Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 308 of 328
Found at i:91528090 original size:2 final size:2
Alignment explanation
Indices: 91528077--91528106 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
91528067 AATTAAAATT
*
91528077 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
91528107 GTGGAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:91532203 original size:3 final size:3
Alignment explanation
Indices: 91532195--91532220 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
91532185 ATCAAGTTTT
91532195 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
91532221 TTATTATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:91535841 original size:17 final size:17
Alignment explanation
Indices: 91535816--91535852 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
91535806 ACCACACGAC
*
91535816 TGTGCCACATGCCCATG
1 TGTGCCACATGACCATG
*
91535833 TGTGGCACATGACCATG
1 TGTGCCACATGACCATG
91535850 TGT
1 TGT
91535853 CAAACCGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (17 bp):
TGTGCCACATGACCATG
Found at i:91537333 original size:16 final size:16
Alignment explanation
Indices: 91537312--91537342 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91537302 TCATTATTAT
*
91537312 GTCTTTTGTATTTTAG
1 GTCTTTTATATTTTAG
91537328 GTCTTTTATATTTTA
1 GTCTTTTATATTTTA
91537343 CATGCATAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.06, G:0.13, T:0.65
Consensus pattern (16 bp):
GTCTTTTATATTTTAG
Found at i:91540632 original size:20 final size:20
Alignment explanation
Indices: 91540531--91540632 Score: 91
Period size: 20 Copynumber: 5.1 Consensus size: 20
91540521 ATAATGTTAT
**
91540531 ACAGAGGCACCGTAGTGCAA
1 ACAGAGGCACCAAAGTGCAA
*
91540551 AC-GTAGGCA-CAATTGTGCAA
1 ACAG-AGGCACCAA-AGTGCAA
* **
91540571 TCAGAGGCTTCAAAGTGCAA
1 ACAGAGGCACCAAAGTGCAA
* * *
91540591 ATAGAGACACCAAAGTGTAA
1 ACAGAGGCACCAAAGTGCAA
91540611 ACAGAGGCACCAAAGTGCAA
1 ACAGAGGCACCAAAGTGCAA
91540631 AC
1 AC
91540633 CCGTACAAGC
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
19 2 0.03
20 57 0.90
21 4 0.06
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.14
Consensus pattern (20 bp):
ACAGAGGCACCAAAGTGCAA
Found at i:91541116 original size:12 final size:12
Alignment explanation
Indices: 91541099--91541125 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
91541089 ATCTCATTTG
91541099 TATTTCCATGCA
1 TATTTCCATGCA
91541111 TATTTCCATGCA
1 TATTTCCATGCA
91541123 TAT
1 TAT
91541126 GACCCATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (12 bp):
TATTTCCATGCA
Found at i:91542605 original size:39 final size:39
Alignment explanation
Indices: 91542551--91542627 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
91542541 TATTAACTTC
91542551 AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGAA
1 AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGAA
91542590 AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGA
1 AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGA
91542628 GAAGATCATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (39 bp):
AACAAATACAAGCTCCTGGTTTCATCAAAGTCAAAAGAA
Found at i:91544062 original size:19 final size:19
Alignment explanation
Indices: 91544034--91544082 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
91544024 ATAAGAAAGA
*
91544034 AATAATACTAATA-TCAAAT
1 AATAAAACTAATACT-AAAT
*
91544053 AATAAAACTATTACTAAAT
1 AATAAAACTAATACTAAAT
91544072 -ATAAAA-TAATA
1 AATAAAACTAATA
91544083 ATATAATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.15
18 6 0.23
19 15 0.58
20 1 0.04
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AATAAAACTAATACTAAAT
Found at i:91546274 original size:30 final size:30
Alignment explanation
Indices: 91546229--91546302 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
91546219 AAATTTTAAA
* ** *
91546229 TTAATAATTATAAAATTGTGCTTTAATCTT
1 TTAAAAATTATAAAATTGTAATTTAATCGT
* *
91546259 TTAAAAATAATAAAATTTTAATTTAATCGT
1 TTAAAAATTATAAAATTGTAATTTAATCGT
91546289 TTAAAAATTATAAA
1 TTAAAAATTATAAA
91546303 TATATAAGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (30 bp):
TTAAAAATTATAAAATTGTAATTTAATCGT
Found at i:91546361 original size:23 final size:23
Alignment explanation
Indices: 91546335--91546382 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
91546325 AAATTAAATT
*
91546335 TTTATTATTATAAAAA-TATACAA
1 TTTATT-TTAAAAAAATTATACAA
*
91546358 TTTATTTTAAAAAAATTATATAA
1 TTTATTTTAAAAAAATTATACAA
91546381 TT
1 TT
91546383 GATGTATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTATTTTAAAAAAATTATACAA
Found at i:91547623 original size:16 final size:18
Alignment explanation
Indices: 91547590--91547623 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
91547580 TATTAATAGG
91547590 GTGAATTTTGTGTTAATT
1 GTGAATTTTGTGTTAATT
91547608 GTGAA-TTTGT-TTAATT
1 GTGAATTTTGTGTTAATT
91547624 TTACATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (18 bp):
GTGAATTTTGTGTTAATT
Found at i:91555874 original size:57 final size:57
Alignment explanation
Indices: 91555769--91555877 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
91555759 CCCAAATATG
* * * *
91555769 TTTTTTTTTGTCAACCAACTATGAAAAGTTACAAAATGGTCATTCAACTATTAGTAA
1 TTTTTTTTAGTCAACCAACTACGAAAAGTTACAAAATAGTCATCCAACTATTAGTAA
**
91555826 TTTTTTTTAGTC-ACTCAACTACGAAAAGTTACAAAATAGTTGTCCAACTATT
1 TTTTTTTTAGTCAAC-CAACTACGAAAAGTTACAAAATAGTCATCCAACTATT
91555878 CAATTTTGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 2 0.04
57 43 0.96
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.39
Consensus pattern (57 bp):
TTTTTTTTAGTCAACCAACTACGAAAAGTTACAAAATAGTCATCCAACTATTAGTAA
Found at i:91556074 original size:10 final size:9
Alignment explanation
Indices: 91556041--91556073 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
91556031 AATCTGATTA
91556041 AAAAATTATT
1 AAAAATT-TT
91556051 AAAAATTTT
1 AAAAATTTT
91556060 AAAAATTTT
1 AAAAATTTT
91556069 AAAAA
1 AAAAA
91556074 AAAAACTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AAAAATTTT
Found at i:91556489 original size:15 final size:15
Alignment explanation
Indices: 91556469--91556519 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
91556459 ACAATACAAT
91556469 AACATAAGTAACTAA
1 AACATAAGTAACTAA
* ** *
91556484 AACATAA-CATTTCA
1 AACATAAGTAACTAA
91556498 AACATAAGTAACTAA
1 AACATAAGTAACTAA
*
91556513 AATATAA
1 AACATAA
91556520 CTTAAGGCAA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.59, C:0.14, G:0.04, T:0.24
Consensus pattern (15 bp):
AACATAAGTAACTAA
Found at i:91559352 original size:59 final size:59
Alignment explanation
Indices: 91559199--91559423 Score: 294
Period size: 59 Copynumber: 3.8 Consensus size: 59
91559189 ATTTATTTAT
* ** * *
91559199 TTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCGCTTAATAAAAGAGAA-TTT
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
* *
91559257 TTTTAAATATTTTTGTACAAATTATTTTTATGTTGTTTCATTTAATAAAACAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
* * * *
91559316 TTTTGAATATTTTTGTA-AAACTTATATTTGTATTGTTGCATTTAATAAAACAGAAGGTC
1 TTTTGAATATTTTTGTACAAA-TTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
* *
91559375 TTTTGAATATTTTTGTACAAATTATTTTT-TCATTATTTTATTTAATAAA
