Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 144 of 345
Found at i:39292700 original size:28 final size:28
Alignment explanation
Indices: 39292667--39292722 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
39292657 GAATTAAGAC
39292667 AATACCTAAGGAAAAATCCACCTACACT
1 AATACCTAAGGAAAAATCCACCTACACT
39292695 AATACCTAAGGAAAAATCCACCTACACT
1 AATACCTAAGGAAAAATCCACCTACACT
39292723 TTACTTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.29, G:0.07, T:0.18
Consensus pattern (28 bp):
AATACCTAAGGAAAAATCCACCTACACT
Found at i:39294810 original size:46 final size:47
Alignment explanation
Indices: 39294744--39295053 Score: 218
Period size: 46 Copynumber: 6.7 Consensus size: 47
39294734 TGTAACTCGC
* *
39294744 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGAG-CGTTCCCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCACAT
* * *
39294790 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GA-GAC--GTTCACAT
* * * *
39294840 --TTCA-CGAACTCGGACTCAACTCAACGAGCT-TAGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCACAT
* *
39294883 CCATAAGTGAACTCGGATTCAACTCAACGAGCTCAGATGACTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GA-GAC--GTTCACAT
* * * * * *
39294933 --TTCA-CGAACTCGGACTCAACTCAATGAGTTCG-GAAGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCACAT
* * *
39294976 CCATAAGTGAACTCGGACTCAACTCCACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GA-GAC--GTTCACAT
*
39295026 -C-TCA-CGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
39295054 TTCGGAACTC
Statistics
Matches: 204, Mismatches: 37, Indels: 45
0.71 0.13 0.16
Matches are distributed among these distances:
42 6 0.03
43 6 0.03
44 4 0.02
45 5 0.02
46 79 0.39
47 72 0.35
48 8 0.04
49 6 0.03
50 9 0.04
51 9 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCACAT
Found at i:39294858 original size:93 final size:94
Alignment explanation
Indices: 39294751--39295053 Score: 477
Period size: 93 Copynumber: 3.3 Consensus size: 94
39294741 CGCCCATAAG
* *
39294751 CGAACTCGAACTCAACTCAACGAGCTCGAG-CGTTCCCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
*
39294815 AACGAGTTCGGATGCCTAGTTACATTTCA
66 AACGAGCTCGGATGCCTAGTTACATTTCA
* *
39294844 CGAACTCGGACTCAACTCAACGAGCT-TAGACGTTCGCATCCATAAGTGAACTCGGATTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
* *
39294908 AACGAGCTCAGATGACTAGTTACATTTCA
66 AACGAGCTCGGATGCCTAGTTACATTTCA
* * *
39294937 CGAACTCGGACTCAACTCAATGAGTTCG-GAAGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
* *
39295001 CACGAGCTCGGATGCCTAGTTACATCTCA
66 AACGAGCTCGGATGCCTAGTTACATTTCA
39295030 CGAACTCGGACTCAACTCAACGAG
1 CGAACTCGGACTCAACTCAACGAG
39295054 TTCGGAACTC
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
92 2 0.01
93 189 0.99
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (94 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
AACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:39294859 original size:47 final size:45
Alignment explanation
Indices: 39294798--39295059 Score: 215
Period size: 47 Copynumber: 5.6 Consensus size: 45
39294788 ATCCATAAGT
39294798 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATG-CTAGTTACA-TTCAC
* * * * * * * *
39294845 GAACTCGGACTCAACTCAACGAGCTT-AGACGTTCGCATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAG-TTCGGATGCTAG-TTACATTCA-C
* * *
39294891 GAACTCGGATTCAACTCAACGAGCTCAGATGACTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATG-CTAGTTACA-TTCAC
* * * * * * * *
39294938 GAACTCGGACTCAACTCAATGAGTTCGGAAGTTCGCATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTAG-TTACATTCA-C
* *
39294984 GAACTCGGACTCAACTCCACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATG-CTAGTTACAT-TCAC
39295031 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
39295060 ACTCAACCAT
Statistics
Matches: 163, Mismatches: 40, Indels: 24
0.72 0.18 0.11
Matches are distributed among these distances:
45 5 0.03
46 63 0.39
47 89 0.55
48 6 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTTACATTCAC
Found at i:39297321 original size:47 final size:47
Alignment explanation
Indices: 39297262--39297355 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
39297252 AATCGACAAG
39297262 GGTACTCCGTGAAGTCTAACAATCTCACTAATATATAATTCAACTAA
1 GGTACTCCGTGAAGTCTAACAATCTCACTAATATATAATTCAACTAA
*
39297309 GGTACTCTGTGAAGTCTAACAATCTCACTAATATATAATTCAACTAA
1 GGTACTCCGTGAAGTCTAACAATCTCACTAATATATAATTCAACTAA
39297356 CTTATCAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (47 bp):
GGTACTCCGTGAAGTCTAACAATCTCACTAATATATAATTCAACTAA
Found at i:39300218 original size:47 final size:47
Alignment explanation
Indices: 39300149--39300411 Score: 247
Period size: 47 Copynumber: 5.6 Consensus size: 47
39300139 CGCCCATAAG
39300149 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
* * * * *
39300196 CGAACTCGGACTCAACTCAACGAGTTTGGACGTTCTCA--TCCA--TAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATG-CCT-AGTTACATTTCA
* * *
39300241 GTGAACTCGGACTCAACTCAACGAGTTTGGATGACTAGTTACATTTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
* * * * *
39300289 TGAACTCGGACTCAACTCAACGAGTTCGGAAG--T--TTGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--TTCA
* *
39300334 GTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAG-TTCGGATGCCTAGTTACATTTCA
* *
39300382 CGAACTCAGACTCAATTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
39300412 ACTCAACCAT
Statistics
Matches: 178, Mismatches: 22, Indels: 32
0.77 0.09 0.14
Matches are distributed among these distances:
43 5 0.03
44 1 0.01
45 7 0.04
46 63 0.35
47 89 0.50
48 7 0.04
49 1 0.01
50 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:39300264 original size:46 final size:46
Alignment explanation
Indices: 39300197--39300364 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
39300187 TACATTTCAC
*
39300197 GAACTCGGACTCAACTCAACGAGTTTGGACGTTCTCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTTGGAAGTTCTCATCCATAAGT
* * * *
39300243 GAACTCGGACTCAACTCAACGAGTTTGGATG-ACT-AGTTACATTTCA-T
1 GAACTCGGACTCAACTCAACGAGTTTGGAAGTTCTCA--TCCA--TAAGT
*
39300290 GAACTCGGACTCAACTCAACGAGTTCGGAAGTT-TGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTTGGAAGTTCT-CATCCATAAGT
*
39300336 GAACTCGGACTCAACTCAACGAGCTTGGA
1 GAACTCGGACTCAACTCAACGAGTTTGGA
39300365 TGCCTAGTTA
Statistics
Matches: 103, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 61 0.59
47 34 0.33
48 2 0.02
49 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTTGGAAGTTCTCATCCATAAGT
Found at i:39300301 original size:93 final size:93
Alignment explanation
Indices: 39300142--39300412 Score: 436
Period size: 93 Copynumber: 2.9 Consensus size: 93
39300132 TGTAACCCGC
* *
39300142 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCACGAACTCGGAC
* *
39300207 TCAACTCAACGAGTTTGGACGTTCT-CAT
66 TCAACTCAACGAGTTCGGAAGTT-TGCAT
* *
39300235 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGACTAGTTACATTTCATGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCACGAACTCGGAC
39300300 TCAACTCAACGAGTTCGGAAGTTTGCAT
66 TCAACTCAACGAGTTCGGAAGTTTGCAT
* * *
39300328 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCACGAACTCAGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCACGAACTCGGAC
*
39300393 TCAATTCAACGAGTTCGGAA
66 TCAACTCAACGAGTTCGGAA
39300413 CTCAACCATC
Statistics
Matches: 165, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
92 1 0.01
93 164 0.99
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCACGAACTCGGAC
TCAACTCAACGAGTTCGGAAGTTTGCAT
Found at i:39311126 original size:29 final size:27
Alignment explanation
Indices: 39311092--39311194 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
39311082 TACTCAATCA
39311092 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCC
* * * *
39311121 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCC
* *
39311150 CGCACACTTAGTGCCATACATTACAAGCG
1 CGCACACTTAGTGCCAT-TATT-CAAGCC
*
39311179 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
39311195 ATCTCGTCCC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.20
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCC
Found at i:39313260 original size:40 final size:40
Alignment explanation
Indices: 39313158--39313264 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
39313148 ATAATAGCTC
* * *
39313158 GCACAAATGCCTTCGGGACTTAACCCGAATTTGGGAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGAATATGGGAACTA
* **
39313198 GCACAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTA
1 GCACAAATGCCTTCGGGA-CTTAGCCCGAATATGGGAAC-TA
*
39313239 GCACAAA-GCGTTCGGGACTTAGCCCG
1 GCACAAATGCCTTCGGGACTTAGCCCG
39313265 GACATCATTC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.05
40 42 0.75
41 11 0.20
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGAATATGGGAACTA
Found at i:39321098 original size:40 final size:40
Alignment explanation
Indices: 39321042--39321141 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
39321032 GGATATAGCG
* * * *
39321042 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGA
* * * **
