGCACACGTGAAAGTGCGAGGACCAATTGGGAAATTATTTATTGTCCCCAAAACGAAGT
195 AAATATAGCACACGTGAAAGTGCGAGGACCAATTGGGAAATTATTCACTGTCCCCAAAACGAAGT
* *
89957447 CATTCTCCAGGGTGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
260 CATTCTCCAAGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
* * * *
89957498 AAATAAATAGATAATATAAAATTGAAATTAAAAAAATAAAGGATTTAAATGAAATCTAAATGAAA
1 AAATAAATAAACAATATAAAATTGAAATT--AAAAAGAAAGGATTTAAATGAAATCTAAACGAAA
89957563 TTAGGGGGTCATAAATTGC-AAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTA
64 TTAGGGGGTCATAAATTGCAAAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTA
* * * *
89957627 AAAAAGATAGGGACCGAATAGGAAAATATCTCTTGTCTTTATGTATACCATTTCCTAAAAGGACT
129 AAAAAGATAGGGACCGAATAGAAAAATATCCCTTGTCTTTATGTACACCATTTCCCAAAAGGACT
* * * * *
89957692 AAAATATAGCACACGTGAAAGTGCGGGGACTAATTGGGAAATTATTCCCTGTCCCCAAGATGAAG
194 AAAATATAGCACACGTGAAAGTGCGAGGACCAATTGGGAAATTATTCACTGTCCCCAAAACGAAG
*
89957757 TCGTTC-CCTAAGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
259 TCATTCTCC-AAGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
*
89957809 AAAGAAA-AAAC
1 AAATAAATAAAC
89957820 GAAATATGAC
Statistics
Matches: 291, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
310 4 0.01
311 239 0.82
313 48 0.16
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (310 bp):
AAATAAATAAACAATATAAAATTGAAATTAAAAAGAAAGGATTTAAATGAAATCTAAACGAAATT
AGGGGGTCATAAATTGCAAAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTAAA
AAAGATAGGGACCGAATAGAAAAATATCCCTTGTCTTTATGTACACCATTTCCCAAAAGGACTAA
AATATAGCACACGTGAAAGTGCGAGGACCAATTGGGAAATTATTCACTGTCCCCAAAACGAAGTC
ATTCTCCAAGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
Found at i:89960325 original size:21 final size:22
Alignment explanation
Indices: 89960299--89960351 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
89960289 ATCATTGATC
89960299 TATTTTTTTAT-ATGTTTT-CTT
1 TATTTTTTTATCA-GTTTTACTT
89960320 TATTTTCTTT-TCAGTTTTACTT
1 TATTTT-TTTATCAGTTTTACTT
89960342 T-TTTTTTTAT
1 TATTTTTTTAT
89960352 TTTTAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.11
21 17 0.61
22 8 0.29
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (22 bp):
TATTTTTTTATCAGTTTTACTT
Found at i:89963020 original size:242 final size:242
Alignment explanation
Indices: 89962595--89963078 Score: 959
Period size: 242 Copynumber: 2.0 Consensus size: 242
89962585 TTCAAATTTA
89962595 TAATGATAGATAAAGTCTAGGAGGATTCTTTACTGGGTATTGTTTAGCTTCTTGGTTATTATTCA
1 TAATGATAGATAAAGTCTAGGAGGATTCTTTACTGGGTATTGTTTAGCTTCTTGGTTATTATTCA
89962660 GTTAAATTCCTGATTTATTCTTTACTAAGTTCTTTAGTTAATTAATTTAGTAGATTTTAGTTTAA
66 GTTAAATTCCTGATTTATTCTTTACTAAGTTCTTTAGTTAATTAATTTAGTAGATTTTAGTTTAA
89962725 ATCAATCACTCCAATTTGTCGGTTAAATAATATGAAAATGATAATGACTAGTACTTTTAGTCATC
131 ATCAATCACTCCAATTTGTCGGTTAAATAATATGAAAATGATAATGACTAGTACTTTTAGTCATC
89962790 GTGGATACGATATCTTTACTCACCGTAGCTATACTATCTACCGATAG
196 GTGGATACGATATCTTTACTCACCGTAGCTATACTATCTACCGATAG
89962837 TAATGATAGATAAAGTCTAGGAGGATTCTTTACTGGGTATTGTTTAGCTTCTTGGTTATTATTCA
1 TAATGATAGATAAAGTCTAGGAGGATTCTTTACTGGGTATTGTTTAGCTTCTTGGTTATTATTCA
89962902 GTTAAATTCCTGATTTATTCTTTACTAAGTTCTTTAGTTAATTAATTTAGTAGATTTTAGTTTAA
66 GTTAAATTCCTGATTTATTCTTTACTAAGTTCTTTAGTTAATTAATTTAGTAGATTTTAGTTTAA
89962967 ATCAATCACTCCAATTTGTCGGTTAAATAATATGAAAATGATAATGACTAGTACTTTTAGTCATC
131 ATCAATCACTCCAATTTGTCGGTTAAATAATATGAAAATGATAATGACTAGTACTTTTAGTCATC
*
89963032 GTGGATATGATATCTTTACTCACCGTAGCTATACTATCTACCGATAG
196 GTGGATACGATATCTTTACTCACCGTAGCTATACTATCTACCGATAG
89963079 GTGCACTTGC
Statistics
Matches: 241, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
242 241 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (242 bp):
TAATGATAGATAAAGTCTAGGAGGATTCTTTACTGGGTATTGTTTAGCTTCTTGGTTATTATTCA
GTTAAATTCCTGATTTATTCTTTACTAAGTTCTTTAGTTAATTAATTTAGTAGATTTTAGTTTAA
ATCAATCACTCCAATTTGTCGGTTAAATAATATGAAAATGATAATGACTAGTACTTTTAGTCATC
GTGGATACGATATCTTTACTCACCGTAGCTATACTATCTACCGATAG
Found at i:89964095 original size:43 final size:43
Alignment explanation
Indices: 89964038--89964181 Score: 200
Period size: 43 Copynumber: 3.3 Consensus size: 43
89964028 TTTATGTAAG
*
89964038 AAAACGCCGCTAAAGAACGTGACCTTTAGCTGCGCTTTTTGTA
1 AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTA
* *
89964081 AAAACACCACTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTA
1 AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTA
* * * *
89964124 CAAATGCCGCTAAAGAACTTGACCTTTAGCGGCGCTTTTCT-TC
1 AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTT-TGTA
*
89964167 AAAACGTCGCTAAAG
1 AAAACGCCGCTAAAG
89964182 GTCACGTTCT
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 87 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTA
Found at i:89964222 original size:86 final size:85
Alignment explanation
Indices: 89964039--89964223 Score: 196
Period size: 86 Copynumber: 2.2 Consensus size: 85
89964029 TTATGTAAGA
*
89964039 AAACGCCGCTAAAGAACGTGACCTTTAGCTGCGCTTTTTGTAAAAACACCACTAAAGAACGTGAC
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTAAAAACACCACTAAAGAACGT-AC
* *
89964104 CTTTAGCGGCGCTTTTTGTAC
65 CTTTAGCGGCACTTTTTATAC
* * * ** * *
89964125 AAATGCCGCTAAAGAACTTGACCTTTAGCGGCGCTTTTCT-TCAAAACGTCGCTAAAGGTCACGT
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTT-TGTAAAAACACCACTAAA-G-AACGT
*
89964189 -TCTTTAGCGGCAC-TTTTATAGC
63 ACCTTTAGCGGCACTTTTTATA-C
*
89964211 AAACGCTGCTAAA
1 AAACGCCGCTAAA
89964224 TAATTAGCGG
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
85 6 0.07
86 70 0.85
87 2 0.02
88 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTAAAAACACCACTAAAGAACGTACC
TTTAGCGGCACTTTTTATAC
Found at i:89964420 original size:47 final size:47
Alignment explanation
Indices: 89964351--89964441 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
89964341 AATCCTTCCT
*
89964351 GCAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
1 GCAACAGCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
89964398 GCAACAGCAAATCCAACCAATAACAGCAAATCTAAATGATACTT
1 GCAACAGCAAATCCAACCAATAACAGCAAATCTAAATGATACTT
89964442 TAAAAATTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.48, C:0.25, G:0.08, T:0.19
Consensus pattern (47 bp):
GCAACAGCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
Found at i:89965079 original size:13 final size:14
Alignment explanation
Indices: 89965053--89965081 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
89965043 ACTAACGACG
89965053 AATTAAACCATTAT
1 AATTAAACCATTAT
89965067 AATTAAA-CATTAT
1 AATTAAACCATTAT
89965080 AA
1 AA
89965082 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:89968404 original size:12 final size:12
Alignment explanation
Indices: 89968389--89968414 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
89968379 ATCATCCTCT