1 TTTTGAATATTTTTGTACAAATTATTTTTAT-ATTGTTTCATTTAATAAA
91559424 TTAGGAGTTA
Statistics
Matches: 146, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
58 53 0.36
59 90 0.62
60 3 0.02
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
Found at i:91561993 original size:7 final size:7
Alignment explanation
Indices: 91561981--91562044 Score: 119
Period size: 7 Copynumber: 9.1 Consensus size: 7
91561971 ATGGTTTTTC
91561981 AACCCTA
1 AACCCTA
91561988 AACCCTA
1 AACCCTA
91561995 AACCCTA
1 AACCCTA
91562002 AACCCTA
1 AACCCTA
91562009 AACCCTA
1 AACCCTA
91562016 AACCCTA
1 AACCCTA
91562023 AACCCTA
1 AACCCTA
91562030 AACCCTA
1 AACCCTA
*
91562037 AATCCTA
1 AACCCTA
91562044 A
1 A
91562045 TATGCAAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:91564571 original size:4 final size:4
Alignment explanation
Indices: 91564557--91564591 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
91564547 GATTATTATA
*
91564557 TATG AATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
91564592 ATTTGAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:91565978 original size:22 final size:22
Alignment explanation
Indices: 91565953--91565996 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
91565943 TATACTAAAA
91565953 GTAAAAGAAAATTTAAGCATAT
1 GTAAAAGAAAATTTAAGCATAT
91565975 GTAAAAGAAAATTTAAGCATAT
1 GTAAAAGAAAATTTAAGCATAT
91565997 TCTAACCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.27
Consensus pattern (22 bp):
GTAAAAGAAAATTTAAGCATAT
Found at i:91566199 original size:14 final size:14
Alignment explanation
Indices: 91566180--91566209 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91566170 TTTAGTGAGG
91566180 AAAAAAAAAAGAGA
1 AAAAAAAAAAGAGA
*
91566194 AAAAAAAGAAGAGA
1 AAAAAAAAAAGAGA
91566208 AA
1 AA
91566210 GGGTATATAC
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:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAGA
Found at i:91569228 original size:13 final size:13
Alignment explanation
Indices: 91569210--91569234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91569200 CTACTTTTTT
91569210 AATTTTGAAATTG
1 AATTTTGAAATTG
91569223 AATTTTGAAATT
1 AATTTTGAAATT
91569235 TTAGCTTTAT
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:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
AATTTTGAAATTG
Found at i:91573370 original size:13 final size:13
Alignment explanation
Indices: 91573353--91573395 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
91573343 ATTTTAATTT
91573353 TATTTTAATAATAA
1 TATTTTAA-AATAA
91573367 -ATTTTAAAATAA
1 TATTTTAAAATAA
*
91573379 TAATTTAAAATAA
1 TATTTTAAAATAA
91573392 TATT
1 TATT
91573396 CTTCACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTTTAAAATAA
Found at i:91577861 original size:24 final size:25
Alignment explanation
Indices: 91577801--91577862 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
91577791 ATTATTGAAA
* *
91577801 ATACATGTTCATAATATATAAAACGT
1 ATACATGAT-ATAATATATAAAACAT
* *
91577827 ATATATAATATAATAT-TAAAACAT
1 ATACATGATATAATATATAAAACAT
*
91577851 TTACATGATATA
1 ATACATGATATA
91577863 TACACACATA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
24 16 0.55
25 7 0.24
26 6 0.21
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (25 bp):
ATACATGATATAATATATAAAACAT
Found at i:91577954 original size:23 final size:23
Alignment explanation
Indices: 91577927--91577977 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
91577917 CTAATATTAC
*
91577927 ATAAAGATATACT-TATATATATA
1 ATAAAGATATA-TATACATATATA
* *
91577950 TTAAATATATATATACATATATA
1 ATAAAGATATATATACATATATA
91577973 ATAAA
1 ATAAA
91577978 ATACACGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
ATAAAGATATATATACATATATA
Found at i:91578060 original size:20 final size:21
Alignment explanation
Indices: 91578027--91578068 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
91578017 TATGATAAAG
* *
91578027 ATAATAATATACATAATCTAT
1 ATAATAATACACATAATATAT
91578048 ATAA-AATACACATAATATAT
1 ATAATAATACACATAATATAT
91578068 A
1 A
91578069 CGCATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAATACACATAATATAT
Found at i:91578110 original size:3 final size:3
Alignment explanation
Indices: 91578104--91578168 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
91578094 TATATAGTAG
91578104 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
91578152 TAA TAA TAC TAA TAA TA
1 TAA TAA TAA TAA TAA TA
91578169 CAAAAAATAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:91581271 original size:18 final size:18
Alignment explanation
Indices: 91581250--91581520 Score: 145
Period size: 18 Copynumber: 14.6 Consensus size: 18
91581240 GAACAATTAT
91581250 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
91581268 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
91581286 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
91581304 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
91581330 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
91581348 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* *
91581365 ATATTCAGTAACAATCAAG
1 TTATTCAGTAACAGTC-AG
*
91581384 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* * *
91581401 TTCATTTAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* * *
91581420 TTATTCAGTAA-TGATTAA
1 TTATTCAGTAACAG-TCAG
* *
91581438 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
91581456 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * * *
91581474 ATATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
91581492 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
91581510 TTATTCAGTAA
1 TTATTCAGTAA
91581521 TAATAAGTTA
Statistics
Matches: 190, Mismatches: 47, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
17 17 0.09
18 138 0.73
19 19 0.10
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:91581290 original size:36 final size:36
Alignment explanation
Indices: 91581237--91581532 Score: 179
Period size: 36 Copynumber: 8.0 Consensus size: 36
91581227 TCATTAACTC
* * *
91581237 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
91581272 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
91581308 TCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAATCAGTTAT
91581352 TCAGTAA-AATCAGA-TATTCAGTAACAATCAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAACAATC-AGTTAT
* * * *
91581388 TCAGTAGCAGTC-ATTCATTTAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAATCAGTTAT
** * * *
91581424 TCAGTAATGATTAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * * *
91581460 TCAGTAACAGTCTAA-TATCCAGTAATAGTCAATTAT
1 TCAGTAACAATC-AATTATTCAGTAACAATCAGTTAT
* * * * *
91581496 CCGGTAACAGTCAATTATTCAGTAATAATAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
91581532 T
1 T
91581533 TTATACCTTT
Statistics
Matches: 198, Mismatches: 46, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
35 16 0.08
36 133 0.67
37 22 0.11
42 2 0.01
43 6 0.03
44 19 0.10
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
Found at i:91581371 original size:17 final size:19
Alignment explanation
Indices: 91581335--91581393 Score: 70
Period size: 17 Copynumber: 3.3 Consensus size: 19
91581325 ATCGGTTATC
* *
91581335 CAGTAACAGTCAA-TTATT