39321082 GCTCGCACAAATGCCTTCAGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
39321122 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
39321142 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
Found at i:39343159 original size:37 final size:37
Alignment explanation
Indices: 39343112--39343187 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
39343102 ATCACTTTAG
39343112 TATTTATTTGCAACAAGGTAACTGAGTGTTATGATAT
1 TATTTATTTGCAACAAGGTAACTGAGTGTTATGATAT
39343149 TATTTATTTGCAACAAGGTAACTGAGTGTTATGATAT
1 TATTTATTTGCAACAAGGTAACTGAGTGTTATGATAT
39343186 TA
1 TA
39343188 GTTACAAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (37 bp):
TATTTATTTGCAACAAGGTAACTGAGTGTTATGATAT
Found at i:39346654 original size:47 final size:47
Alignment explanation
Indices: 39346591--39347029 Score: 689
Period size: 47 Copynumber: 9.3 Consensus size: 47
39346581 CCCTTCGGGA
* * *
39346591 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
39346638 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
39346685 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
39346732 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
39346779 CTTGTCACATTACATACACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACA-TATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
39346827 CTTGTCACATATATACACTTTCACATTCATCACATCGGCAATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
39346874 CTTGTCACATATATACACTTTCACATTCACCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
39346921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
39346968 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
39347015 CTTATCACATATATA
1 CTTATCACATATATA
39347030 TATATTGTAC
Statistics
Matches: 362, Mismatches: 29, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 318 0.88
48 44 0.12
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:39346923 original size:189 final size:189
Alignment explanation
Indices: 39346595--39347029 Score: 757
Period size: 189 Copynumber: 2.3 Consensus size: 189
39346585 TCGGGACTTA
* *
39346595 TCACATT-TATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACCTT
1 TCACATTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACCTT
* *
39346659 CACATCCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGC
66 CACATCCATCACATCGGCAATTAGGCCTTGTCACATATATACACTTTCACATTCACCACATTGGC
*
39346724 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTG
131 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* * * * *
39346783 TCACATTACATACACTTTCACATTGATCACATCGGCCATTAGGCCTTGTCACATATATACACTTT
1 TCACATTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACCTT
*
39346848 CACATTCATCACATCGGCAATTAGGCCTTGTCACATATATACACTTTCACATTCACCACATTGGC
66 CACATCCATCACATCGGCAATTAGGCCTTGTCACATATATACACTTTCACATTCACCACATTGGC
39346913 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
131 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
39346972 TCACA-TATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TCACATTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
39347030 TATATTGTAC
Statistics
Matches: 231, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
188 56 0.24
189 175 0.76
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (189 bp):
TCACATTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACCTT
CACATCCATCACATCGGCAATTAGGCCTTGTCACATATATACACTTTCACATTCACCACATTGGC
CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
Found at i:39346952 original size:25 final size:25
Alignment explanation
Indices: 39346878--39346955 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
39346868 TTAGGCCTTG
39346878 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
* ** * * *
39346903 CCACAT-T-GGC-CATTCGGCCTT-A
1 TCACATATATACACTTTC-ACATTCA
39346925 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
39346950 TCACAT
1 TCACAT
39346956 CGGCCATTAG
Statistics
Matches: 36, Mismatches: 12, Indels: 10
0.62 0.21 0.17
Matches are distributed among these distances:
22 10 0.28
23 5 0.14
24 5 0.14
25 16 0.44
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:39350590 original size:25 final size:25
Alignment explanation
Indices: 39350556--39350610 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
39350546 CGGTTAAAGA
*
39350556 ATTCGCACACACAGTGTCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
39350581 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
39350606 ATTCG
1 ATTCG
39350611 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:39350823 original size:40 final size:40
Alignment explanation
Indices: 39350779--39350969 Score: 328
Period size: 40 Copynumber: 4.8 Consensus size: 40
39350769 CACATCATCG
* *
39350779 GCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
*
39350819 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAATACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
* *
39350859 GCACGAATGCTCTTCAGGACTTAGCCCGGATGTAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
*
39350899 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAATACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
39350939 GCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 GCACGAATGCTCTTCGGGACTTAGCCCGGAT
39350970 CATCGTCGAG
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
Found at i:39351074 original size:38 final size:39
Alignment explanation
Indices: 39351031--39351139 Score: 109
Period size: 38 Copynumber: 2.9 Consensus size: 39
39351021 TTTAATCCGA
39351031 ACATAATCTCTGCA-C-ATAGCCATCGGATCTTTACCCGG
1 ACATAATCTCT-CACCTATAGCCATCGGATCTTTACCCGG
* * * *
39351069 GCATAATCTC-CACCTATAGTCATCGGGTCTTTACCTGG
1 ACATAATCTCTCACCTATAGCCATCGGATCTTTACCCGG
* * * *
39351107 ACACAATCTCT-ACTTATAGTCATCGGGTCTTTA
1 ACATAATCTCTCACCTATAGCCATCGGATCTTTA
39351140 AGCCCGGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
36 2 0.03
37 1 0.02
38 58 0.95
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (39 bp):
ACATAATCTCTCACCTATAGCCATCGGATCTTTACCCGG
Found at i:39352602 original size:47 final size:47
Alignment explanation
Indices: 39352539--39352973 Score: 678
Period size: 47 Copynumber: 9.3 Consensus size: 47
39352529 CCCTTCGGGA
* * * *
39352539 CTTATCAAATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
39352586 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
39352633 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
39352680 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
39352727 CCTGTCAC--AT-TACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
39352771 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
39352818 CTTGTCACATATATACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
39352865 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
39352912 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
39352959 CTTATCACATATATA
1 CTTATCACATATATA
39352974 TATATCTTGT
Statistics
Matches: 359, Mismatches: 26, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
44 40 0.11
45 2 0.01
46 2 0.01
47 315 0.88
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:39352864 original size:185 final size:187
Alignment explanation
Indices: 39352550--39352973 Score: 744
Period size: 185 Copynumber: 2.3 Consensus size: 187
39352540 TTATCAAATT
* *
39352550 TATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATCCA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACCTTCACATCCA
39352615 TCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
66 TCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
39352680 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCCTGTCAC-A
131 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTGTCACAA
* * * *
39352736 T-TACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACCTTCACATCCA
*
39352800 TCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTTATCACATTGGCCATTCGGC
66 TCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
39352865 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATA
131 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTGTCACA-A
39352923 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
39352974 TATATCTTGT
Statistics
Matches: 224, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
185 174 0.78
186 1 0.00
187 2 0.01
188 47 0.21
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (187 bp):
TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACCTTCACATCCA
TCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTGTCACAA
Found at i:39356010 original size:52 final size:52
Alignment explanation
Indices: 39355932--39356031 Score: 200
Period size: 52 Copynumber: 1.9 Consensus size: 52
39355922 TTAAGTGAAG
39355932 TTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGAGTTGATCGAAA
1 TTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGAGTTGATCGAAA
39355984 TTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGAGTTGATC
1 TTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGAGTTGATC
39356032 CGACCAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (52 bp):
TTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGAGTTGATCGAAA
Found at i:39359027 original size:38 final size:38
Alignment explanation
Indices: 39358968--39359061 Score: 161
Period size: 38 Copynumber: 2.4 Consensus size: 38
39358958 TCAATCATGC
*
39358968 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
39359007 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
39359045 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
39359062 ACTGTAAATG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
38 42 0.79
39 11 0.21
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:39359304 original size:24 final size:24
Alignment explanation
Indices: 39359253--39359371 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
39359243 GCTTTATCAT
*
39359253 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39359278 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
39359302 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
39359325 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39359349 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39359372 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39359332 original size:47 final size:48
Alignment explanation
Indices: 39359253--39359371 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
39359243 GCTTTATCAT
*
39359253 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
39359302 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
39359349 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39359372 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:39359447 original size:20 final size:20
Alignment explanation
Indices: 39359422--39359481 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
39359412 TATGATTACC
39359422 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
39359442 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
39359462 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
39359482 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:39359452 original size:11 final size:11
Alignment explanation
Indices: 39359422--39359476 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39359412 TATGATTACC
39359422 TCATGTGCATA
1 TCATGTGCATA
*
39359433 TCA--TACATA
1 TCATGTGCATA
39359442 TCATGTGCATA
1 TCATGTGCATA
* *
39359453 TCA--TACATT
1 TCATGTGCATA
39359462 TCATGTGCATA
1 TCATGTGCATA
39359473 TCAT
1 TCAT
39359477 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:39364214 original size:38 final size:35
Alignment explanation
Indices: 39364155--39364272 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
39364145 TCAATCATGC
*
39364155 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
39364194 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
*
39364225 ACTGGACCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
39364256 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
39364273 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 47 0.62
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:39364216 original size:31 final size:31
Alignment explanation
Indices: 39364178--39364272 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
39364168 CCTTTTCATA
*
39364178 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
39364209 TTTCATATTTCATATTACTGGACCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39364240 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39364271 TT
1 TT
39364273 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:39364515 original size:24 final size:24
Alignment explanation
Indices: 39364464--39364582 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
39364454 GCTTTATCAT
*
39364464 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39364489 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
39364513 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
39364536 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39364560 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39364583 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39364543 original size:47 final size:48
Alignment explanation
Indices: 39364464--39364582 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
39364454 GCTTTATCAT
*
39364464 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
39364513 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
39364560 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39364583 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:39364658 original size:20 final size:20
Alignment explanation
Indices: 39364633--39364692 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
39364623 TATGATTACC
39364633 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
39364653 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
39364673 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
39364693 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:39364663 original size:11 final size:11
Alignment explanation
Indices: 39364633--39364687 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39364623 TATGATTACC
39364633 TCATGTGCATA
1 TCATGTGCATA
*
39364644 TCA--TACATA
1 TCATGTGCATA
39364653 TCATGTGCATA
1 TCATGTGCATA
* *
39364664 TCA--TACATT
1 TCATGTGCATA
39364673 TCATGTGCATA
1 TCATGTGCATA
39364684 TCAT
1 TCAT
39364688 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:39374072 original size:42 final size:43
Alignment explanation
Indices: 39373964--39374136 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
39373954 ACATAGGATT
* * * *
39373964 TCGATATGTG-TTATCGTGTAACACCACGTCTAGGACGTTGGCA
1 TCGATATATGATT-TCGTGTAAGACCACGTCTGGGACATTGGCA
* * * *
39374007 CCGATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATATGATTT-CGTGTAAGACCACGTCTGGGACATTGGCA
* *
39374051 TCG-TATATGATTTCGTGTAAGACC-CTGTCTGGGATAGTGGCA
1 TCGATATATGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCA
* * * * **
39374093 TCGATATTTGATTACATGTAAGACCACGTTTGGGATGTTGGCA
1 TCGATATATGATTTCGTGTAAGACCACGTCTGGGACATTGGCA
39374136 T
1 T
39374137 TGTACGAGCT
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
42 28 0.26
43 49 0.46
44 30 0.28
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGATATATGATTTCGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:39376507 original size:43 final size:43
Alignment explanation
Indices: 39376414--39376564 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
39376404 GATTACCGAG
* *
39376414 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGAAT--TGT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCAT-T
* *
39376456 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCATT
1 A-TGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCATT
* * * * * * *
39376500 ATATGATTTCGTATAAGACCCTGTCTAGGACAGTAGCATCAAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCATT
*
39376543 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
39376565 ATCTGGGATA
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 85 0.96
44 2 0.02
45 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCATT
Found at i:39379360 original size:96 final size:96
Alignment explanation
Indices: 39379191--39379385 Score: 304
Period size: 96 Copynumber: 2.0 Consensus size: 96
39379181 TGAAACCAAA
*
39379191 TCGACCTGAATATAGACAGTGTAGAAAATAGCATATCGGTGATTGTAGATTGAATGATCGGGCCT
1 TCGACCTGAATATAGACAGTGTAGAAAAGAGCATATCGGTGATTGTAGATTGAATGATCGGGCCT
39379256 GTTTTAAATATGGATCACTAGATCATTTCAT
66 GTTTTAAATATGGATCACTAGATCATTTCAT
* * *
39379287 TCGACCTGAATGTAGACAGTGTGGAAAACGA-TATATCGGTGATTGTAGATTGAATGATCGGGCC
1 TCGACCTGAATATAGACAGTGTAGAAAA-GAGCATATCGGTGATTGTAGATTGAATGATCGGGCC
* *
39379351 T-TTTCTAAATGTGGATCATTAGATCATTTCAT
65 TGTTT-TAAATATGGATCACTAGATCATTTCAT
39379383 TCG
1 TCG
39379386 TAACTGTCCT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 3 0.03
96 87 0.96
97 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (96 bp):
TCGACCTGAATATAGACAGTGTAGAAAAGAGCATATCGGTGATTGTAGATTGAATGATCGGGCCT
GTTTTAAATATGGATCACTAGATCATTTCAT
Found at i:39386164 original size:42 final size:41
Alignment explanation
Indices: 39386011--39386237 Score: 224
Period size: 43 Copynumber: 5.4 Consensus size: 41
39386001 ATGCCGTTAT
* * **
39386011 AGAACATGACCTTTAGCGGCACTTTTACAACAAACGCTGCTAA
1 AGAACATGACCTTTAGCGG--CTTTTCCCACAAACGCCACTAA
* *
39386054 AGAACATGGCCTTTAGCTGTGCTTTTCCCACAAACGCCGCTAA
1 AGAACATGACCTTTAGC-G-GCTTTTCCCACAAACGCCACTAA
* *
39386097 AGAACATGACCTTTAGCGGCGTTTTTGCCACAAACGCCACTAT
1 AGAACATGACCTTTAGCGGC--TTTTCCCACAAACGCCACTAA
* * *
39386140 AGAACA-AACCTTTAGCGGCATTTTTGCCACAAACGCCACTAT
1 AGAACATGACCTTTAGCGGC--TTTTCCCACAAACGCCACTAA
* * *
39386182 AGAACA-GGCCTTTAGCGCGCTTTTCCCATAAACACCACTAA
1 AGAACATGACCTTTAGCG-GCTTTTCCCACAAACGCCACTAA
*
39386223 AGAACATGACATTTA
1 AGAACATGACCTTTA
39386238 AAAAAATATT
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
41 25 0.16
42 56 0.35
43 77 0.48
44 1 0.01
45 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
AGAACATGACCTTTAGCGGCTTTTCCCACAAACGCCACTAA
Found at i:39386408 original size:35 final size:35
Alignment explanation