89968389 TCATCAGATTCA
1 TCATCAGATTCA
89968401 TCATCAGATTCA
1 TCATCAGATTCA
89968413 TC
1 TC
89968415 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:89970141 original size:9 final size:9
Alignment explanation
Indices: 89970127--89970205 Score: 72
Period size: 9 Copynumber: 8.6 Consensus size: 9
89970117 TATTTATGTA
89970127 TTATGTAAG
1 TTATGTAAG
*
89970136 TTATGTGAG
1 TTATGTAAG
89970145 TTATGTAAG
1 TTATGTAAG
*
89970154 TTATGATATATAT
1 TTATG---TA-AG
89970167 TTATGTAA-
1 TTATGTAAG
89970175 -TATGTAAG
1 TTATGTAAG
*
89970183 TTATGTAAA
1 TTATGTAAG
*
89970192 CTATGTAAG
1 TTATGTAAG
89970201 TTATG
1 TTATG
89970206 AAATTTAAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
7 7 0.12
9 40 0.70
10 2 0.04
12 2 0.04
13 6 0.11
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:89970167 original size:47 final size:47
Alignment explanation
Indices: 89970084--89970206 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
89970074 TAAGTATAAT
* * * * *
89970084 TAAGTTATATAAATTATGATATGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAACTATG-TAAGTTATGATATATATTTATGTAATATG
* **
89970132 TAAGTTATGTGAGTTATGTAAGTTATGATATATATTTATGTAATATG
1 TAAGTTATGTAAACTATGTAAGTTATGATATATATTTATGTAATATG
89970179 TAAGTTATGTAAACTATGTAAGTTATGA
1 TAAGTTATGTAAACTATGTAAGTTATGA
89970207 AATTTAAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 51 0.77
48 15 0.23
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (47 bp):
TAAGTTATGTAAACTATGTAAGTTATGATATATATTTATGTAATATG
Found at i:89973961 original size:16 final size:16
Alignment explanation
Indices: 89973940--89973993 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
89973930 AGAATTAGAT
89973940 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
89973956 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
89973966 AAAATTTGAAATCTTT
1 AAAATTTGAAATCTTG
89973982 AAAATTTGAAAT
1 AAAATTTGAAAT
89973994 TATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:89974176 original size:7 final size:7
Alignment explanation
Indices: 89974164--89974324 Score: 101
Period size: 7 Copynumber: 22.4 Consensus size: 7
89974154 TCTAATTCTA
89974164 AAACCAT
1 AAACCAT
89974171 AAACCAT
1 AAACCAT
89974178 AAACCAT
1 AAACCAT
*
89974185 AAATCAT
1 AAACCAT
*
89974192 AAATCCTT
1 AAA-CCAT
*
89974200 AAACCCT
1 AAACCAT
89974207 AAAATCC-T
1 -AAA-CCAT
**
89974215 AAACCCC
1 AAACCAT
* *
89974222 AACCCTT
1 AAACCAT
89974229 AAACCAT
1 AAACCAT
89974236 AAACCAT
1 AAACCAT
*
89974243 AATTCC-T
1 AA-ACCAT
89974250 AAACTCAT
1 AAAC-CAT
*
89974258 AATCCAT
1 AAACCAT
*
89974265 AATCCAT
1 AAACCAT
*
89974272 AATCCAT
1 AAACCAT
*
89974279 AATCCAT
1 AAACCAT
*
89974286 AAACCTT
1 AAACCAT
**
89974293 AAAATAT
1 AAACCAT
*
89974300 TAACTCAT
1 AAAC-CAT
89974308 AAACCAT
1 AAACCAT
*
89974315 AAACCCT
1 AAACCAT
89974322 AAA
1 AAA
89974325 AGATATGCCC
Statistics
Matches: 123, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
6 3 0.02
7 98 0.80
8 20 0.16
9 2 0.02
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (7 bp):
AAACCAT
Found at i:89974194 original size:29 final size:28
Alignment explanation
Indices: 89974164--89974324 Score: 101
Period size: 29 Copynumber: 5.6 Consensus size: 28
89974154 TCTAATTCTA
89974164 AAACCATAAACCATAAACCATAAATCAT
1 AAACCATAAACCATAAACCATAAATCAT
* * * **
89974192 AAATCCTTAAACCCTAAAATCC-TAAACCCC
1 AAA-CCATAAACCAT-AAA-CCATAAATCAT
* * * *
89974222 AACCCTTAAACCATAAACCATAATTCCT
1 AAACCATAAACCATAAACCATAAATCAT
* *
89974250 AAACTCATAATCCATAATCCAT-AATCCAT
1 AAAC-CATAAACCATAAACCATAAAT-CAT
* * ** *
89974279 AATCCATAAACCTTAAAATATTAACTCAT
1 AAACCATAAACCATAAACCA-TAAATCAT
*
89974308 AAACCATAAACCCTAAA
1 AAACCATAAACCATAAA
89974325 AGATATGCCC
Statistics
Matches: 100, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
27 2 0.02
28 27 0.27
29 57 0.57
30 12 0.12
31 2 0.02
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (28 bp):
AAACCATAAACCATAAACCATAAATCAT
Found at i:89974352 original size:14 final size:14
Alignment explanation
Indices: 89974283--89974352 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
89974273 ATCCATAATC
*
89974283 CATAAACCTTAAAA
1 CATAAACCCTAAAA
* * * *
89974297 TATTAACTCATAAAC
1 CATAAAC-CCTAAAA
89974312 CATAAACCCTAAAA
1 CATAAACCCTAAAA
* **
89974326 GATATGCCCTAAAA
1 CATAAACCCTAAAA
*
89974340 CATAAACCTTAAA
1 CATAAACCCTAAA
89974353 CTATAATGAT
Statistics
Matches: 40, Mismatches: 15, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
14 30 0.75
15 10 0.25
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (14 bp):
CATAAACCCTAAAA
Found at i:89974868 original size:40 final size:40
Alignment explanation
Indices: 89974801--89974879 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
89974791 CGCCATTAAT
* *
89974801 GCTCGATCTATAGAGACATTTTTCAAAAAGCGCCGCTAAA
1 GCTCGATCCATAGAGACATTTTCCAAAAAGCGCCGCTAAA
*
89974841 GCTCGATCCATAGCAG-CGTTTTCCAAAAAGCGCCGCTAA
1 GCTCGATCCATAG-AGACATTTTCCAAAAAGCGCCGCTAA
89974880 TGTCACTAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 33 0.94
41 2 0.06
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (40 bp):
GCTCGATCCATAGAGACATTTTCCAAAAAGCGCCGCTAAA
Found at i:89975913 original size:19 final size:20
Alignment explanation
Indices: 89975889--89975928 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
89975879 GTATTCATTA
89975889 TATTA-TTATCGTT-TTATTT
1 TATTATTTAT-GTTGTTATTT
89975908 TATTATTTATGTTGTTATTT
1 TATTATTTATGTTGTTATTT
89975928 T
1 T
89975929 GTTAATGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (20 bp):
TATTATTTATGTTGTTATTT
Found at i:89988547 original size:89 final size:89
Alignment explanation
Indices: 89988346--89988581 Score: 271
Period size: 89 Copynumber: 2.6 Consensus size: 89
89988336 CGGAAATTGT
* * * *
89988346 AGGTTAATATGCTAACAAATGGTTGTGAATGCGCAACT-TATTTGCAAATGAA-AGCTGCCAAAA
1 AGGTTAATATGCTGACAAATGGTTGTGAATGCACAA-TGTATTTGTAGAT-AAGAGCTGCCAAAA
*
89988409 TGTGGGCGGATGAACTAACAATGTTGC
64 -GTGGGCGGATGAACCAACAATGTTGC
* * * * *
89988436 AGGTTAATATGCGGCCAGATGGTTGTAAATGCACAATGTATTTGTAGATAAGAGCTGCTACAAA-
1 AGGTTAATATGCTGACAAATGGTTGTGAATGCACAATGTATTTGTAGATAAGAGCTGCCA-AAAG
* * *
89988500 TGGGTGGATGAACCACCAGTGTTGC
65 TGGGCGGATGAACCAACAATGTTGC
* * *
89988525 AGGTTAATATACTGTCAAATGGTTGTGAATGTACAATGTATTTGTAGATAAGAGCTG
1 AGGTTAATATGCTGACAAATGGTTGTGAATGCACAATGTATTTGTAGATAAGAGCTG
89988582 TCAAGAAAAT
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
89 75 0.60
90 46 0.37
91 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (89 bp):
AGGTTAATATGCTGACAAATGGTTGTGAATGCACAATGTATTTGTAGATAAGAGCTGCCAAAAGT
GGGCGGATGAACCAACAATGTTGC
Found at i:89990944 original size:22 final size:20
Alignment explanation
Indices: 89990906--89990953 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