1 CAGTAACAATCAAGATATT
91581353 CAGTAA-AATC-AGATATT
1 CAGTAACAATCAAGATATT
*
91581370 CAGTAACAATCAAGTTATT
1 CAGTAACAATCAAGATATT
91581389 CAGTA
1 CAGTA
91581394 GCAGTCATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 1 0.03
17 13 0.37
18 10 0.29
19 11 0.31
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (19 bp):
CAGTAACAATCAAGATATT
Found at i:91581399 original size:54 final size:53
Alignment explanation
Indices: 91581330--91581520 Score: 179
Period size: 54 Copynumber: 3.5 Consensus size: 53
91581320 AATTGATCGG
*
91581330 TTATCCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACAATCAA
1 TTATCCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAATAATCAA
* * * * * * *
91581383 GTTATTCAGTAGCAGTC-ATTCATTTAGTGACAATCAGTTATTCAGTAATGATTAA
1 -TTATCCAGTAACAGTCAATT-ATTCAGT-AAAATCAGATATTCAGTAATAATCAA
* * * * * * *
91581438 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-ATATCCAGTAATAGTCAA
1 TTATCCAGTAACAGTCAATTATTCAGTAA-AATC-AGATATTCAGTAATAATCAA
*
91581492 TTATCCGGTAACAGTCAATTATTCAGTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAA
91581521 TAATAAGTTA
Statistics
Matches: 107, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
53 4 0.04
54 79 0.74
55 24 0.22
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (53 bp):
TTATCCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAATAATCAA
Found at i:91581702 original size:47 final size:47
Alignment explanation
Indices: 91581649--91581765 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
91581639 CAGTAACAGT
* *
91581649 AACAGTAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
* *
91581696 AACAGTAACAGTACGGTGCACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
91581743 AACAGTAACAGTAACGGTA-ACAG
1 AACAGTAACAGT-ACGGTACACAG
91581766 TAACAATATC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 59 0.92
48 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.15
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:91583446 original size:18 final size:18
Alignment explanation
Indices: 91583415--91583466 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
91583405 CCATTTATGG
* *
91583415 CACTATTCATGTATACGA
1 CACTATTTACGTATACGA
* *
91583433 CACTATTTACGTATATGG
1 CACTATTTACGTATACGA
* *
91583451 TACTATTTACATATAC
1 CACTATTTACGTATAC
91583467 AGTACTGTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (18 bp):
CACTATTTACGTATACGA
Found at i:91583471 original size:18 final size:18
Alignment explanation
Indices: 91583434--91583488 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
91583424 TGTATACGAC
**
91583434 ACTATTTACGTATATGGT
1 ACTATTTACGTATACAGT
*
91583452 ACTATTTACATATACAGT
1 ACTATTTACGTATACAGT
* *
91583470 ACTGTTCACGTATACAGT
1 ACTATTTACGTATACAGT
91583488 A
1 A
91583489 GTTGGGATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (18 bp):
ACTATTTACGTATACAGT
Found at i:91588585 original size:20 final size:18
Alignment explanation
Indices: 91588551--91588595 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
91588541 AAACTTTAAA
91588551 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
91588569 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
91588589 -TTTCCCT
1 TTTTCCCT
91588596 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:91590324 original size:27 final size:26
Alignment explanation
Indices: 91590287--91590337 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
91590277 TACAAGGACT
91590287 TATGACATATTTTAACTTAGTATAAAAA
1 TATGACATATTTTAA-TTA-TATAAAAA
91590315 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTTAATTATATAAA
91590338 TATGAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 3 0.13
27 9 0.39
28 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
TATGACATATTTTAATTATATAAAAA
Found at i:91593394 original size:3 final size:3
Alignment explanation
Indices: 91593386--91593422 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
91593376 TATGGGTTCA
91593386 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
91593423 CAGATTTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:91593807 original size:58 final size:58
Alignment explanation
Indices: 91593717--91593835 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
91593707 GGATTGGAGG
91593717 CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
1 CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
91593775 CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
1 CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
91593833 CTG
1 CTG
91593836 ACACCTGTTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.17, C:0.38, G:0.16, T:0.29
Consensus pattern (58 bp):
CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
Found at i:91606085 original size:16 final size:17
Alignment explanation
Indices: 91606064--91606098 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
91606054 ATATTTTATT
*
91606064 TTTTTAGA-ATTGTAAA
1 TTTTTAGATAATGTAAA
91606080 TTTTTAGATAATGTAAA
1 TTTTTAGATAATGTAAA
91606097 TT
1 TT
91606099 AGTCTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
TTTTTAGATAATGTAAA
Found at i:91608130 original size:31 final size:32
Alignment explanation
Indices: 91608069--91608139 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 32
91608059 AAAATTGATG
*
91608069 ATATATAA-AATATTTTAAAAAATTAAATAT-A
1 ATATA-AATAATATTTTAAAAAATGAAATATAA
* *
91608100 ATAATAAATAATA-TTTAAATAATGATATATAA
1 AT-ATAAATAATATTTTAAAAAATGAAATATAA
91608132 ATATAAAT
1 ATATAAAT
91608140 TAATCTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 24 0.71
32 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (32 bp):
ATATAAATAATATTTTAAAAAATGAAATATAA
Found at i:91608143 original size:21 final size:20
Alignment explanation
Indices: 91608084--91608143 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
91608074 TAAAATATTT
91608084 TAAA-AAATTAAATATAATAA
1 TAAATAAATTAAAT-TAATAA
*
91608104 TAAATAATATTTAAA-TAATGA
1 TAAATAA-A-TTAAATTAATAA
*
91608125 TATATAAATATAAATTAAT
1 TAAATAAAT-TAAATTAAT
91608144 CTAATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 1 0.03
20 9 0.27
21 17 0.52
22 1 0.03
23 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAATAAATTAAATTAATAA
Found at i:91619901 original size:30 final size:29
Alignment explanation
Indices: 91619817--91619905 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
91619807 ATTTCTTTAA
* *
91619817 ATATGTATAATTGAATCAAAATGAAAGTTTC
1 ATATTTATAATTG-ATC-AAATCAAAGTTTC
* * *
91619848 AT-TTAATATTTGAACACAATCAAAGTTTC
1 ATATTTATAATTGATCA-AATCAAAGTTTC
91619877 ATATTTATAATTGCATCAAATCAAAGTTT
1 ATATTTATAATTG-ATCAAATCAAAGTTT
91619906 ATGTATCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
28 1 0.02
29 15 0.32
30 26 0.55
31 5 0.11
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (29 bp):
ATATTTATAATTGATCAAATCAAAGTTTC
Found at i:91621814 original size:24 final size:24
Alignment explanation
Indices: 91621786--91621835 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
91621776 TTTATAACAT
**
91621786 TATTTATTATTGTACCTGTAATTA
1 TATTTATTAAGGTACCTGTAATTA
* *
91621810 TATTTTTTAAGGTACTTGTAATTA
1 TATTTATTAAGGTACCTGTAATTA
91621834 TA
1 TA
91621836 CTAATAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.54