Indices: 39386369--39386437 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
39386359 TTTCTATTAA
*
39386369 AATTTTAACTTAAAAACTAAATATAA-AAATTAATG
1 AATTTAAACTTAAAAACTAAA-ATAATAAATTAATG
* * *
39386404 AATTTAAATTTAGAATCTAAAATAATAAATTAAT
1 AATTTAAACTTAAAAACTAAAATAATAAATTAAT
39386438 AACACAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (35 bp):
AATTTAAACTTAAAAACTAAAATAATAAATTAATG
Found at i:39393323 original size:17 final size:18
Alignment explanation
Indices: 39393281--39393329 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
39393271 AGTTGAAAAG
39393281 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
39393300 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
39393317 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
39393330 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:39394217 original size:40 final size:40
Alignment explanation
Indices: 39394151--39394317 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
39394141 AAATTGAATG
* * *
39394151 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
39394190 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
39394230 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
39394270 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
39394310 ATATCCGG
1 ATATCCGG
39394318 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:39401327 original size:17 final size:18
Alignment explanation
Indices: 39401285--39401333 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
39401275 AGTTGAAAAG
39401285 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
39401304 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
39401321 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
39401334 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:39402221 original size:40 final size:40
Alignment explanation
Indices: 39402155--39402321 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
39402145 AAATTGAATG
* * *
39402155 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
39402194 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
39402234 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
39402274 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
39402314 ATATCCGG
1 ATATCCGG
39402322 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:39405520 original size:29 final size:29
Alignment explanation
Indices: 39405487--39405618 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
39405477 GTGACGAGAT
*
39405487 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
39405516 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
39405545 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
39405574 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
39405603 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39405619 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:39409052 original size:40 final size:40
Alignment explanation
Indices: 39408997--39409204 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
39408987 AACATTGGAA
39408997 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGAT
39409037 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGAT
39409077 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGAT
* * * * *
39409117 ATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TCACC
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA-T
* * * * * *
39409157 AAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGAT
39409197 ATATCCGG
1 ATATCCGG
39409205 TTAAATCCCG
Statistics
Matches: 149, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 147 0.99
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGAT
Found at i:39417183 original size:40 final size:40
Alignment explanation
Indices: 39417128--39417337 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
39417118 AACATTGGAA
39417128 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
39417168 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
39417208 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
39417248 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
39417287 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
39417328 CTATATCCGG
1 ATATATCCGG
39417338 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:39419915 original size:47 final size:47
Alignment explanation
Indices: 39419892--39420152 Score: 387
Period size: 47 Copynumber: 5.6 Consensus size: 47
39419882 ATATATGAGC
* * *
39419892 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
39419939 TAAGGCCAAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
39419986 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * * * *
39420033 TAAGACCGAATGGCCAATGTGATGAATATGAATATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
39420080 TAAGGCCGAAAGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
39420127 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
39420153 CGTGGAAGTG
Statistics
Matches: 195, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 195 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:39419962 original size:94 final size:94
Alignment explanation
Indices: 39419861--39420172 Score: 428
Period size: 94 Copynumber: 3.3 Consensus size: 94
39419851 TTAGGATTTT
* * * * *
39419861 ATGTGATGGATGCGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
39419926 TGCATTTGTGTGCTAAGGCCAAATGGCAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * * *
39419955 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCAATGTGATGAGTGTGAACA
1 ATGTGATGAATGTGAATATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
39420020 TGCATTTGTGTGATAAGACCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * *
39420049 ATGTGATGAATATGAATATGTATATATGTGATAAGGCCGAAAGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
39420114 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
39420143 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAATATGTATATATGTG
39420173 GGGAAGCCGA
Statistics
Matches: 190, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
94 187 0.98
95 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAATATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:39419982 original size:23 final size:23
Alignment explanation
Indices: 39419909--39419982 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
39419899 GAATGGCAAA
39419909 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* ** **
39419932 TGTG-TGCTAAGGCCAA-ATGGCAAA
1 TGTGATG--AATGTGAACAT-GCATT
39419956 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
39419979 TGTG
1 TGTG
39419983 TGCTAAGGCC
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
22 2 0.06
23 18 0.50
24 14 0.39
25 2 0.06
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:39420186 original size:47 final size:47
Alignment explanation
Indices: 39419861--39420172 Score: 347
Period size: 47 Copynumber: 6.6 Consensus size: 47
39419851 TTAGGATTTT
* * ** * * *
39419861 ATGTGATGGATGCGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * * *
39419908 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCAAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
39419955 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
39420002 ATGTGATGAGTGTGAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
39420049 ATGTGATGAATATGAATATGTATATATGTGATAAGGCCGAAAGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
39420096 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
39420143 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
39420173 GGGAAGCCGA
Statistics
Matches: 233, Mismatches: 31, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
47 230 0.99
48 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:39425339 original size:34 final size:34
Alignment explanation
Indices: 39425292--39425356 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
39425282 ATTACTGCAC
* *
39425292 TGATACTATTACTGTAATGGGCTAAGGCCCACAT
1 TGATACTAATACTGTAACGGGCTAAGGCCCACAT
*
39425326 TGATACTAATACTGTAACGGGCTCAGGCCCA
1 TGATACTAATACTGTAACGGGCTAAGGCCCA
39425357 AACTGCATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (34 bp):
TGATACTAATACTGTAACGGGCTAAGGCCCACAT
Found at i:39426617 original size:46 final size:47
Alignment explanation
Indices: 39426473--39426736 Score: 177
Period size: 46 Copynumber: 5.7 Consensus size: 47
39426463 TATGTGTACT
* *
39426473 AGTGTAAGACATGTCTGGGACATGCATCAGCC-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACATGATGAGAGCC
* * ** * **
39426519 AGTGTAAGACCATGTCTGGGATATGACATCGGCATTGA-GACGAGAGAT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTACATGATGAGAGCC
* **
39426567 AGTGTAAGACATGTCTGGGACATGCGTCGGCCTTGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACATGATG-AGAGCC
* ** * **
39426613 AGTGTAAAACATGTCTGAAACATGCATCGG-CTACATGAT--GTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACATGATGAGAGCC
* * * * *
39426657 AGTGTAAGACCATGTCTGGGACATGGAATTGACTTA-ACG-TGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACATGATGAGAGCC
* *
39426704 AATGTAAGACCATGTCTAGGACATGACATCGGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC
39426737 ATTATACCCT
Statistics
Matches: 166, Mismatches: 40, Indels: 23
0.72 0.17 0.10
Matches are distributed among these distances:
44 9 0.05
45 16 0.10
46 60 0.36
47 59 0.36
48 21 0.13
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACATGATGAGAGCC
Found at i:39435290 original size:25 final size:25
Alignment explanation
Indices: 39435261--39435308 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
39435251 TTATAACATG
* *
39435261 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
39435286 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
39435309 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:39435392 original size:11 final size:11
Alignment explanation
Indices: 39435356--39435411 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
39435346 CATGGTATGT
39435356 ATGATATGCAC
1 ATGATATGCAC
* *
39435367 ATGAAATG--T
1 ATGATATGCAC
39435376 ATGATATGCAC
1 ATGATATGCAC
*
39435387 ATGATATG--T
1 ATGATATGCAC
39435396 ATGATATGCAC
1 ATGATATGCAC
39435407 ATGAT
1 ATGAT
39435412 GTATCCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:39435411 original size:20 final size:20
Alignment explanation
Indices: 39435345--39435411 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
39435335 ATTCTGATAA
*
39435345 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
39435365 ACATGAAATGTATGATATGC
1 ACATGATATGTATGATATGC
39435385 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39435405 ACATGAT
1 ACATGAT
39435412 GTATCCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39435552 original size:25 final size:24
Alignment explanation
Indices: 39435461--39435556 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
39435451 GAGGAAGTGC
39435461 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39435485 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39435509 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39435533 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
39435557 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 54 0.83
25 11 0.17
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:39440129 original size:15 final size:15
Alignment explanation
Indices: 39440109--39440148 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
39440099 ATTATGAAAG
39440109 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
39440124 ATATGTTTTAGATTA
1 ATATGTTTTGGATTA
39440139 ATATGTTTTG
1 ATATGTTTTG
39440149 TATTGGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:39446583 original size:26 final size:26
Alignment explanation
Indices: 39446554--39446604 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
39446544 ATATTCAGCT
39446554 ATAACAG-ATATAAATTCTAACATTTC
1 ATAACAGCATATAAATT-TAACATTTC
*
39446580 ATAACAGCATATATATTTAACATTT
1 ATAACAGCATATAAATTTAACATTT
39446605 AACTACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (26 bp):
ATAACAGCATATAAATTTAACATTTC
Found at i:39451950 original size:46 final size:46
Alignment explanation
Indices: 39451807--39452123 Score: 188
Period size: 46 Copynumber: 6.7 Consensus size: 46
39451797 TGATATGTGT
* * *
39451807 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * * * * *
39451853 G-TCAGTGTAAGACCATTTCTGGGATATGGAATCGGCATTGAGACGAGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
*
39451901 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
* * * *
39451947 GCTAGTGTAAGACATGTCTGGAACATGCATCAG-CT--ACATGATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA-GA
* * *
39451991 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACACG-GATAAGTGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT--GAGA
* * * * *
39452039 GGGTCAGTGTAACACAATGTCTAGGACATGGCATC-GACT-GAACATGAGA
1 -GCT-AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCG-AGATGAGA
*
39452088 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
39452124 ATTATACCCT
Statistics
Matches: 212, Mismatches: 36, Indels: 44
0.73 0.12 0.15
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 10 0.05
45 17 0.08
46 60 0.28
47 53 0.25
48 24 0.11
49 9 0.04
50 31 0.15
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:39452059 original size:50 final size:47
Alignment explanation
Indices: 39451810--39452121 Score: 177
Period size: 47 Copynumber: 6.7 Consensus size: 47
39451800 TATGTGTGCT
* ** **
39451810 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACGGAACATGAGAGTC
* * * **
39451856 AGTGTAAGACCATTTCTGGGATATGGAATCGGCATTGAGAC--GAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACGGA-ACATGAGAGTC
* * * *
39451903 TAATGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCG-AGATGTA-AG-C
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-GAC-GGAACATG-AGAGTC
* ** *
39451949 TAGTGTAAGA-CATGTCTGGAACAT-GCATC-A-GCTACATGATGTGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGACGGAACATGA-GAGTC
*
39451994 AGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATA-AGTGAGGGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCG--ACGGA-ACA-TGAGAGTC
* * * * *
39452044 AGTGTAACACAATGTCTAGGACATGGCATCGACTGAACATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACGGAACATGAGAGTC
39452091 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
39452122 GCATTATACC
Statistics
Matches: 206, Mismatches: 38, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 11 0.05
45 14 0.07
46 52 0.25
47 61 0.30
48 23 0.11
49 2 0.01
50 34 0.17
51 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACGGAACATGAGAGTC
Found at i:39454757 original size:61 final size:61
Alignment explanation
Indices: 39454678--39454808 Score: 235
Period size: 61 Copynumber: 2.1 Consensus size: 61
39454668 AAACACATAT
*
39454678 CTTTAGCATGTTAACCACATCTCATCACACATCCATCAAACGACCACAACAAGCATAAACAC
1 CTTT-GCATATTAACCACATCTCATCACACATCCATCAAACGACCACAACAAGCATAAACAC
39454740 CTTTGCATATTAACCACATCTCATCACACATCCATCAAACGACCACAACAAGCATAAACAC
1 CTTTGCATATTAACCACATCTCATCACACATCCATCAAACGACCACAACAAGCATAAACAC
*
39454801 ATTTGCAT
1 CTTTGCAT
39454809 GCGTGCATAA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
61 63 0.94
62 4 0.06
ACGTcount: A:0.40, C:0.33, G:0.06, T:0.21
Consensus pattern (61 bp):
CTTTGCATATTAACCACATCTCATCACACATCCATCAAACGACCACAACAAGCATAAACAC
Found at i:39457694 original size:38 final size:35
Alignment explanation
Indices: 39457635--39457752 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
39457625 TCAATCATGC
*
39457635 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
39457674 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
39457705 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
39457736 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
39457753 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:39457696 original size:31 final size:31
Alignment explanation
Indices: 39457658--39457752 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
39457648 CCTTTTCATA
*
39457658 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39457689 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39457720 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
39457751 TT
1 TT
39457753 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:39457995 original size:24 final size:24
Alignment explanation
Indices: 39457944--39458062 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
39457934 GCTTTATCAT
*
39457944 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
39457969 ATAACTGGGGCAAAAGTCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
39457993 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
39458016 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39458040 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39458063 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 23 0.27
24 51 0.60
25 11 0.13
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39458023 original size:47 final size:48
Alignment explanation
Indices: 39457944--39458062 Score: 161
Period size: 47 Copynumber: 2.5 Consensus size: 48
39457934 GCTTTATCAT
* *
39457944 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGTCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
39457993 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
39458040 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39458063 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
47 43 0.67
48 9 0.14
49 12 0.19
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:39458138 original size:20 final size:20
Alignment explanation
Indices: 39458113--39458151 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
39458103 TATGATTACC
39458113 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
39458133 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
39458152 ACCATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:39461896 original size:19 final size:20
Alignment explanation
Indices: 39461864--39461901 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
39461854 TGCTAAAATT