89990896 TAGTTAAACC
* *
89990906 TTTT-AAAAATATTTTAACTT
1 TTTTAAAAAATATGTTAA-TA
89990926 TTTTAAAAAATTATGTTAATA
1 TTTTAAAAAA-TATGTTAATA
89990947 TTTTAAA
1 TTTTAAA
89990954 TTTAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 7 0.29
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTTAAAAAATATGTTAATA
Found at i:89992665 original size:23 final size:23
Alignment explanation
Indices: 89992639--89992686 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
89992629 ACTTAAATTT
89992639 TAAAATATAAAAAATAAAAAAAA
1 TAAAATATAAAAAATAAAAAAAA
* *
89992662 TAAAATCTTAAAAATAAAAAAAA
1 TAAAATATAAAAAATAAAAAAAA
89992685 TA
1 TA
89992687 CAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (23 bp):
TAAAATATAAAAAATAAAAAAAA
Found at i:89993102 original size:33 final size:34
Alignment explanation
Indices: 89993042--89993111 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
89993032 GTTTATTAAG
*
89993042 ATATAAATAGTATTAAAAATATTTTTTAAAATATT
1 ATATAAATAGTATTAAAAATATATTTTAAAAT-TT
*
89993077 ATATTAAT-GTATT-AAAATATATTTTAAAATTT
1 ATATAAATAGTATTAAAAATATATTTTAAAATTT
89993109 ATA
1 ATA
89993112 CCGTTTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 5 0.15
33 16 0.48
34 5 0.15
35 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (34 bp):
ATATAAATAGTATTAAAAATATATTTTAAAATTT
Found at i:89996700 original size:6 final size:6
Alignment explanation
Indices: 89996683--89996733 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
89996673 CATTAAACAA
* *
89996683 AAAAAT AGAAAT AAAAAT AAAACT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
89996731 AAA
1 AAA
89996734 TTTAAAAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:89996703 original size:24 final size:24
Alignment explanation
Indices: 89996677--89996728 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
89996667 AAAATACATT
*
89996677 AAACAAAAAAATAGAAATAAAAATA
1 AAAC-AAAAAATAAAAATAAAAATA
*
89996702 AAACTAAAAATAAAAATAAAAATA
1 AAACAAAAAATAAAAATAAAAATA
89996726 AAA
1 AAA
89996729 ATAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (24 bp):
AAACAAAAAATAAAAATAAAAATA
Found at i:90000072 original size:3 final size:3
Alignment explanation
Indices: 90000052--90000838 Score: 152
Period size: 3 Copynumber: 262.7 Consensus size: 3
90000042 ACATAGTTTT
* * * * * *
90000052 TTA TT- TTA TTA TTT TTA TTA TTT TCTA TTA TTG TCA TTA CTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* *
90000097 TATA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TT- TCTA TTTA CATG
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA -TTA
* * * * * * *
90000144 TTA TCA TTTC TTT TTC TTT TTA TTA CGTTC TTA TTA TTA CTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA
* * ** *
90000192 TAA TTT TTA TT- TTA TTA TTA TTA ACA TTA GTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* ** * * * * *
90000237 TCT- TTA TTA TCA TTA TCG TTC TTA TAA TTA TTA TAA CTA TTA TTC
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * * *
90000282 CTA CTA TTA TTTA ACA TGCTA TAA TTA TTA TTA TCA TTA TTA CTA TTA
1 TTA TTA TTA -TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
90000330 GTA -TA TT- TTCA TCTA -TA TTTA TT- TTA TCTA AT- TTA TT- TTC CTA
1 TTA TTA TTA TT-A T-TA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * *
90000373 -TA TTT TTA TTA TTA TTA -TA TT- TTA -AA GTA TTA TATC TCTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA
** * * * * *
90000415 TATA TTTA TGTA CCA ATA TCA TTA TT- TTA CTA TCA CTA TT- TT- TTA
1 T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * * * *
90000460 TTA TCA TTA CCTCTA ACA CTA TTA CTA TTA TTT TTAA CTA -TA TTA TTA
1 TTA TTA TTA --T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
*
90000508 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA GTTA -TA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA
* * * * * ** **
90000554 TTG TTA -TA TTA TTT TTA TTA TTA CTG TTA TTA TTA TTA CTA CAA CCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * ** *
90000601 TTA TTA CTA TGA TTA -TA TT- TTC TTT TTA -TA CTTA TT- TGC CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
90000643 TTA TTA TTA -CA TTA TTA -TA TCA TTAA TT- TTA -TA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
* * * * * *
90000685 TTA -TA ATA GTTA TTA TTA TTA CTT- TTA TTG TTA -TG TTG TTT TTT
1 TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
90000729 TTCC TCTG TT- TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
90000775 TTA CTA TTA TTT TTA TTT TTA TTT TTA TTA CTA TTA TCT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * *
90000819 TTA TTA CTA CTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
90000839 CTTTATTAAC
Statistics
Matches: 559, Mismatches: 159, Indels: 132
0.66 0.19 0.16
Matches are distributed among these distances:
2 63 0.11
3 437 0.78
4 48 0.09
5 9 0.02
6 2 0.00
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:90000365 original size:14 final size:16
Alignment explanation
Indices: 90000333--90000377 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 16
90000323 ACTATTAGTA
90000333 TATTTTCATCTATATT
1 TATTTTCATCTATATT
90000349 TATTTT-ATCTA-ATT
1 TATTTTCATCTATATT
90000363 TATTTTC--CTATATT
1 TATTTTCATCTATATT
90000377 T
1 T
90000378 TTATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.11
14 13 0.48
15 5 0.19
16 6 0.22
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTCATCTATATT
Found at i:90002327 original size:2 final size:2
Alignment explanation
Indices: 90002320--90002344 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90002310 CTATCAATAC
90002320 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
90002345 ACTAATGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90005040 original size:3 final size:3
Alignment explanation
Indices: 90005032--90005090 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
90005022 GATAAAGAAT
* *
90005032 TAA TAA TAA TAA TAA TAA TCAA -AA TAA TAA TGA GAA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TA-A TAA
*
90005077 TAA TAA TAA AAA TA
1 TAA TAA TAA TAA TA
90005091 CTAAAGCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.07
3 40 0.87
4 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:90005843 original size:20 final size:20
Alignment explanation
Indices: 90005815--90005863 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
90005805 TTTCTTCACT
*
90005815 TCTCCCACGCTCGTGTGACC
1 TCTCACACGCTCGTGTGACC
*
90005835 TCTCACACGCTCGTGTGACT
1 TCTCACACGCTCGTGTGACC
90005855 TCTCACACG
1 TCTCACACG
90005864 GCCATGTGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.14, C:0.41, G:0.18, T:0.27
Consensus pattern (20 bp):
TCTCACACGCTCGTGTGACC
Found at i:90015173 original size:40 final size:40
Alignment explanation