Consensus pattern (24 bp):
TATTTATTAAGGTACCTGTAATTA
Found at i:91622735 original size:7 final size:7
Alignment explanation
Indices: 91622725--91622771 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
91622715 ACCTTGAATT
91622725 TCAAACC
1 TCAAACC
91622732 TCAAACC
1 TCAAACC
91622739 TCAAACC
1 TCAAACC
*
91622746 TCAAAAC
1 TCAAACC
* *
91622753 TTAAACG
1 TCAAACC
91622760 TCAAACC
1 TCAAACC
91622767 -CAAAC
1 TCAAAC
91622772 TGTGAACCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.47, C:0.36, G:0.02, T:0.15
Consensus pattern (7 bp):
TCAAACC
Found at i:91633869 original size:40 final size:37
Alignment explanation
Indices: 91633804--91633881 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 37
91633794 ATATATATAT
*
91633804 ATATTATTTTATTTTTAATGAATTTTCCAATTTTTTTA
1 ATATTATTTTAATTTTAATGAATTTT-CAATTTTTTTA
*
91633842 ATATTATTTTTGAATTTTAAT-ATATTTTTAATTTTTTTA
1 ATATTA-TTTT-AATTTTAATGA-ATTTTCAATTTTTTTA
91633881 A
1 A
91633882 ATGTGTCCCG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 6 0.17
39 16 0.46
40 13 0.37
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (37 bp):
ATATTATTTTAATTTTAATGAATTTTCAATTTTTTTA
Found at i:91633874 original size:17 final size:19
Alignment explanation
Indices: 91633837--91633876 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
91633827 TTTCCAATTT
91633837 TTTTAATATTATTTTTGAA
1 TTTTAATATTATTTTTGAA
91633856 TTTTAATA-TATTTTT-AA
1 TTTTAATATTATTTTTGAA
91633873 TTTT
1 TTTT
91633877 TTTAAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 7 0.33
19 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTAATATTATTTTTGAA
Found at i:91633877 original size:18 final size:20
Alignment explanation
Indices: 91633836--91633877 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
91633826 TTTTCCAATT
91633836 TTTTTAATATTATTTTTGAA
1 TTTTTAATATTATTTTTGAA
91633856 -TTTTAATA-TATTTTT-AA
1 TTTTTAATATTATTTTTGAA
91633873 TTTTT
1 TTTTT
91633878 TTAAATGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.10
18 11 0.52
19 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTAATATTATTTTTGAA
Found at i:91638727 original size:21 final size:20
Alignment explanation
Indices: 91638703--91638742 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
91638693 ATTGGTCCTA
91638703 TTTAAAGTATAAAAAAATAAT
1 TTTAAA-TATAAAAAAATAAT
**
91638724 TTTAAATATGTAAAAATAA
1 TTTAAATATAAAAAAATAA
91638743 ATTATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
TTTAAATATAAAAAAATAAT
Found at i:91639556 original size:21 final size:21
Alignment explanation
Indices: 91639530--91639569 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
91639520 TTTTTAAATG
91639530 TAAAAATTTAAAAATTATTTT
1 TAAAAATTTAAAAATTATTTT
91639551 TAAAAATTTAAAAATTATT
1 TAAAAATTTAAAAATTATT
91639570 AAAATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAATTTAAAAATTATTTT
Found at i:91639571 original size:10 final size:10
Alignment explanation
Indices: 91639550--91639614 Score: 55
Period size: 10 Copynumber: 6.4 Consensus size: 10
91639540 AAAATTATTT
91639550 TTAAAAA-T-
1 TTAAAAATTA
91639558 TTAAAAATTA
1 TTAAAAATTA
91639568 TT-AAAATTA
1 TTAAAAATTA
*
91639577 TTAAAAAGTA
1 TTAAAAATTA
*
91639587 TAAAAAATATA
1 TTAAAAAT-TA
91639598 TTTGAAAAATTAA
1 -TT-AAAAATT-A
91639611 TTAA
1 TTAA
91639615 TTGTTAACGT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
8 7 0.15
9 10 0.22
10 14 0.30
11 4 0.09
12 4 0.09
13 7 0.15
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:91639590 original size:9 final size:9
Alignment explanation
Indices: 91639551--91639597 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
91639541 AAATTATTTT
91639551 TAAAAATT-
1 TAAAAATTA
91639559 TAAAAATTA
1 TAAAAATTA
*
91639568 TTAAAATTA
1 TAAAAATTA
*
91639577 TTAAAAAGTA
1 -TAAAAATTA
*
91639587 TAAAAAATA
1 TAAAAATTA
91639596 TA
1 TA
91639598 TTTGAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 8 0.24
9 18 0.55
10 7 0.21
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:91645452 original size:21 final size:21
Alignment explanation
Indices: 91645426--91645487 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
91645416 ACAAGTGCTA
91645426 AACGGAAACCCATAAGGGTTG
1 AACGGAAACCCATAAGGGTTG
* * * * *
91645447 AACGGAAGCACACAAGAGCTG
1 AACGGAAACCCATAAGGGTTG
91645468 AACGGAAACCCATAAGGGTT
1 AACGGAAACCCATAAGGGTT
91645488 AAACTGAAGC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.11
Consensus pattern (21 bp):
AACGGAAACCCATAAGGGTTG
Found at i:91645459 original size:42 final size:42
Alignment explanation
Indices: 91645400--91645511 Score: 152
Period size: 42 Copynumber: 2.7 Consensus size: 42
91645390 GAAGTCTGAA
* *
91645400 GGTTGCACAGAAGCACACAAGTGCTAAACGGAAACCCATAAG
1 GGTTGAACAGAAGCACACAAGAGCTAAACGGAAACCCATAAG
* *
91645442 GGTTGAACGGAAGCACACAAGAGCTGAACGGAAACCCATAAG
1 GGTTGAACAGAAGCACACAAGAGCTAAACGGAAACCCATAAG
* * * *
91645484 GGTTAAACTGAAGCTCAAAAGAGCTAAA
1 GGTTGAACAGAAGCACACAAGAGCTAAA
91645512 TTGAAACCTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (42 bp):
GGTTGAACAGAAGCACACAAGAGCTAAACGGAAACCCATAAG
Found at i:91645549 original size:21 final size:21
Alignment explanation
Indices: 91645503--91645552 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
91645493 GAAGCTCAAA
* *
91645503 AGAGCTAAATTGAAACCTATT
1 AGAGTTAAATGGAAACCTATT
*
91645524 AGAGTTAAATGGAAACTTA-T
1 AGAGTTAAATGGAAACCTATT
91645544 ATGAGTTAA
1 A-GAGTTAA
91645553 CTGAAGCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (21 bp):
AGAGTTAAATGGAAACCTATT
Found at i:91647706 original size:22 final size:21
Alignment explanation
Indices: 91647676--91647722 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
91647666 ATTTTTAAAA
91647676 ATTTAAAAAA-ATTACAAAAACT
1 ATTTAAAAAATA-TA-AAAAACT
*
91647698 ATTTCAAAAATATAAAAAACT
1 ATTTAAAAAATATAAAAAACT
91647719 ATTT
1 ATTT
91647723 TTTTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 11 0.48
23 1 0.04
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTTAAAAAATATAAAAAACT
Found at i:91647708 original size:21 final size:21
Alignment explanation
Indices: 91647682--91647722 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
91647672 AAAAATTTAA
91647682 AAAAAT-TACAAAAACTATTTC
1 AAAAATATA-AAAAACTATTTC
91647703 AAAAATATAAAAAACTATTT
1 AAAAATATAAAAAACTATTT
91647723 TTTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATATAAAAAACTATTTC
Found at i:91648185 original size:17 final size:17
Alignment explanation
Indices: 91648156--91648188 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
91648146 AAAATCTGTC
91648156 AAAAACAATATTTTTAA
1 AAAAACAATATTTTTAA
91648173 AAAAATCAA-ATTTTTA
1 AAAAA-CAATATTTTTA
91648189 TTTTAAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAACAATATTTTTAA
Found at i:91648963 original size:17 final size:17
Alignment explanation
Indices: 91648941--91648973 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
91648931 GTGATATTAA
*
91648941 TAATAAAATAAATAAAG
1 TAATAAAAGAAATAAAG
91648958 TAATAAAAGAAATAAA
1 TAATAAAAGAAATAAA
91648974 ATGCGAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAATAAAAGAAATAAAG
Found at i:91652849 original size:28 final size:28
Alignment explanation
Indices: 91652796--91652930 Score: 174