* *
39461864 TATATAATTTATAT-TTTAA
1 TATATAAGTAATATATTTAA
39461883 TATATAAGTAATATATTTA
1 TATATAAGTAATATATTTA
39461902 TAATAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATATAAGTAATATATTTAA
Found at i:39467311 original size:26 final size:26
Alignment explanation
Indices: 39467282--39467341 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
39467272 TTATAATCAC
39467282 TAAAA-AAAACTAAAAAAATTTATTAG
1 TAAAATAAAACTAAAAAAA-TTATTAG
* * *
39467308 TAAAATAATAGTACAAAAATTATTAG
1 TAAAATAAAACTAAAAAAATTATTAG
39467334 TAAAATAA
1 TAAAATAA
39467342 TAGTACGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.28
Consensus pattern (26 bp):
TAAAATAAAACTAAAAAAATTATTAG
Found at i:39467365 original size:26 final size:26
Alignment explanation
Indices: 39467295--39467357 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
39467285 AAAAAACTAA
39467295 AAAAATTTATTAGTAAAATAATAGTAC
1 AAAAA-TTATTAGTAAAATAATAGTAC
39467322 AAAAATTATTAGTAAAATAATAGTAC
1 AAAAATTATTAGTAAAATAATAGTAC
**
39467348 GCAAATTATT
1 AAAAATTATT
39467358 TGTCAAATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 29 0.85
27 5 0.15
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (26 bp):
AAAAATTATTAGTAAAATAATAGTAC
Found at i:39472916 original size:38 final size:38
Alignment explanation
Indices: 39472872--39473032 Score: 207
Period size: 38 Copynumber: 4.2 Consensus size: 38
39472862 ACTTTAAGCT
* * * *
39472872 CGGATATAATACCAGTACTAAGGC-TGCGGGATTTAACC
1 CGGATATATTACCAGCACGAA-GCATGCGGGACTTAACC
* * *
39472910 CGGATATGTTACCAGCACGAAGCCTGCGGGATTTAACC
1 CGGATATATTACCAGCACGAAGCATGCGGGACTTAACC
* * *
39472948 TGGATATATTACTAGCACGAAGCTTGCGGGACTTAACC
1 CGGATATATTACCAGCACGAAGCATGCGGGACTTAACC
39472986 CGGATATATTACCAGCACGAAGCATGCGGGACTTAACC
1 CGGATATATTACCAGCACGAAGCATGCGGGACTTAACC
*
39473024 TGGATATAT
1 CGGATATAT
39473033 ATCGAGTGCT
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
37 2 0.02
38 107 0.98
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (38 bp):
CGGATATATTACCAGCACGAAGCATGCGGGACTTAACC
Found at i:39473217 original size:32 final size:32
Alignment explanation
Indices: 39473179--39473252 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
39473169 CACAAGAACA
*
39473179 CATAACCATTTCACTATCTCAGCTTAACTCCT
1 CATAACCATTTCACTATCTCAACTTAACTCCT
*
39473211 CATAACCATTTCACTATCTCAACTTCACTCCT
1 CATAACCATTTCACTATCTCAACTTAACTCCT
*
39473243 AATAACCATT
1 CATAACCATT
39473253 CGGTTACATG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.31, C:0.34, G:0.01, T:0.34
Consensus pattern (32 bp):
CATAACCATTTCACTATCTCAACTTAACTCCT
Found at i:39479071 original size:20 final size:20
Alignment explanation
Indices: 39479046--39479090 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
39479036 AGGGACTAAA
*
39479046 ATGAAAAGTT-GAAAATTTT
1 ATGAAAAATTCGAAAATTTT
*
39479065 GATGAAAAATTCTAAAATTTT
1 -ATGAAAAATTCGAAAATTTT
39479086 ATGAA
1 ATGAA
39479091 TACATGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCGAAAATTTT
Found at i:39497142 original size:40 final size:40
Alignment explanation
Indices: 39496976--39497160 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
39496966 TTCGAATGAT
* * *
39496976 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
39497016 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
39497056 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
39497096 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
39497137 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
39497161 TGAATGTGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:39497154 original size:80 final size:80
Alignment explanation
Indices: 39496976--39497163 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
39496966 TTCGAATGAT
* *
39496976 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
39497041 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
39497056 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
39497117 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
39497137 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
39497164 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:39504915 original size:55 final size:55
Alignment explanation
Indices: 39504856--39504966 Score: 129
Period size: 54 Copynumber: 2.0 Consensus size: 55
39504846 CAAACTAACA
* **
39504856 ATTTTTTTGGGAACATTCTGTTTTCTAGTATATG-GTTTAGGG-AAAC-AATTTTTCT
1 ATTTTTTT-AGAACATTCAATTTTCTAGTATA-GAGTTT-GGGAAAACAAATTTTTCT
* *
39504911 ATTTTTTTAGAACATTCAATTTTCTGGTTTAGAGTTTGGGAAAACAAATTTTTCT
1 ATTTTTTTAGAACATTCAATTTTCTAGTATAGAGTTTGGGAAAACAAATTTTTCT
39504966 A
1 A
39504967 GTTTGATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
53 4 0.08
54 26 0.54
55 18 0.38
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (55 bp):
ATTTTTTTAGAACATTCAATTTTCTAGTATAGAGTTTGGGAAAACAAATTTTTCT
Found at i:39505023 original size:30 final size:30
Alignment explanation
Indices: 39504989--39505047 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
39504979 CAAATTTTTG
*
39504989 TTTTTGTTTGTATTATATCTAACTTCAAAT
1 TTTTTATTTGTATTATATCTAACTTCAAAT
* *
39505019 TTTTTATTTGTATTATATTTTACTTCAAA
1 TTTTTATTTGTATTATATCTAACTTCAAA
39505048 ATTTGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTTTATTTGTATTATATCTAACTTCAAAT
Found at i:39505059 original size:30 final size:30
Alignment explanation
Indices: 39504995--39505059 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
39504985 TTTGTTTTTG
*
39504995 TTTGTATTATATCTAACTTCAAATTTTTTA
1 TTTGTATTATATCTAACTTCAAATTTGTTA
* *
39505025 TTTGTATTATATTTTACTTCAAAATTTGTT-
1 TTTGTATTATATCTAACTTC-AAATTTGTTA
39505055 TTTGT
1 TTTGT
39505060 TTTTGTTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.26, C:0.08, G:0.06, T:0.60
Consensus pattern (30 bp):
TTTGTATTATATCTAACTTCAAATTTGTTA
Found at i:39505220 original size:15 final size:13
Alignment explanation
Indices: 39505162--39505235 Score: 73
Period size: 13 Copynumber: 5.7 Consensus size: 13
39505152 TTACCAAAGC
39505162 ATGTTATGTA--T
1 ATGTTATGTATGT
39505173 ACTGTTAT-TATGT
1 A-TGTTATGTATGT
*
39505186 CTGTTATGTATGT
1 ATGTTATGTATGT
*
39505199 ATGTTATGTATATT
1 ATGTTATGTAT-GT
39505213 ATTGTTATGTATGT
1 A-TGTTATGTATGT
*
39505227 TTGTTATGT
1 ATGTTATGT
39505236 GGTATATTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
11 3 0.06
12 12 0.23
13 24 0.46
14 3 0.06
15 10 0.19
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.57
Consensus pattern (13 bp):
ATGTTATGTATGT
Found at i:39505221 original size:37 final size:37
Alignment explanation
Indices: 39505162--39505235 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
39505152 TTACCAAAGC
* *
39505162 ATGTTATGTATACTGTTATTATGTCTGTTATG-TATGT
1 ATGTTATGTATACTATTATTATGTATGTT-TGTTATGT
* *
39505199 ATGTTATGTATATTATTGTTATGTATGTTTGTTATGT
1 ATGTTATGTATACTATTATTATGTATGTTTGTTATGT
39505236 GGTATATTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.57
Consensus pattern (37 bp):
ATGTTATGTATACTATTATTATGTATGTTTGTTATGT
Found at i:39505338 original size:79 final size:79
Alignment explanation
Indices: 39505218--39505426 Score: 262
Period size: 79 Copynumber: 2.7 Consensus size: 79
39505208 ATATTATTGT
* * * * *
39505218 TATGTATGTTTGTTATGTGGTATATTACGGTTATGTATGTGAC-AGTTATGTCGTATATTACTAT
1 TATGTATGTATGTTATGTAGTATTTTACTGTTATGTATGTGACTA-TTATGTAGTATATTACTAT
* *
39505282 TATGAATATGTTTGC
65 TATGAACATGTCTGC
* * *
39505297 TATGCATGTATGTTATGTAGTATTTTACTGTTATGTATGTGACTATTATGTAGTATATTATTGTT
1 TATGTATGTATGTTATGTAGTATTTTACTGTTATGTATGTGACTATTATGTAGTATATTACTATT
*
39505362 ATGAACATGTCTGT
66 ATGAACATGTCTGC
* *
39505376 TATGTATGTATATTATGTAGTATTTTACTGTTTATGAATGT-A-TATTATGTA
1 TATGTATGTATGTTATGTAGTATTTTACTG-TTATGTATGTGACTATTATGTA
39505427 TGTTATGTTT
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
78 9 0.08
79 95 0.83
80 10 0.09
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.50
Consensus pattern (79 bp):
TATGTATGTATGTTATGTAGTATTTTACTGTTATGTATGTGACTATTATGTAGTATATTACTATT
ATGAACATGTCTGC
Found at i:39505379 original size:33 final size:33
Alignment explanation
Indices: 39505301--39505391 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
39505291 GTTTGCTATG
* * * *
39505301 CATGTATGTTATGTAGTATTTTACTGTTATGTA
1 CATGTCTGTTATGTAGTATATTATTGTTATGAA
** * *
39505334 TGTGACTATTATGTAGTATATTATTGTTATGAA
1 CATGTCTGTTATGTAGTATATTATTGTTATGAA
39505367 CATGTCTGTTATGTATGTATATTAT
1 CATGTCTGTTATGTA-GTATATTAT
39505392 GTAGTATTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
33 36 0.80
34 9 0.20
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (33 bp):
CATGTCTGTTATGTAGTATATTATTGTTATGAA
Found at i:39505392 original size:9 final size:9
Alignment explanation
Indices: 39505380--39505463 Score: 51
Period size: 9 Copynumber: 8.6 Consensus size: 9
39505370 GTCTGTTATG
39505380 TATGTATAT
1 TATGTATAT
39505389 TATGTAGTATTT
1 TATGTA-TA--T
*
39505401 TACTGTTTAT
1 TA-TGTATAT
*
39505411 GAATGTATAT
1 -TATGTATAT
*
39505421 TATGTATGT
1 TATGTATAT
*
39505430 TATGTTTAAT
1 TATGTAT-AT
*
39505440 GTATGTATGT
1 -TATGTATAT
*
39505450 TATGTATGT
1 TATGTATAT