Indices: 90015112--90015187 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
90015102 CGGTACTCTA
* * *
90015112 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATATT
1 TGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCATATT
90015152 TGGTGTGCAGGGAT-GAGTGGGTCGATTTTATCCCCA
1 TGGTGTGCAGGGATGGA-TGGGTCGATTTTATCCCCA
90015188 CATAGTGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.16, C:0.13, G:0.34, T:0.37
Consensus pattern (40 bp):
TGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCATATT
Found at i:90020795 original size:5 final size:5
Alignment explanation
Indices: 90020781--90020813 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
90020771 CAATTTGTGA
90020781 AAAAT AAAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAA
90020814 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:90024443 original size:3 final size:3
Alignment explanation
Indices: 90024435--90024507 Score: 137
Period size: 3 Copynumber: 24.0 Consensus size: 3
90024425 CTACTGCGCG
90024435 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90024483 TAT TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT
90024508 CTTCATGTTA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 66 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:90026804 original size:12 final size:12
Alignment explanation
Indices: 90026787--90026813 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
90026777 AAAATAGGGC
90026787 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90026799 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90026811 TTT
1 TTT
90026814 TGAAAAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:90026985 original size:41 final size:40
Alignment explanation
Indices: 90026836--90027002 Score: 187
Period size: 41 Copynumber: 4.1 Consensus size: 40
90026826 GCAAAAATTT
* ***
90026836 TAAAATACAGAGCAATAGCGGCG-TTTTACAAAAAACGCCGC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGC
* ** *
90026877 T-AAAATAGAGCAACAGCGGCG-TTTTAGTAAAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGT--AAAACGCCGC
90026917 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
90026957 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCTGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
90026998 TAAAA
1 TAAAA
90027003 GTCATATAAC
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
39 19 0.17
40 30 0.27
41 56 0.50
42 6 0.05
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:90027089 original size:14 final size:14
Alignment explanation
Indices: 90027072--90027111 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
90027062 TTTTATTAAA
90027072 GTTTAAGGTTTATG
1 GTTTAAGGTTTATG
* *
90027086 GTTTAAGATATATG
1 GTTTAAGGTTTATG
*
90027100 GTTTAGGGTTTA
1 GTTTAAGGTTTA
90027112 AGCAGGTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTTAAGGTTTATG
Found at i:90027139 original size:35 final size:32
Alignment explanation
Indices: 90027071--90027163 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 32
90027061 GTTTTATTAA
* *
90027071 AGTTTAAGGTTTATGGTTTAAGA--T-A-TAT
1 AGTTTAGGGTTTAAGGTTTAAGAGTTAACTAT
* *
90027099 GGTTTAGGGTTTAAGCAGGTTTATGAGTTAACTAT
1 AGTTTAGGGTTT-A--AGGTTTAAGAGTTAACTAT
90027134 AGTTTAGGGTTTAAGGTTTAAGAGTTAACT
1 AGTTTAGGGTTTAAGGTTTAAGAGTTAACT
90027164 TGCATTTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
28 10 0.19
29 1 0.02
31 8 0.15
32 16 0.31
33 1 0.02
34 2 0.04
35 14 0.27
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (32 bp):
AGTTTAGGGTTTAAGGTTTAAGAGTTAACTAT
Found at i:90028083 original size:16 final size:16
Alignment explanation
Indices: 90028062--90028105 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
90028052 TTCTTTTTTT
90028062 TATAAATTTAAAAAAA
1 TATAAATTTAAAAAAA
* *
90028078 TATAAATTTAAAATAT
1 TATAAATTTAAAAAAA
*
90028094 TATAAATATAAA
1 TATAAATTTAAA
90028106 TTTAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATAAATTTAAAAAAA
Found at i:90032351 original size:22 final size:23
Alignment explanation
Indices: 90032309--90032351 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
90032299 TTTCAAAAAT
*
90032309 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
90032332 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
90032352 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:90036229 original size:31 final size:30
Alignment explanation
Indices: 90036136--90036230 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 30
90036126 TAATAATAAT
* **
90036136 TTTAGCTCTTCAATATTTATATTTTCTATCAA
1 TTTAG-TCTTCAATATTTAAAAATT-TATCAA
* * *
90036168 TTTAGTCTT-AAT-TCTAAAAATTAATAAA
1 TTTAGTCTTCAATATTTAAAAATTTATCAA
*
90036196 TTTAGTCTTCAATATTTACCAAATTTATCAA
1 TTTAGTCTTCAATATTTA-AAAATTTATCAA
90036227 TTTA
1 TTTA
90036231 ATCCTAATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
28 13 0.26
29 9 0.18
30 6 0.12
31 17 0.34
32 5 0.10
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTAGTCTTCAATATTTAAAAATTTATCAA
Found at i:90040672 original size:24 final size:23
Alignment explanation
Indices: 90040645--90040699 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
90040635 TTGTCATGAC
90040645 CTTTGGGCCAAGAGTACTGACATT
1 CTTTGGGCCAAG-GTACTGACATT
* * * *
90040669 CTTT-GTCCCAGGTGCTTACATT
1 CTTTGGGCCAAGGTACTGACATT
90040691 CTTTGGGCC
1 CTTTGGGCC
90040700 TCTTTTGGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 13 0.52
23 8 0.32
24 4 0.16
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (23 bp):
CTTTGGGCCAAGGTACTGACATT
Found at i:90044132 original size:16 final size:17
Alignment explanation
Indices: 90044108--90044141 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
90044098 TGCATATTGA
*
90044108 TTAATTAATTT-TTTAT
1 TTAAGTAATTTATTTAT
90044124 TTAAGTAATTTATTTAT
1 TTAAGTAATTTATTTAT
90044141 T
1 T
90044142 GTTCGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTAAGTAATTTATTTAT
Found at i:90049792 original size:147 final size:146
Alignment explanation
Indices: 90049492--90050383 Score: 1215
Period size: 147 Copynumber: 6.1 Consensus size: 146
90049482 TATTTTAGTA
* *
90049492 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTCGTA--TTA--TTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
* *
90049553 TTTAGTACATAATGTTTCAAATGTACTATTTTTGTATTTTTTATATTAATTTAATAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAATAAAAAACTCT
*
90049618 GATTTTGACCGTTTGTTT
130 GATTTTGGCCGTTT-TTT
* * * * **
90049636 TTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
90049701 TTTAGTACATAATG-TTCTAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAACTCT
66 TTTAGTACATAATGTTTC-AAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAACTCT
90049765 GATTTTGGCCGTTTATTT
130 GATTTTGGCCGTTT-TTT