Period size: 28 Copynumber: 5.0 Consensus size: 28
91652786 CACTTTGTGC
91652796 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
91652825 TATTCTGGTGTG-TTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
91652853 TGTTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
91652881 GATACTGGTGTGTTTTGGAGGA-T-TA-
1 TATTCTGGTGTGTTTTGGAGGATTATAT
91652906 TA--CTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
91652931 CTGTGTGTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
23 18 0.19
24 1 0.01
25 3 0.03
26 2 0.02
27 1 0.01
28 54 0.56
29 17 0.18
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.47
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:91652850 original size:23 final size:24
Alignment explanation
Indices: 91652796--91652970 Score: 112
Period size: 28 Copynumber: 7.0 Consensus size: 24
91652786 CACTTTGTGC
91652796 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGATGG-----AT
91652825 TATTCTGGTGTG-TTTGGATGGATT
1 TATTCTGGTGTGTTTTGGATGGA-T
*
91652849 ATATTGTTCTGGTGTGTTTGGGA-GGATT
1 -TA---TTCTGGTGTGTTTTGGATGGA-T
91652877 ATATGATACTGGTGTGTTTTGGA-GGAT
1 -TAT--T-CTGGTGTGTTTTGGATGGAT
*
91652904 TATACTGGTGTGTTTTGGA-GGAT
1 TATTCTGGTGTGTTTTGGATGGAT
* *
91652927 TATACT-GTGTGTTTTGGTTGGA-
1 TATTCTGGTGTGTTTTGGATGGAT
* *
91652949 CATTTTGGTGTG-TTTGGATGGA
1 TATTCTGGTGTGTTTTGGATGGA
91652971 ATCCGTGTAT
Statistics
Matches: 127, Mismatches: 8, Indels: 29
0.77 0.05 0.18
Matches are distributed among these distances:
22 23 0.18
23 34 0.27
24 1 0.01
25 3 0.02
26 3 0.02
27 2 0.02
28 44 0.35
29 17 0.13
ACGTcount: A:0.16, C:0.04, G:0.33, T:0.47
Consensus pattern (24 bp):
TATTCTGGTGTGTTTTGGATGGAT
Found at i:91653193 original size:21 final size:20
Alignment explanation
Indices: 91653146--91653218 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
91653136 AGGCACTTTA
91653146 TGTGTCGTATTTCAGGCACCTG
1 TGTGTCGTA--TCAGGCACCTG
91653168 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCT-G
* * *
91653189 TGTGTCGTTTCAGGCACTTA
1 TGTGTCGTATCAGGCACCTG
91653209 TGTGTCGTAT
1 TGTGTCGTAT
91653219 TCTGATCAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 19 0.41
21 18 0.39
22 9 0.20
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.37
Consensus pattern (20 bp):
TGTGTCGTATCAGGCACCTG
Found at i:91654458 original size:46 final size:48
Alignment explanation
Indices: 91654300--91654486 Score: 163
Period size: 46 Copynumber: 3.9 Consensus size: 48
91654290 TGGTTGGACC
91654300 ATGGCATCA-A-TGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * *
91654346 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
91654399 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * *
91654445 ATGGC-TACGGTGTGTGATATGTGACTAT-GTGCAAGACCATAG
1 ATGGCAT-CAGAGTGTGATATGTGA-T-TCGTGTAAGACCATAG
91654487 TTTTACTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 23
0.75 0.09 0.15
Matches are distributed among these distances:
45 1 0.01
46 33 0.29
47 8 0.07
48 18 0.16
49 13 0.11
50 1 0.01
51 7 0.06
52 5 0.04
53 27 0.24
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:91657492 original size:6 final size:6
Alignment explanation
Indices: 91657481--91657506 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
91657471 AAATAATAAA
91657481 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
91657507 TTAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:91657531 original size:24 final size:21
Alignment explanation
Indices: 91657499--91657541 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 21
91657489 ATTTAAATTT
91657499 AAATTTAATTAGAAAAATATATA
1 AAATTTAATT--AAAAATATATA
91657522 AAATATTAATTAAAAATATA
1 AAAT-TTAATTAAAAATATA
91657542 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTTAATTAAAAATATATA
Found at i:91666190 original size:21 final size:21
Alignment explanation
Indices: 91666166--91666209 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
91666156 TTGGTCTCGG
91666166 TTTTTTT-TCTTGACTCCAAT
1 TTTTTTTATCTTGACTCCAAT
**
91666186 TTTTTTTATCTTGGGTCCAAT
1 TTTTTTTATCTTGACTCCAAT
91666207 TTT
1 TTT
91666210 AAAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (21 bp):
TTTTTTTATCTTGACTCCAAT
Found at i:91669121 original size:17 final size:17
Alignment explanation
Indices: 91669099--91669131 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
91669089 GAATTATACA
91669099 ATAAGAGATAAATATGT
1 ATAAGAGATAAATATGT
91669116 ATAAGAGATAAATATG
1 ATAAGAGATAAATATG
91669132 GTTGAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (17 bp):
ATAAGAGATAAATATGT
Found at i:91677781 original size:21 final size:23
Alignment explanation
Indices: 91677738--91677782 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
91677728 TTAACATGTT
91677738 TATGACTTAGATTTATTATTAAA
1 TATGACTTAGATTTATTATTAAA
* *
91677761 TATGATTTA-ATTT-TTTTTAAA
1 TATGACTTAGATTTATTATTAAA
91677782 T
1 T
91677783 GCTTTGGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (23 bp):
TATGACTTAGATTTATTATTAAA
Found at i:91680731 original size:30 final size:30
Alignment explanation
Indices: 91680697--91680756 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
91680687 AATTAATATG
*
91680697 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
91680727 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
91680757 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:91685232 original size:5 final size:5
Alignment explanation
Indices: 91685222--91685252 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
91685212 TTATGTTTTA
91685222 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
91685253 CATATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:91686208 original size:20 final size:23
Alignment explanation
Indices: 91686158--91686213 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
91686148 AAAGTGAATG
91686158 GAATTATATTGAATTGAAAATATA
1 GAATTA-ATTGAATTGAAAATATA
*
91686182 TAATTAATT-AATT-AAAATAT-
1 GAATTAATTGAATTGAAAATATA
91686202 GAATTAATTGAA
1 GAATTAATTGAA
91686214 AACTGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 3 0.10
24 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (23 bp):
GAATTAATTGAATTGAAAATATA
Found at i:91686352 original size:12 final size:12
Alignment explanation
Indices: 91686335--91686359 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91686325 GCCGACTACT
91686335 GTTACTGTTACC
1 GTTACTGTTACC
91686347 GTTACTGTTACC
1 GTTACTGTTACC
91686359 G
1 G
91686360 ATTTGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:91686713 original size:18 final size:18
Alignment explanation
Indices: 91686663--91686733 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
91686653 ACCGATCAAT
*
91686663 TGATTGATACTGAATAAC
1 TGATTGTTACTGAATAAC
* * * *
91686681 TGATTATCATTGAATAAT
1 TGATTGTTACTGAATAAC
*
91686699 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAC
91686717 TGATTGTTACTGAATAA
1 TGATTGTTACTGAATAA
91686734 ATAATCGTTC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:91686731 original size:36 final size:36
Alignment explanation
Indices: 91686660--91686733 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
91686650 ATAACCGATC
* *
91686660 AATTGATTGATACTGAATAACTGATTATCATTGAAT