39505459 TATGT
1 TATGT
39505464 TTAAAGAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
9 33 0.56
10 11 0.19
11 7 0.12
12 5 0.08
13 3 0.05
ACGTcount: A:0.26, C:0.01, G:0.18, T:0.55
Consensus pattern (9 bp):
TATGTATAT
Found at i:39505398 original size:46 final size:47
Alignment explanation
Indices: 39505324--39505429 Score: 137
Period size: 46 Copynumber: 2.3 Consensus size: 47
39505314 TAGTATTTTA
*
39505324 CTGTTATGTATGTGACTATTATGTAGTATATTATTG-TTATGAACATGT
1 CTGTTATGTATGTGACTATTATGTAGTATATTACTGTTTATG-A-ATGT
*
39505372 CTGTTATGTATGT-A-TATTATGTAGTATTTTACTGTTTATGAATGT
1 CTGTTATGTATGTGACTATTATGTAGTATATTACTGTTTATGAATGT
* *
39505417 ATATTATGTATGT
1 CTGTTATGTATGT
39505430 TATGTTTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
45 15 0.28
46 19 0.36
47 6 0.11
48 13 0.25
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (47 bp):
CTGTTATGTATGTGACTATTATGTAGTATATTACTGTTTATGAATGT
Found at i:39505443 original size:16 final size:16
Alignment explanation
Indices: 39505422--39505482 Score: 83
Period size: 16 Copynumber: 4.0 Consensus size: 16
39505412 AATGTATATT
39505422 ATGTATGTTATGTTTA
1 ATGTATGTTATGTTTA
39505438 ATGTATG-TATG-TT-
1 ATGTATGTTATGTTTA
39505451 ATGTATGTTATGTTTA
1 ATGTATGTTATGTTTA
* *
39505467 AAGAATGTTATGTTTA
1 ATGTATGTTATGTTTA
39505483 GCATTGTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.17
14 6 0.15
15 6 0.15
16 21 0.52
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (16 bp):
ATGTATGTTATGTTTA
Found at i:39505446 original size:29 final size:29
Alignment explanation
Indices: 39505377--39505467 Score: 112
Period size: 29 Copynumber: 3.0 Consensus size: 29
39505367 CATGTCTGTT
*
39505377 ATGTATGTATATTATGTAGTATTTTACTGTTT-
1 ATGTATGTATATTA--T-GTATGTTA-TGTTTA
*
39505409 ATGAATGTATATTATGTATGTTATGTTTA
1 ATGTATGTATATTATGTATGTTATGTTTA
*
39505438 ATGTATGTATGTTATGTATGTTATGTTTA
1 ATGTATGTATATTATGTATGTTATGTTTA
39505467 A
1 A
39505468 AGAATGTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 5 0.09
29 35 0.65
30 1 0.02
32 13 0.24
ACGTcount: A:0.27, C:0.01, G:0.18, T:0.54
Consensus pattern (29 bp):
ATGTATGTATATTATGTATGTTATGTTTA
Found at i:39505474 original size:29 final size:29
Alignment explanation
Indices: 39505411--39505480 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
39505401 TACTGTTTAT
* *
39505411 GAATGTATATTATGTATGTTATGTTTAAT
1 GAATGTATGTTATGTATGTTATGTTTAAA
*
39505440 GTATGTATGTTATGTATGTTATGTTTAAA
1 GAATGTATGTTATGTATGTTATGTTTAAA
39505469 GAATGTTATGTT
1 GAATG-TATGTT
39505481 TAGCATTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 30 0.83
30 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (29 bp):
GAATGTATGTTATGTATGTTATGTTTAAA
Found at i:39516397 original size:40 final size:40
Alignment explanation
Indices: 39516318--39516481 Score: 204
Period size: 40 Copynumber: 4.1 Consensus size: 40
39516308 CGGATGATAA
* * * *
39516318 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
* * *
39516358 CCGGGCTATGACCCGAAGGCATTTATGCTAG-CGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCG-CTATAT
* *
39516398 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
* * *
39516438 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
39516478 CCGG
1 CCGG
39516482 TTAAATCCCG
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 107 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
Found at i:39516476 original size:80 final size:80
Alignment explanation
Indices: 39516318--39516481 Score: 258
Period size: 80 Copynumber: 2.0 Consensus size: 80
39516308 CGGATGATAA
* *
39516318 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGACCCGAAGGCATTTA
1 CCGGACTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
39516383 TGCTAGCGATTATAT
66 TGCGAGCGATTATAT
* *
39516398 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGACTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
39516463 TGCGAGTTG-TTATAT
66 TGCGAG-CGATTATAT
39516478 CCGG
1 CCGG
39516482 TTAAATCCCG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 76 0.99
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGACTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGCGATTATAT
Found at i:39517998 original size:25 final size:26
Alignment explanation
Indices: 39517942--39518001 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
39517932 GAGATGTAAA
39517942 CGATAAGCTCCTCCGACCTGAATAAT
1 CGATAAGCTCCTCCGACCTGAATAAT
* *
39517968 -GGTAAGCTCCTCCGAGCTGAAT-AT
1 CGATAAGCTCCTCCGACCTGAATAAT
39517992 CGATAAGCTC
1 CGATAAGCTC
39518002 ATGCGAGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (26 bp):
CGATAAGCTCCTCCGACCTGAATAAT
Found at i:39518008 original size:25 final size:25
Alignment explanation
Indices: 39517942--39518038 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 25
39517932 GAGATGTAAA
* *
39517942 CGATAAGCTCCTCCGACCTGAATAAT
1 CGATAAGCTCATCCGAGCTGAAT-AT
* *
39517968 -GGTAAGCTCCTCCGAGCTGAATAT
1 CGATAAGCTCATCCGAGCTGAATAT
* * *
39517992 CGATAAGCTCATGCGAGTTGAGTAT
1 CGATAAGCTCATCCGAGCTGAATAT
* * * *
39518017 GGGTAAGCTCATACGAACTGAA
1 CGATAAGCTCATCCGAGCTGAA
39518039 ATCAGTAACC
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 2 0.04
25 55 0.96
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (25 bp):
CGATAAGCTCATCCGAGCTGAATAT
Found at i:39520486 original size:46 final size:45
Alignment explanation
Indices: 39520433--39520608 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
39520423 TATTTGGGCA
*
39520433 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
39520479 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
39520526 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
39520572 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39520609 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 66 0.60
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:39520588 original size:93 final size:93
Alignment explanation
Indices: 39520429--39520600 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
39520419 AGGATATTTG
*
39520429 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
39520494 TTGAGTCCGAGTTCGAGAAATGTAACTA
66 TTGAGTCCGAGTTCGAGAAATGTAACTA
* * *
39520522 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
39520586 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
39520601 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAAATGTAACTA
Found at i:39524643 original size:48 final size:48
Alignment explanation
Indices: 39524562--39524736 Score: 197
Period size: 48 Copynumber: 3.6 Consensus size: 48
39524552 AAAAGGGTAA
* * *
39524562 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAC
* * * ** **
39524610 AATACCGATACCATGTTTCAAACATGGTCTTACACTGGCTCGTATATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAC
* * * * * * *
39524658 GAGGCCAATGCCATGTCCCAAACATGGTCTTACCCTAGCTCTCATAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAC
39524706 AATGCCGATGCCATGTTCCAAACATGGTCTT
1 AATGCCGATGCCATGTTCCAAACATGGTCTT
39524737 GGATTGGCTC
Statistics
Matches: 100, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 100 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (48 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAC
Found at i:39529169 original size:30 final size:30
Alignment explanation
Indices: 39529133--39529263 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
39529123 GACAAGATTG
* * * * *
39529133 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
39529163 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
39529191 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
39529221 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
39529250 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39529264 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:39529224 original size:58 final size:58
Alignment explanation
Indices: 39529133--39529263 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
39529123 GACAAGATTG
* * * * * *
39529133 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
39529191 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
39529250 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39529264 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:39536997 original size:30 final size:30
Alignment explanation
Indices: 39536961--39537091 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
39536951 GACAAGATTG
* * * * *
39536961 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
39536991 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
39537019 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
39537049 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
39537078 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39537092 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:39537052 original size:58 final size:58
Alignment explanation
Indices: 39536961--39537091 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
39536951 GACAAGATTG
* * * * * *
39536961 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