90049783 TTTATTTTATTTTCAGATTTTATTTTTTTAAAATATACTATTTTTGTATTTTATGTTTTTTATAT
1 TTTATTTTATTTTCAGATTTTA-TTTTTTAAAATATACTATTTTTGTATTTTA--TTTTTTATAT
* * *
90049848 TATTTTAGTACATAAT-TTTAAAATGTATTATTTTAGTTTTTTTATATTAATATAGAAAAAAAAC
63 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTA-ATAAAAAAC
*
90049912 TCTGATTTTGGCC-CTTTTT
127 TCTGATTTTGGCCGTTTTTT
* *
90049931 ATT-TTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTTGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
* *
90049995 TTTAGTACATAA-GTTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATA-TG
66 TTTAGTACATAATG-TTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAA-ACTC
*
90050056 TGATTTTGGCCG-TTTTA
129 TGATTTTGGCCGTTTTTT
* ** *
90050073 TTTATTTTGTTTTTGGATTTTATTTTGTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
* * * *
90050138 TTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTATATTAATTTAGTAAAAAATTTTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAACTCTG
90050203 ATTTTGGCCGTTTGTTT
131 ATTTTGGCCGTTT-TTT
** * * *
90050220 TTTATTTTATTTTTGGATTTTATTTTTCAAAATATACTATTTTTATATTTTATTTTTTTTATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
* * * *
90050285 TTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAAT-AAAAAACTCT
*
90050350 GATTTTGACC----TTT
130 GATTTTGGCCGTTTTTT
90050363 TTTATTTTATTTTCAGATTTT
1 TTTATTTTATTTTCAGATTTT
90050384 TTAAAATATA
Statistics
Matches: 675, Mismatches: 51, Indels: 45
0.88 0.07 0.06
Matches are distributed among these distances:
142 23 0.03
143 126 0.19
144 68 0.10
145 54 0.08
146 34 0.05
147 198 0.29
148 88 0.13
149 35 0.05
150 49 0.07
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.59
Consensus pattern (146 bp):
TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAACTCTG
ATTTTGGCCGTTTTTT
Found at i:90049994 original size:12 final size:13
Alignment explanation
Indices: 90049962--90049997 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
90049952 TTTTTTAAAA
90049962 TATATTATTTTTG
1 TATATTATTTTTG
*
90049975 TATTTTATTTTT-
1 TATATTATTTTTG
90049987 TATATTATTTT
1 TATATTATTTT
90049998 AGTACATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:90050162 original size:437 final size:433
Alignment explanation
Indices: 90049492--90050383 Score: 1325
Period size: 437 Copynumber: 2.0 Consensus size: 433
90049482 TATTTTAGTA
90049492 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTCGTATTATTTTATATTATTTTA
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTCGTATTATTTTATATTATTTTA
*
90049557 GTACATAATGTTTCAAATGTACTATTTTTGTATTTTTTATATTAATTTAATAAAAAACTCTGATT
66 GTACATAATGTTTC-AATGTACTATTTTAGTATTTTTTATATTAATTTAATAAAAAACTCTGATT
*
90049622 TTGACCGTTTGTTTTTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTT
130 TTGACCGTTTGTTATTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTT
*
90049687 ATTTTTTATATTATTTTAGTACATAATGTTCTAAATGTATTATTTTAGTTTTTTTATATTAATTT
195 ATTTTTTATATTATTTTAGTACATAATGTTCTAAATGTATTATTTTAATTTTTTTATATTAATTT
*
90049752 AATAAAAAACTCTGATTTTGGCCGTTTATTTTTTATTTTATTTTCAGATTTTATTTTTTTAAAAT
260 AATAAAAAACTCTGATTTTGGCCGTTTATTTTTTATTTTATTTTCAGATTTTA-TTTTTCAAAAT
*
90049817 ATACTATTTTTGTATTTTATGTTTTTTATATTATTTTAGTACATAAT-TTTAAAATGTATTATTT
324 ATACTATTTTTATATTTTAT-TTTTTT-TATTATTTTAGTACATAATGTTTAAAATGTATTATTT
* * *
90049881 TAGTTTTTTTATATTAATATAGAAAAAAAACTCTGATTTTGGCCCTTT
387 TAGTATATTTATATTAATATAGAAAAAAAACTCTGATTTT-GACCTTT
* *
90049929 TTATTTTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTTGTATTTTATTTTTTATATTA
1 TT-TATTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTCGTA--TTA--TTTTATATTA
* *
90049994 TTTTAGTACATAA-GTTTTC-ATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAAAATA-T
61 TTTTAGTACATAATG-TTTCAATGTACTATTTTAGTATTTTTTATATTAATTTAATAAAAA-ACT
* * * * * * *
90050055 GTGATTTTGGCCG-TT-TTATTTATTTTGTTTTTGGATTTTA-TTTTGTAAAATATACTATTTTT
124 CTGATTTTGACCGTTTGTTATTTATTTTATTCTCGGATTTTACTTTT-TAAAATAAACTATTTTC
*
90050117 GTATTTTATTTTTTATATTATTTTAGTACATAATGTT-TCAAATGTATTATTTTAATTTTTTTAT
188 ATATTTTATTTTTTATATTATTTTAGTACATAATGTTCT-AAATGTATTATTTTAATTTTTTTAT
* * * * **
90050181 ATTAATTTAGTAAAAAATTTTGATTTTGGCCGTTTGTTTTTTATTTTATTTTTGGATTTTATTTT
252 ATTAATTTAATAAAAAACTCTGATTTTGGCCGTTTATTTTTTATTTTATTTTCAGATTTTATTTT
* *
90050246 TCAAAATATACTATTTTTATATTTTATTTTTTTTATTATTTTAGTACATAATGTTTCATATGTAT
317 TCAAAATATACTATTTTTATATTTTATTTTTTTTATTATTTTAGTACATAATGTTTAAAATGTAT
* *
90050311 TATTTTAGTATATTTATATTAATTTAGTAAAAAAACTCTGATTTTGACCTTT
382 TATTTTAGTATATTTATATTAATATAGAAAAAAAACTCTGATTTTGACCTTT
90050363 TTTATTTTATTTTCAGATTTT
1 TTTATTTTATTTTCAGATTTT
90050384 TTAAAATATA
Statistics
Matches: 414, Mismatches: 31, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
433 18 0.04
434 27 0.07
435 57 0.14
436 34 0.08
437 153 0.37
438 45 0.11
439 35 0.08
440 17 0.04
441 1 0.00
442 27 0.07
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.59
Consensus pattern (433 bp):
TTTATTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTCGTATTATTTTATATTATTTTA
GTACATAATGTTTCAATGTACTATTTTAGTATTTTTTATATTAATTTAATAAAAAACTCTGATTT
TGACCGTTTGTTATTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTTA
TTTTTTATATTATTTTAGTACATAATGTTCTAAATGTATTATTTTAATTTTTTTATATTAATTTA
ATAAAAAACTCTGATTTTGGCCGTTTATTTTTTATTTTATTTTCAGATTTTATTTTTCAAAATAT
ACTATTTTTATATTTTATTTTTTTTATTATTTTAGTACATAATGTTTAAAATGTATTATTTTAGT
ATATTTATATTAATATAGAAAAAAAACTCTGATTTTGACCTTT
Found at i:90050396 original size:14 final size:14
Alignment explanation
Indices: 90050379--90050407 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
90050369 TTATTTTCAG
90050379 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
90050393 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
90050407 A
1 A
90050408 CTATTAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:90050732 original size:12 final size:13
Alignment explanation
Indices: 90050706--90050734 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
90050696 ATACCTTGCA
90050706 AAAAATTAAATTT
1 AAAAATTAAATTT
90050719 AAAAATTAAA-TT
1 AAAAATTAAATTT
90050731 AAAA
1 AAAA
90050735 TCAATCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTAAATTT
Found at i:90050997 original size:3 final size:3
Alignment explanation
Indices: 90050916--90050964 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
90050906 CCTCCTCCTC
90050916 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-T CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
90050963 CT
1 CT
90050965 CTTTCTTTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:90051159 original size:27 final size:27
Alignment explanation
Indices: 90051121--90051198 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
90051111 AGGAGTCAGC
90051121 GGTGCCGCCTGTGGGGTACCCTCCACT
1 GGTGCCGCCTGTGGGGTACCCTCCACT