1 AATTGATTGATACCGAATAACTGATTATCACTGAAT
* * *
91686696 AATTGATTGTTACCGAATAACTGATTGTTACTGAAT
1 AATTGATTGATACCGAATAACTGATTATCACTGAAT
91686732 AA
1 AA
91686734 ATAATCGTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (36 bp):
AATTGATTGATACCGAATAACTGATTATCACTGAAT
Found at i:91688387 original size:2 final size:2
Alignment explanation
Indices: 91688380--91688412 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
91688370 TTCATTCCCT
*
91688380 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91688413 TTATCCCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:91697318 original size:31 final size:31
Alignment explanation
Indices: 91697260--91697319 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
91697250 TCATTGTACC
*
91697260 CAAAATTTCACGTATATATTTGAATCAAAAT
1 CAAAATTTCACGTATATAATTGAATCAAAAT
* *
91697291 CAAAATTTCATGTGTATAATT-ATATCAAA
1 CAAAATTTCACGTATATAATTGA-ATCAAA
91697320 CCAAAAGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.37
Consensus pattern (31 bp):
CAAAATTTCACGTATATAATTGAATCAAAAT
Found at i:91701005 original size:22 final size:22
Alignment explanation
Indices: 91700963--91701005 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
91700953 TGAAATTTTT
*
91700963 TATTTTAATATTAAAGTATAAA
1 TATTTTAATATTAAAGAATAAA
*
91700985 TATTTTGAATTTTAAA-AATAA
1 TATTTT-AATATTAAAGAATAA
91701006 TTTATAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TATTTTAATATTAAAGAATAAA
Found at i:91708271 original size:3 final size:3
Alignment explanation
Indices: 91708263--91708331 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
91708253 TTTGCACATT
91708263 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
91708311 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
91708332 ATGGTCCAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:91709931 original size:24 final size:24
Alignment explanation
Indices: 91709898--91709970 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 24
91709888 TTTATTTCAT
* *
91709898 TAAATAAAAAATTTAAAAATATAA
1 TAAATCAAAAATTTAAAAACATAA
91709922 TAAATCAAAAATATTTAAAAACATAA
1 TAAATC-AAAA-ATTTAAAAACATAA
*
91709948 -AAA-CAAATA-TT-AAAACA-AA
1 TAAATCAAAAATTTAAAAACATAA
91709967 TAAA
1 TAAA
91709971 AATAATACTC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.05
20 9 0.21
21 2 0.05
22 1 0.02
23 3 0.07
24 6 0.14
25 7 0.16
26 13 0.30
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAATCAAAAATTTAAAAACATAA
Found at i:91709939 original size:26 final size:25
Alignment explanation
Indices: 91709898--91709954 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
91709888 TTTATTTCAT
*
91709898 TAAAT-AAAAAATTTAAAAATATAA
1 TAAATCAAAAAATTTAAAAACATAA
91709922 TAAATCAAAAATATTTAAAAACATAA
1 TAAATCAAAAA-ATTTAAAAACATAA
91709948 -AAA-CAAA
1 TAAATCAAA
91709955 TATTAAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 9 0.30
25 8 0.27
26 13 0.43
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (25 bp):
TAAATCAAAAAATTTAAAAACATAA
Found at i:91709957 original size:22 final size:22
Alignment explanation
Indices: 91709930--91709972 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
91709920 AATAAATCAA
*
91709930 AAATATTTAAAA-ACATAAAAAC
1 AAATA-TTAAAACAAATAAAAAC
91709952 AAATATTAAAACAAATAAAAA
1 AAATATTAAAACAAATAAAAA
91709973 TAATACTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATATTAAAACAAATAAAAAC
Found at i:91709977 original size:21 final size:21
Alignment explanation
Indices: 91709923--91709986 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
91709913 AAAATATAAT
91709923 AAATCAAAAAT-AT-TTAAAA-
1 AAAT-AAAAATAATATTAAAAC
* *
91709942 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-TAATATTAAAAC
* *
91709964 AAATAAAAATAATACTCAAAC
1 AAATAAAAATAATATTAAAAC
91709985 AA
1 AA
91709987 TTCTTAAAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.14
19 3 0.09
20 2 0.06
21 17 0.49
22 8 0.23
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAAAAATAATATTAAAAC
Found at i:91718078 original size:30 final size:30
Alignment explanation
Indices: 91718044--91718100 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
91718034 TAACAAAATT
* *
91718044 AATAATAA-AATAAGAATTATACAATATCTA
1 AATAATAACAATAAAAAATA-ACAATATCTA
91718074 AATAATAACAATAAAAAATAACAATAT
1 AATAATAACAATAAAAAATAACAATAT
91718101 AATAGTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (30 bp):
AATAATAACAATAAAAAATAACAATATCTA
Found at i:91721223 original size:19 final size:20
Alignment explanation
Indices: 91721201--91721271 Score: 94
Period size: 19 Copynumber: 3.6 Consensus size: 20
91721191 AATTACAAAA
91721201 AAAAATT-AAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
91721220 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* *
91721239 TAAAATTCAAAAT-ATTTAC
1 AAAAATTCAAAATAATTTTC
91721258 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
91721272 TTATATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.09
19 25 0.54
20 17 0.37
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:91723583 original size:12 final size:12
Alignment explanation
Indices: 91723568--91723593 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91723558 AGACATCAAC
91723568 TGTTTCTATGAT
1 TGTTTCTATGAT
91723580 TGTTTCTATGAT
1 TGTTTCTATGAT
91723592 TG
1 TG
91723594 AAAAGATAAG
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:0.15, C:0.08, G:0.19, T:0.58
Consensus pattern (12 bp):
TGTTTCTATGAT
Found at i:91724244 original size:13 final size:13
Alignment explanation
Indices: 91724226--91724250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91724216 TTTCCATTTA
91724226 AAATATTTAAATT
1 AAATATTTAAATT
91724239 AAATATTTAAAT
1 AAATATTTAAAT
91724251 AAGGTCTAAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATATTTAAATT
Found at i:91725659 original size:20 final size:21
Alignment explanation
Indices: 91725636--91725675 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
91725626 AGGGGTTCAT
91725636 AATTTAAAGTTTG-GGTTTAG
1 AATTTAAAGTTTGAGGTTTAG
**
91725656 AATTTAGGGTTTGAGGTTTA
1 AATTTAAAGTTTGAGGTTTA
91725676 ACGTTTGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (21 bp):
AATTTAAAGTTTGAGGTTTAG
Found at i:91728857 original size:15 final size:15
Alignment explanation
Indices: 91728839--91728873 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
91728829 TTTTTTAAAG
*
91728839 TTTTTAT-TTTGTAA
1 TTTTTATATTTGAAA
91728853 TTTTTATATTTGAAA
1 TTTTTATATTTGAAA
91728868 TTTTTA
1 TTTTTA
91728874 AGAATCAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTTTATATTTGAAA
Found at i:91731759 original size:14 final size:15
Alignment explanation
Indices: 91731733--91731762 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
91731723 TGTGTTTGTC
91731733 TCTTTTTTGATAAAA
1 TCTTTTTTGATAAAA
91731748 TCTTTTTT-ATAAAA
1 TCTTTTTTGATAAAA
91731762 T
1 T
91731763 ATAACATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (15 bp):
TCTTTTTTGATAAAA
Found at i:91738134 original size:15 final size:16
Alignment explanation
Indices: 91738107--91738137 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
91738097 ATTTTATTTT
91738107 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
91738123 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
91738138 TGATATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:91741434 original size:18 final size:18
Alignment explanation
Indices: 91741411--91741455 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
91741401 ATTTCTTTAA
*
91741411 TTTATTAATTTATTTATT
1 TTTATTAATTTATTAATT
**
91741429 TTTATTAAAATATTAATT
1 TTTATTAATTTATTAATT
91741447 TTTA-TAATT
1 TTTATTAATT
91741456 AGTGCCTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATTAATTTATTAATT
Found at i:91743372 original size:12 final size:12
Alignment explanation
Indices: 91743355--91743380 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91743345 CTTGGACTCT
91743355 CTATAAATCATC
1 CTATAAATCATC
91743367 CTATAAATCATC
1 CTATAAATCATC
91743379 CT
1 CT
91743381 TATTAACCCC
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:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (12 bp):
CTATAAATCATC
Found at i:91746524 original size:15 final size:15
Alignment explanation
Indices: 91746504--91746557 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
91746494 ACACTACAAA
91746504 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
91746519 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
91746536 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
91746553 ATATT
1 ATATT
91746558 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:91746686 original size:22 final size:22
Alignment explanation
Indices: 91746634--91746693 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
91746624 TTAAAATAAA
* *
91746634 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATACTT
91746654 ATTAAAATAATAAATTATACTT
1 ATTAAAATAATAAATTATACTT
* * *
91746676 ATTATACTAATAATTTAT
1 ATTAAAATAATAAATTAT
91746694 TATATGACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 13 0.39
21 2 0.06
22 18 0.55
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTAAAATAATAAATTATACTT
Found at i:91752682 original size:28 final size:29
Alignment explanation
Indices: 91752630--91752688 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
91752620 TAAAGTTTAT
91752630 TTTAGTCCTTATACTATTACAATGAACAA
1 TTTAGTCCTTATACTATTACAATGAACAA
91752659 TTTAGT-CTCTATA-TATTACAATGAACAA
1 TTTAGTCCT-TATACTATTACAATGAACAA
91752687 TT
1 TT
91752689 GTTGAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (29 bp):
TTTAGTCCTTATACTATTACAATGAACAA
Found at i:91758195 original size:7 final size:7
Alignment explanation
Indices: 91758183--91758218 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
91758173 TGTTTTGTTA
91758183 TAAAATT
1 TAAAATT
91758190 TAAAATT
1 TAAAATT
91758197 TAAAATT
1 TAAAATT
*
91758204 CAAAATT
1 TAAAATT
*
91758211 CAAAATT
1 TAAAATT
91758218 T
1 T
91758219 TTTGTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:91758656 original size:48 final size:48
Alignment explanation
Indices: 91758604--91758699 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
91758594 GATTTCTGAA
91758604 AAATTCAACTAGGCAATGATGATTTAACTTAATTTAATGATTTTCTAT
1 AAATTCAACTAGGCAATGATGATTTAACTTAATTTAATGATTTTCTAT
91758652 AAATTCAACTAGGCAATGATGATTTAACTTAATTTAATGATTTTCTAT
1 AAATTCAACTAGGCAATGATGATTTAACTTAATTTAATGATTTTCTAT
91758700 CCATGAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (48 bp):
AAATTCAACTAGGCAATGATGATTTAACTTAATTTAATGATTTTCTAT
Found at i:91762687 original size:5 final size:5
Alignment explanation
Indices: 91762677--91762705 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
91762667 AAAAATTCAA
91762677 AAATT AAATT AAATT AAATT AAATT AAAT
1 AAATT AAATT AAATT AAATT AAATT AAAT
91762706 ATTTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:91764600 original size:3 final size:3
Alignment explanation
Indices: 91764592--91764617 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
91764582 ATCCAAGCTT
91764592 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
91764618 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:91769319 original size:2 final size:2
Alignment explanation
Indices: 91769312--91769337 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
91769302 AATGATACAA
91769312 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
91769338 TTTCACACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91770077 original size:25 final size:24
Alignment explanation
Indices: 91770042--91770120 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 24
91770032 TAATAACTTA
*
91770042 TCAATCTAATTAATAATTAATTCTAT
1 TCAAT-TAATTACTAA-TAATTCTAT
*
91770068 TCAATTAATTACTAAATAATTTTATT
1 TCAATTAATTACT-AATAATTCTA-T
*
91770094 TCTAATTTAATTACTAATATTTCTAT
1 TC-AA-TTAATTACTAATAATTCTAT
91770120 T
1 T
91770121 TTCTAATTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 14 0.31
26 12 0.27
27 10 0.22
28 9 0.20
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (24 bp):
TCAATTAATTACTAATAATTCTAT
Found at i:91770108 original size:28 final size:28
Alignment explanation
Indices: 91770048--91770128 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
91770038 CTTATCAATC
* * *
91770048 TAATTAATAATTAATTCTA-TTC-AA-T
1 TAATTACTAAATAATTTTATTTCTAATT
91770073 TAATTACTAAATAATTTTATTTCTAATT
1 TAATTACTAAATAATTTTATTTCTAATT
91770101 TAATTACT-AAT-ATTTCTATTTTCTAATT
1 TAATTACTAAATAATTT-TA-TTTCTAATT
91770129 CTTTACTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
25 16 0.33
26 7 0.15
27 7 0.15
28 18 0.38
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (28 bp):
TAATTACTAAATAATTTTATTTCTAATT
Found at i:91771081 original size:9 final size:9
Alignment explanation
Indices: 91771067--91771091 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
91771057 AAAATGTAAC
91771067 ATTTAAAAT
1 ATTTAAAAT
91771076 ATTTAAAAT
1 ATTTAAAAT
91771085 ATTTAAA
1 ATTTAAA
91771092 TAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:91771378 original size:22 final size:22
Alignment explanation
Indices: 91771352--91771394 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
91771342 ATTTAAATAA
91771352 TTTTAAAAATTTAAAAATTTAT
1 TTTTAAAAATTTAAAAATTTAT
* **
91771374 TTTTAAATATTTTTAAATTTA
1 TTTTAAAAATTTAAAAATTTA
91771395 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAAAAATTTAAAAATTTAT
Found at i:91771399 original size:31 final size:32
Alignment explanation
Indices: 91771343--91771406 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
91771333 CACGTAAGCA
*
91771343 TTTAAATAATTTTAAAAATTTAAAAATTTATT
1 TTTAAATAATTTTAAAAATTTAAAAATTAATT
*
91771375 TTTAAAT-ATTTT-TAAATTTAAAAAATTAATT
1 TTTAAATAATTTTAAAAATTT-AAAAATTAATT
91771406 T
1 T
91771407 AATATTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 6 0.21
31 16 0.55
32 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TTTAAATAATTTTAAAAATTTAAAAATTAATT
Found at i:91772939 original size:21 final size:21
Alignment explanation
Indices: 91772883--91772939 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
91772873 TTTTTCACAT
* *
91772883 TAATTTAATATTAAAGAATAA
1 TAATTTAATATAAAACAATAA
*
91772904 TATATTCT-AT-CAAAACAATAA
1 TA-ATT-TAATATAAAACAATAA
91772925 TAATTTAATATAAAA
1 TAATTTAATATAAAA
91772940 TGTTTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
19 1 0.04
20 5 0.18
21 16 0.57
22 5 0.18
23 1 0.04
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATTTAATATAAAACAATAA
Found at i:91781531 original size:32 final size:29
Alignment explanation
Indices: 91781472--91781599 Score: 168
Period size: 29 Copynumber: 4.3 Consensus size: 29
91781462 TAAAGTATGT
91781472 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
91781501 ATATGAATGTGATTTGGGCCACCTAATGGGCC
1 ATATGAATGTGATTTGGG---CCTAATGGGCC
* *
91781533 ATACGAATATGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
91781562 ATATGAATGAGA-TTGGGCCTAGTAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
91781590 ATATGCATGT
1 ATATGAATGT
91781600 ATGTAGACTT
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
28 22 0.25
29 38 0.44
32 27 0.31
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:91783517 original size:14 final size:14
Alignment explanation
Indices: 91783494--91783531 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
91783484 CCTAGCTTGG
*
91783494 TGAAGAATTTAAGA
1 TGAAGGATTTAAGA
91783508 TGAAGGATTTAAGA
1 TGAAGGATTTAAGA
91783522 TGAAGGATTT
1 TGAAGGATTT
91783532 GAGAGTAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (14 bp):
TGAAGGATTTAAGA
Found at i:91787417 original size:13 final size:13
Alignment explanation
Indices: 91787395--91787428 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
91787385 TTACATGAAA
91787395 TTGCATTTACATG
1 TTGCATTTACATG
*
91787408 TTGTATTTACATG
1 TTGCATTTACATG
91787421 TTGCATTT
1 TTGCATTT
91787429 TAAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (13 bp):
TTGCATTTACATG
Found at i:91789960 original size:2 final size:2
Alignment explanation
Indices: 91789953--91789996 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
91789943 TAGTCTAATA
91789953 AT AT AT 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 AT AT AT
91789995 AT
1 AT
91789997 CCGTGACCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91790097 original size:19 final size:20
Alignment explanation
Indices: 91790073--91790114 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
91790063 ATGAATGTTA
*
91790073 TAAATTTTAATAAA-TTATT
1 TAAATTTAAATAAATTTATT
91790092 TAAATTTAAATAAATTTATT
1 TAAATTTAAATAAATTTATT
91790112 TAA
1 TAA
91790115 CTCAACTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATTTAAATAAATTTATT
Found at i:91794487 original size:18 final size:18
Alignment explanation
Indices: 91794450--91794489 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
91794440 TGTTATTATG
*
91794450 TTTGAATTGAATGTTGTA
1 TTTGAATTGAATGATGTA
91794468 TTTGAATTGAAT-ATGATA
1 TTTGAATTGAATGATG-TA
91794486 TTTG
1 TTTG
91794490 CTTGTGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (18 bp):
TTTGAATTGAATGATGTA
Found at i:91795434 original size:44 final size:44
Alignment explanation
Indices: 91795385--91795474 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
91795375 TATATGAGCT
*
91795385 TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTGTTTTA
1 TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTATTTTA
*
91795429 TACTAAGCATTATATGCTTACTAGGTTTTATTTTCTCTATTTTA
1 TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTATTTTA
91795473 TA
1 TA
91795475 GTGCACAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.51
Consensus pattern (44 bp):
TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTATTTTA
Found at i:91796245 original size:21 final size:21
Alignment explanation
Indices: 91796219--91796271 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
91796209 CGGTCTACAG
**
91796219 CACGGGCGTGT-CCTATGGTCA
1 CACGGGCGTGTCCCT-TGACCA
91796240 CACGGGCGTGTCCCTTGACCA
1 CACGGGCGTGTCCCTTGACCA
91796261 CACGGGCGTGT
1 CACGGGCGTGT
91796272 GAGCCCTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.13, C:0.32, G:0.34, T:0.21
Consensus pattern (21 bp):
CACGGGCGTGTCCCTTGACCA
Found at i:91798115 original size:9 final size:9
Alignment explanation
Indices: 91798101--91798133 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
91798091 GTTAAACGAA
91798101 TCGAGTTAT
1 TCGAGTTAT
*
91798110 TCGAGTTAA
1 TCGAGTTAT
91798119 TCGAGTTAT
1 TCGAGTTAT
91798128 TCGAGT
1 TCGAGT
91798134 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:91798122 original size:18 final size:18
Alignment explanation
Indices: 91798099--91798133 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
91798089 GAGTTAAACG
91798099 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
91798117 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
91798134 CAACTCGAAT
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:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:91798202 original size:9 final size:9
Alignment explanation
Indices: 91798185--91798221 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
91798175 TGAGTTTTCG
91798185 AATTCGAAT
1 AATTCGAAT
*
91798194 AACTCGAAT
1 AATTCGAAT
91798203 AATTCGAAT
1 AATTCGAAT
91798212 AATTCGAAT
1 AATTCGAAT
91798221 A
1 A
91798222 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:91799256 original size:5 final size:5
Alignment explanation
Indices: 91799246--91799271 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
91799236 CTCGAAAATT
91799246 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
91799272 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:91803830 original size:15 final size:14
Alignment explanation
Indices: 91803810--91803848 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
91803800 AAAGAAAGAT
91803810 GTTAATTAAGGTTTA
1 GTTAATTAA-GTTTA
91803825 GTTAATTGAAGTTTA
1 GTTAATT-AAGTTTA
*
91803840 ATTAATTAA
1 GTTAATTAA
91803849 TTCTGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (14 bp):
GTTAATTAAGTTTA
Found at i:91806276 original size:19 final size:19
Alignment explanation
Indices: 91806252--91806292 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
91806242 AGATTACAAG
91806252 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
91806271 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
91806290 ATC
1 ATC
91806293 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:91810407 original size:27 final size:27
Alignment explanation
Indices: 91810373--91810424 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
91810363 ATTTTATCAG
** *
91810373 GGGTAAAATTGTCAAAATTTTACTGAA
1 GGGTAAAATCATCAAAATTTAACTGAA
91810400 GGGTAAAATCATCAAAATTTAACTG
1 GGGTAAAATCATCAAAATTTAACTG
91810425 GGATAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (27 bp):
GGGTAAAATCATCAAAATTTAACTGAA
Found at i:91812134 original size:12 final size:12
Alignment explanation
Indices: 91812117--91812155 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
91812107 TAGACTCAAT
91812117 AATATTTAATTA
1 AATATTTAATTA
*
91812129 AATATTTAATTC
1 AATATTTAATTA
* *
91812141 AATATCTAAATA
1 AATATTTAATTA
91812153 AAT
1 AAT
91812156 TTCTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATTTAATTA
Found at i:91814226 original size:23 final size:23
Alignment explanation
Indices: 91814194--91814237 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
91814184 ACTACCATTT
91814194 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
91814217 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
91814238 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Done.