*
90051148 GGTGCTGCCTGTGGGGTACCCTCCACT
1 GGTGCCGCCTGTGGGGTACCCTCCACT
*
90051175 GGTGCCGCCTAT-GGGTA-CCTCCAC
1 GGTGCCGCCTGTGGGGTACCCTCCAC
90051199 CCATATTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
25 7 0.15
26 5 0.10
27 36 0.75
ACGTcount: A:0.09, C:0.36, G:0.32, T:0.23
Consensus pattern (27 bp):
GGTGCCGCCTGTGGGGTACCCTCCACT
Found at i:90063204 original size:13 final size:14
Alignment explanation
Indices: 90063182--90063217 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
90063172 TTAAGGGTTA
*
90063182 AAATTAAAAATTTT
1 AAATTAAAAGTTTT
*
90063196 ATATTAAAAGTTTT
1 AAATTAAAAGTTTT
90063210 AAATTAAA
1 AAATTAAA
90063218 TTATTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
AAATTAAAAGTTTT
Found at i:90065755 original size:30 final size:30
Alignment explanation
Indices: 90065719--90065779 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
90065709 AAGATTAAAG
90065719 TTGCTAAAATAAAAAGCATAAAAATGGCTT
1 TTGCTAAAATAAAAAGCATAAAAATGGCTT
*
90065749 TTGCTAAAATAAAAAGTATAAAAATGGCTT
1 TTGCTAAAATAAAAAGCATAAAAATGGCTT
90065779 T
1 T
90065780 CTTCAACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (30 bp):
TTGCTAAAATAAAAAGCATAAAAATGGCTT
Found at i:90067683 original size:27 final size:26
Alignment explanation
Indices: 90067626--90067684 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
90067616 TATTATGAAC
90067626 TAAACCCCCTAAATACCAAAGGGAGA
1 TAAACCCCCTAAATACCAAAGGGAGA
* *
90067652 TAAACCCCCTAAATACCTAAGGGATA
1 TAAACCCCCTAAATACCAAAGGGAGA
90067678 TGAAACC
1 T-AAACC
90067685 TAAGACGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.44, C:0.27, G:0.14, T:0.15
Consensus pattern (26 bp):
TAAACCCCCTAAATACCAAAGGGAGA
Found at i:90075038 original size:40 final size:40
Alignment explanation
Indices: 90074955--90075107 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
90074945 TCGAATGATG
* *
90074955 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
90074995 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
90075035 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
90075076 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
90075108 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:90076914 original size:13 final size:13
Alignment explanation
Indices: 90076896--90076920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90076886 ACCGTGAGCG
90076896 TCACACAGCCGTA
1 TCACACAGCCGTA
90076909 TCACACAGCCGT
1 TCACACAGCCGT
90076921 GGCTCCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.40, G:0.16, T:0.16
Consensus pattern (13 bp):
TCACACAGCCGTA
Found at i:90080676 original size:35 final size:35
Alignment explanation
Indices: 90080630--90080700 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
90080620 AAATTTATCT
90080630 ACTTTTACAAGTACGTCCTCTATTATACCCCTAGG
1 ACTTTTACAAGTACGTCCTCTATTATACCCCTAGG
90080665 ACTTTTACAAGTACGTCCTCTATTATACCCCTAGG
1 ACTTTTACAAGTACGTCCTCTATTATACCCCTAGG
90080700 A
1 A
90080701 TATTTAACAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (35 bp):
ACTTTTACAAGTACGTCCTCTATTATACCCCTAGG
Found at i:90081515 original size:20 final size:19
Alignment explanation
Indices: 90081470--90081516 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
90081460 CCCCCTCTCC
90081470 CCTTCCTCCTCCCTTTCTGT
1 CCTTCC-CCTCCCTTTCTGT
* *
90081490 CTTTCCCCTTCCCTTTCTTT
1 CCTTCCCC-TCCCTTTCTGT
90081510 CCTTCCC
1 CCTTCCC
90081517 ACACCTTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.00, C:0.51, G:0.02, T:0.47
Consensus pattern (19 bp):
CCTTCCCCTCCCTTTCTGT
Found at i:90081743 original size:28 final size:28
Alignment explanation
Indices: 90081691--90081745 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
90081681 TCATTTTTCT
*
90081691 TTAATTCTTTATTATATTCTTTTATTAC
1 TTAATTCTTTATTATATTCTATTATTAC
90081719 TTAATTTCTTT-TTATTATT-TATTATTA
1 TTAA-TTCTTTATTA-TATTCTATTATTA
90081746 TAATTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.67
Consensus pattern (28 bp):
TTAATTCTTTATTATATTCTATTATTAC
Found at i:90083234 original size:6 final size:6
Alignment explanation
Indices: 90083219--90083248 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
90083209 TTTGCGTCCC
90083219 TTTA-T TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
90083249 AAATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:90088708 original size:30 final size:30
Alignment explanation
Indices: 90088668--90088724 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90088658 TAGTCACTTC
*
90088668 CACACGGGCAGTCCA-TGCGCCCGTGTGAGG
1 CACACAGGCAGTCCACT-CGCCCGTGTGAGG
90088698 CACACAGGCAGTCCACTCGCCCGTGTG
1 CACACAGGCAGTCCACTCGCCCGTGTG
90088725 TCATGGTCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.18, C:0.37, G:0.32, T:0.14
Consensus pattern (30 bp):
CACACAGGCAGTCCACTCGCCCGTGTGAGG
Found at i:90097944 original size:6 final size:6
Alignment explanation
Indices: 90097933--90097962 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
90097923 TATTTTACTA
90097933 TTATTT TTATTT TTATTT TTA-TT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT T
90097963 GTCTCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:90097948 original size:12 final size:11
Alignment explanation
Indices: 90097933--90097962 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
90097923 TATTTTACTA
90097933 TTATTTTTATTT
1 TTATTTTTA-TT
90097945 TTATTTTTATT
1 TTATTTTTATT
90097956 TTATTTT
1 TTATTTT
90097963 GTCTCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:90102487 original size:18 final size:19
Alignment explanation
Indices: 90102466--90102504 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
90102456 GAATGTTTTC
*
90102466 CATTTCTCT-ATTTCTATT
1 CATTTCGCTCATTTCTATT
90102484 CATTTCGCTCATTTCTATT
1 CATTTCGCTCATTTCTATT
90102503 CA
1 CA
90102505 AACGCGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.18, C:0.26, G:0.03, T:0.54
Consensus pattern (19 bp):
CATTTCGCTCATTTCTATT
Found at i:90103113 original size:60 final size:60
Alignment explanation
Indices: 90103020--90103139 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
90103010 TGCACCAACT
*
90103020 TTCAGTTCCTAATCTATTTGAACTTAGGCTTTTACTTACATCAAAGTGTACGAGTCACGC
1 TTCAGTTCCTAATCTATTTGAACTTAGGCTTTTACTTACACCAAAGTGTACGAGTCACGC
90103080 TTCAGTTCCTAATCTATTTGAACTTAGGCTTTTACTTACACCAAAGTGTACGAGTCACGC
1 TTCAGTTCCTAATCTATTTGAACTTAGGCTTTTACTTACACCAAAGTGTACGAGTCACGC
90103140 ATATATAGTC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (60 bp):
TTCAGTTCCTAATCTATTTGAACTTAGGCTTTTACTTACACCAAAGTGTACGAGTCACGC
Found at i:90104697 original size:40 final size:40
Alignment explanation
Indices: 90104621--90104800 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
90104611 AAGTATCTTT
* * *
90104621 GGGATTTAG-CCGGATATAG-CAACTCGCACAACTGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTC
* ** *
90104660 GGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCTTT
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
90104700 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
*
90104740 GGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGCCTTC
90104783 GGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATAT
90104801 CATCCGAATA
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
39 8 0.07
40 82 0.67
41 1 0.01
43 31 0.25
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
Found at i:90105418 original size:2 final size:2
Alignment explanation
Indices: 90105413--90105448 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
90105403 ACACACACAC
90105413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90105449 GCCATTTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90112936 original size:40 final size:40
Alignment explanation
Indices: 90112858--90113041 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 40
90112848 ACCCAAGTAT
* * *
90112858 CTTCGGAATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* **
90112897 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
90112937 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
90112977 CTTCGGGACTTAGCCCGGGTATAGCAACTACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
90113020 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
90113042 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 11 0.09
40 85 0.66
41 1 0.01
43 31 0.24
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:90123803 original size:48 final size:48
Alignment explanation
Indices: 90123751--90124741 Score: 609
Period size: 48 Copynumber: 20.5 Consensus size: 48
90123741 AGGAGTCCCT
* * ** *
90123751 CCTTGGCTTGAACTCCCAATGAAAAAC-AATGATGGACTTCTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTG-TGGATTTCTATCCATC
* * *
90123799 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
90123847 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTCGTGGATTTCTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
90123895 CCTTGGATTGAAGTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
90123943 CCTTGGATTGACCTCCCAGTGAAAAACCGTTGCGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
90123991 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTCGTGGATTTCTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * * * *
90124039 CCTTGGATTGAGCTCTCGGTGAAAAATTGTTGCGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
90124087 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * *
90124135 CTTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCGTC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
90124183 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGGTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAAC---------TGTTGTGGATTTCTATCCATC
* * * *
90124240 CCTTGGCTTGAACTCCTAGTGAAAAAATGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
90124288 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTTGTGGATTCGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGA-----T---TTC-TATCCATC
* * * *
90124345 CCTTGGCTTG-ACTTCTCATTG-AAAA--GTTGTGGATTTGTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* *
90124390 CCTTGGATTGAACTCCCAGTGAATAACTGTGGTGGATGTTGTAGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAAC--T-GT---TG-TG--GATTTCTATCCATC
*
90124447 CCTTGGATTGAACTCCCAGTG---AA-----G-GGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * * * *
90124486 CCTTGGCTTGAACTTCTAGTGAAGAACTGTGGTGGA--TGT-T--GT-
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * *** * **** *
90124528 GC-GGGAGTGAA-GAACTGTGGTGGA-TGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
90124573 CCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
90124621 CCTT-GACTTGAACTCCCAG-GAAAAAACTGTTGTCGATTTGTATCCATT
1 CCTTGGA-TTGAACTCCCAGTG-AAAAACTGTTGTGGATTTCTATCCATC
* * * * * * * * *
90124669 TCTT-GACTTGAACTCCCAATGAAAAACTGTTTTGAATTTGTGTTCGTT
1 CCTTGGA-TTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* *
90124717 CCTTGGCTTGAACTCCCAGGGAAAA
1 CCTTGGATTGAACTCCCAGTGAAAA
90124742 GCTGCTGGCA
Statistics
Matches: 744, Mismatches: 138, Indels: 122
0.74 0.14 0.12
Matches are distributed among these distances:
39 40 0.05
40 5 0.01
41 10 0.01
42 4 0.01
43 2 0.00
44 1 0.00
45 24 0.03
46 16 0.02
47 12 0.02
48 499 0.67
49 9 0.01
51 2 0.00
53 1 0.00
54 11 0.01
55 2 0.00
56 7 0.01
57 99 0.13
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (48 bp):
CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
Found at i:90124251 original size:57 final size:57
Alignment explanation
Indices: 90124162--90124470 Score: 338
Period size: 57 Copynumber: 5.8 Consensus size: 57
90124152 AGTGAAAAAC
* *
90124162 TGTTGTGGATTTGTATCCGTCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGG
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * * *
90124219 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAA-AA--------AA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
90124267 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * * * *
90124324 TGTTGTGGATTCGTATCCATTCCTTGGCTTG-ACTTCTCATTG-A-AA---------A
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAAC-TCCCAGTGAAGAACTGTGGTGGA
*
90124370 -GTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAATAACTGTGGTGGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
*
90124426 TGTTGTAGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAG
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAG
90124471 GGATTTGTAT
Statistics
Matches: 207, Mismatches: 22, Indels: 46
0.75 0.08 0.17
Matches are distributed among these distances:
45 33 0.16
46 4 0.02
47 2 0.01
48 41 0.20
49 2 0.01
55 2 0.01
56 6 0.03
57 117 0.57
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (57 bp):
TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
Found at i:90124296 original size:105 final size:102
Alignment explanation
Indices: 90124114--90124528 Score: 576
Period size: 105 Copynumber: 4.1 Consensus size: 102
90124104 AGGGAAAAGC
90124114 TGTTGTGGATTTGTATCCA-TCCTTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTAT
1 TGTTGTGGATTTGTATCCATTCC-TTGGATTGAACTCCTAGTG-AAAA--GTTGTGGATTTGTAT
* *
90124178 CCGTCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGG
62 CCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
*
90124219 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAAATGTTGTGGATTTGTATC
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCTAGTG--AAAA-GTTGTGGATTTGTATC
90124284 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
63 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * * *
90124324 TGTTGTGGATTCGTATCCATTCCTTGGCTTG-ACTTCTCATTGAAAAGTTGTGGATTTGTATCCA
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCT-AGTGAAAAGTTGTGGATTTGTATCCA
*
90124388 TCCCTTGGATTGAACTCCCAGTGAATAACTGTGGTGGA
65 TCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * *
90124426 TGTTGTAGATTTGTATCCATCCCTTGGATTGAACTCCCAGTG--AA---G-GGATTTGTATCCAT
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCTAGTGAAAAGTTGTGGATTTGTATCCAT
* * *
90124485 CCCTTGGCTTGAACTTCTAGTGAAGAACTGTGGTGGA
66 CCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
90124522 TGTTGTG
1 TGTTGTG
90124529 CGGGAGTGAA
Statistics
Matches: 287, Mismatches: 19, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
96 53 0.18
97 1 0.00
100 2 0.01
102 85 0.30
103 8 0.03
104 5 0.02
105 125 0.44
106 8 0.03
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (102 bp):
TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCTAGTGAAAAGTTGTGGATTTGTATCCAT
CCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
Found at i:90124487 original size:39 final size:39
Alignment explanation
Indices: 90124433--90124509 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
90124423 GGATGTTGTA
90124433 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGG
1 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGG
* * *
90124472 GATTTGTATCCATCCCTTGGCTTGAACTTCTAGTGAAG
1 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAG
90124510 AACTGTGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (39 bp):
GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGG
Found at i:90127381 original size:24 final size:24
Alignment explanation
Indices: 90127353--90127404 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
90127343 TTAGTAGGTC
* *
90127353 AAATAAACTACGCTAATAAATGCT
1 AAATAAACTACACTAATAAATACT
* * *
90127377 AAATATATTATACTAATAAATACT
1 AAATAAACTACACTAATAAATACT
90127401 AAAT
1 AAAT
90127405 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAAACTACACTAATAAATACT
Found at i:90129978 original size:38 final size:39
Alignment explanation
Indices: 90129906--90129989 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 39
90129896 GATTTTACAT
* *
90129906 GTTATATAACGAGATCTAGCATTTGTTATAGATTCTCTG
1 GTTATATAACAAGATCTAGCATTTGTTATAGATTCTCAG
* *
90129945 GTTATTTAACAAGATCTAGC-TTTGTTGCT-GATTCTCAG
1 GTTATATAACAAGATCTAGCATTTGTT-ATAGATTCTCAG
90129983 GTTATAT
1 GTTATAT
90129990 GTAACATAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 20 0.51
39 19 0.49
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (39 bp):
GTTATATAACAAGATCTAGCATTTGTTATAGATTCTCAG
Found at i:90132496 original size:18 final size:18
Alignment explanation
Indices: 90132473--90132507 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
90132463 TGCTTCTATA
90132473 ATCTAAATTTGAATCTGG
1 ATCTAAATTTGAATCTGG
90132491 ATCTAAATTTGAATCTG
1 ATCTAAATTTGAATCTG
90132508 AAACTGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (18 bp):
ATCTAAATTTGAATCTGG
Found at i:90147115 original size:30 final size:30
Alignment explanation
Indices: 90147079--90147151 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
90147069 TTCAGTGCTT
* * * *
90147079 CACACGCCTGTGTAAGACACACGGGTAGTC
1 CACACGCCCGTGTAAGACAAACAGGTAGGC
*
90147109 CACACGCCCGCGTAAGACAAACAGGTAGGC
1 CACACGCCCGTGTAAGACAAACAGGTAGGC
*
90147139 CACATGCCCGTGT
1 CACACGCCCGTGT
90147152 GTCATGGCCG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.26, T:0.14
Consensus pattern (30 bp):
CACACGCCCGTGTAAGACAAACAGGTAGGC
Found at i:90155944 original size:6 final size:6
Alignment explanation
Indices: 90155904--90155943 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
90155894 TTTCCTTTCC
90155904 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTCAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTT
90155944 CTAAAAGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:90162582 original size:26 final size:26
Alignment explanation
Indices: 90162553--90162628 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
90162543 TCTCATTCCT
*
90162553 ATTTTACCCCCAATAAAATTTTGACA
1 ATTTTACCCCCAATAAAATTTTGAAA
* * *
90162579 ATTTTACACCCGATCAAATTTTGAAA
1 ATTTTACCCCCAATAAAATTTTGAAA
* **
90162605 ATTTTACCTCTTATAAAATTTTGA
1 ATTTTACCCCCAATAAAATTTTGA
90162629 GAAAATATGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCCAATAAAATTTTGAAA
Found at i:90166727 original size:27 final size:27
Alignment explanation
Indices: 90166687--90166798 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
90166677 AGGAAGCATC
*
90166687 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
90166714 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
90166741 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * * *
90166769 TTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
90166795 CTGG
1 CTGG
90166799 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.06
27 54 0.75
28 14 0.19
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:90166791 original size:54 final size:54
Alignment explanation
Indices: 90166687--90166798 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
90166677 AGGAAGCATC
*
90166687 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * * *
90166741 CTGGTGGCTCTGCCACGATTATCTGTATTTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
90166795 CTGG
1 CTGG
90166799 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:90169594 original size:16 final size:16
Alignment explanation
Indices: 90169530--90169596 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 16
90169520 GATTGAGGTG
*
90169530 AATGGAATAAAACTGT
1 AATGGAATAAAGCTGT
** *
90169546 AATGGAATTGAGATGT
1 AATGGAATAAAGCTGT
* *
90169562 AATAGAATAGAGCTGT
1 AATGGAATAAAGCTGT
*
90169578 AATGGAATAAAGTTGT
1 AATGGAATAAAGCTGT
90169594 AAT
1 AAT
90169597 CAATAATTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.28
Consensus pattern (16 bp):
AATGGAATAAAGCTGT
Found at i:90170268 original size:4 final size:4
Alignment explanation
Indices: 90170247--90170288 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
90170237 GAAAACAGGG
90170247 GAAA GAAA GGAGAA -AAA GAAA GAAA GAAA GAAA GAAAA GAAA
1 GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA G-AAA GAAA
90170289 AAGGGAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 2 0.06
4 24 0.71
5 6 0.18
6 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:90170284 original size:21 final size:21
Alignment explanation
Indices: 90170247--90170288 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
90170237 GAAAACAGGG
*
90170247 GAAAGAAAGGAGAAAAAGAAA
1 GAAAGAAAGAAGAAAAAGAAA
90170268 GAAAGAAAGAA-AGAAAAGAAA
1 GAAAGAAAGAAGA-AAAAGAAA
90170289 AAGGGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAGAAAAAGAAA
Done.