39537019 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
39537078 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39537092 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:39538581 original size:17 final size:18
Alignment explanation
Indices: 39538559--39538593 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39538549 TTACATTGAA
39538559 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
39538576 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
39538594 CTTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:39539741 original size:56 final size:56
Alignment explanation
Indices: 39539637--39539743 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 56
39539627 CATGCATATA
* **
39539637 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAGTTCATATTCTTATG
1 GCCCACTAGGCCCAATCTCATTC-AATGGCCCATCTGGCCCAAATCATATTCTTATG
39539694 GCCCACTAGGCCCAAT-TCACCTTC-ATGGCCCAT-TAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATCTCA--TTCAATGGCCCATCT-GGCCCAAATCATATT
39539744 ATACTCATGC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
55 1 0.02
56 24 0.55
57 16 0.36
58 3 0.07
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (56 bp):
GCCCACTAGGCCCAATCTCATTCAATGGCCCATCTGGCCCAAATCATATTCTTATG
Found at i:39539855 original size:19 final size:19
Alignment explanation
Indices: 39539822--39539868 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
39539812 TGGGGCCAAC
*
39539822 AGCCCA-TCAGGCCCATTT
1 AGCCCATTCTGGCCCATTT
39539840 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
* *
39539859 GGCCAATTCT
1 AGCCCATTCT
39539869 CAACCCAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.28
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Found at i:39547389 original size:28 final size:28
Alignment explanation
Indices: 39547358--39547430 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
39547348 CATGCATATA
*
39547358 GCCCACTAGGCCCAATCTTATTC-AAAT
1 GCCCACTAGGCCCAATCATATTCTAAAT
39547385 GGCCCATCT-GGCCCAATTCATATTCTTAAAT
1 -GCCCA-CTAGGCCCAA-TCATATTC-TAAAT
39547416 -CCCACTAGGCCCAAT
1 GCCCACTAGGCCCAAT
39547431 TCACCTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
28 15 0.38
29 20 0.51
31 4 0.10
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.26
Consensus pattern (28 bp):
GCCCACTAGGCCCAATCATATTCTAAAT
Found at i:39547713 original size:15 final size:16
Alignment explanation
Indices: 39547681--39547714 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39547671 GTAGCCCAAC
*
39547681 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
39547697 TTTCAGCTTTT-GGCA
1 TTTCAGCTTTTCGGCA
39547712 TTT
1 TTT
39547715 TGGCTTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.09, C:0.21, G:0.21, T:0.50
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:39547720 original size:15 final size:15
Alignment explanation
Indices: 39547681--39547723 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
39547671 GTAGCCCAAC
39547681 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTT-GGCA
*
39547697 TTTCAGCTTTTGGCA
1 TTTCGGCTTTTGGCA
*
39547712 TTTTGGCTTTTG
1 TTTCGGCTTTTG
39547724 CTGATTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.07, C:0.19, G:0.23, T:0.51
Consensus pattern (15 bp):
TTTCGGCTTTTGGCA
Found at i:39550912 original size:46 final size:46
Alignment explanation
Indices: 39550803--39550964 Score: 136
Period size: 46 Copynumber: 3.6 Consensus size: 46
39550793 TCCCAAAGTG
* *
39550803 GTGTCGTAGTATCTTTCAACTATGGTTTTGATTCAATCACATTTAA
1 GTGTCGTAGTATCTTTCAACTATGGTTTTGATTCAATCACAGTAAA
* * * **
39550849 -TGTCATAGCATCTTTTCAACTATGGTTTTG-TTCATTTTTCAGTAAA
1 GTGTCGTAGTATC-TTTCAACTATGGTTTTGATTCA-ATCACAGTAAA
* * * * *
39550895 GTGTCGTAGTATCTTTCAACTAAGGTCTT-ATCCAAT-TCAGTTTAA
1 GTGTCGTAGTATCTTTCAACTATGGTTTTGATTCAATCACAG-TAAA
* *
39550940 -TGCCATAGTATCTTTCAACTATGGT
1 GTGTCGTAGTATCTTTCAACTATGGT
39550965 CTTTCTCATT
Statistics
Matches: 94, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
44 26 0.28
45 18 0.19
46 40 0.43
47 10 0.11
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (46 bp):
GTGTCGTAGTATCTTTCAACTATGGTTTTGATTCAATCACAGTAAA
Found at i:39550985 original size:44 final size:44
Alignment explanation
Indices: 39550809--39551014 Score: 127
Period size: 44 Copynumber: 4.6 Consensus size: 44
39550799 AGTGGTGTCG
* * * *
39550809 TAGTATCTTTCAACTATGGT-TTTGATTCAA-TCACATTTAATGTCA
1 TAGTATCTTTCAACTATGGTCTTT--CTCAATTCA-GTATAATGCCA
* * * * *
39550854 TAGCATCTTTTCAACTATGGT-TTTGTTCATTTTTCAGTA-AAGTGTCG
1 TAGTATC-TTTCAACTATGGTCTTT-CTCA--ATTCAGTATAA-TGCCA
* *
39550901 TAGTATCTTTCAACTAAGGTCTTATC-CAATTCAGTTTAATGCCA
1 TAGTATCTTTCAACTATGGTCTT-TCTCAATTCAGTATAATGCCA
* ** *
39550945 TAGTATCTTTCAACTATGGTCTTTCTCATTTTGGTATAATGCTA
1 TAGTATCTTTCAACTATGGTCTTTCTCAATTCAGTATAATGCCA
* *
39550989 T-GATATCTTTCAACCATGGTGTTTCT
1 TAG-TATCTTTCAACTATGGTCTTTCT
39551015 TGTTTTCTCA
Statistics
Matches: 130, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.02
44 66 0.51
45 12 0.09
46 32 0.25
47 13 0.10
48 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.45
Consensus pattern (44 bp):
TAGTATCTTTCAACTATGGTCTTTCTCAATTCAGTATAATGCCA
Found at i:39553338 original size:12 final size:12
Alignment explanation
Indices: 39553321--39553345 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39553311 GGTTCCTCAG
39553321 TTGATTTAAACA
1 TTGATTTAAACA
39553333 TTGATTTAAACA
1 TTGATTTAAACA
39553345 T
1 T
39553346 GAGTATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTGATTTAAACA
Found at i:39554801 original size:16 final size:16
Alignment explanation
Indices: 39554782--39554815 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
39554772 AAAAATAGTG
39554782 TACAATTAACATAAAA
1 TACAATTAACATAAAA
39554798 TACAATTAACATAAAA
1 TACAATTAACATAAAA
39554814 TA
1 TA
39554816 TAATGCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
TACAATTAACATAAAA
Found at i:39557293 original size:27 final size:27
Alignment explanation
Indices: 39557251--39557304 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
39557241 AAACATCCCC
*
39557251 TTTCATTTTGATCATAACTCTTCACGA
1 TTTCATTTTGACCATAACTCTTCACGA
39557278 TTTCATTTTGACCATAACTCTTCACGA
1 TTTCATTTTGACCATAACTCTTCACGA
39557305 GTTGGTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (27 bp):
TTTCATTTTGACCATAACTCTTCACGA
Found at i:39566307 original size:12 final size:12
Alignment explanation
Indices: 39566290--39566327 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
39566280 CCACTAAATT
39566290 AAAGAATTAAAG
1 AAAGAATTAAAG
39566302 AAAGAATTAAAG
1 AAAGAATTAAAG
39566314 AAAGAATTAAAG
1 AAAGAATTAAAG
39566326 AA
1 AA
39566328 TCAAAACTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AAAGAATTAAAG
Found at i:39567313 original size:14 final size:14
Alignment explanation
Indices: 39567294--39567326 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
39567284 TTATTTACTC
39567294 TATTTATTTTTAAT
1 TATTTATTTTTAAT
39567308 TATTTATTTTTAAT
1 TATTTATTTTTAAT
39567322 T-TTTA
1 TATTTA
39567327 AATACACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTATTTTTAAT
Found at i:39569651 original size:16 final size:16
Alignment explanation
Indices: 39569604--39569671 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
39569594 CATAAAAATT
* *
39569604 AATAATTCAAACTTGAA
1 AATAATTTAAA-TTTAA
* * *
39569621 AATCATGTAAGTTTAA
1 AATAATTTAAATTTAA
*
39569637 AATAATTTTAATTTAA
1 AATAATTTAAATTTAA
* *
39569653 AATAGTTTAAATTTGA
1 AATAATTTAAATTTAA
39569669 AAT
1 AAT
39569672 GATTGAAAAC
Statistics
Matches: 39, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
16 32 0.82
17 7 0.18
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:39570347 original size:11 final size:10
Alignment explanation
Indices: 39570319--39570396 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 10
39570309 GTATTATTTT
*
39570319 TTTTTTAGAA
1 TTTTTTATAA
39570329 -TTTTTATAA
1 TTTTTTATAA
39570338 TTTTTCTATAA
1 TTTTT-TATAA
*
39570349 TTTTATAACTAA
1 TTTT-TTA-TAA
39570361 TTTTTTAAAATAA
1 TTTTTT---ATAA
*
39570374 TTTTCTAT-A
1 TTTTTTATAA
*
39570383 TTTTTTATGA
1 TTTTTTATAA
39570393 TTTT
1 TTTT
39570397 CTAGAAGTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
9 16 0.29
10 11 0.20
11 11 0.20
12 8 0.15
13 8 0.15
14 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:39570528 original size:16 final size:16
Alignment explanation
Indices: 39570509--39570540 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39570499 ATTACCATTT
39570509 TTTCATATCAATTATC
1 TTTCATATCAATTATC
39570525 TTTCATATCAATTATC
1 TTTCATATCAATTATC
39570541 AAATCAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTCATATCAATTATC
Found at i:39578057 original size:12 final size:12
Alignment explanation
Indices: 39578040--39578080 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
39578030 GGAGATAGGA
39578040 AAAACAGGTTCC
1 AAAACAGGTTCC
*
39578052 AAAACAGG---A
1 AAAACAGGTTCC
39578061 AAAACAGGTTCC
1 AAAACAGGTTCC
39578073 AAAACAGG
1 AAAACAGG
39578081 AAAAACAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (12 bp):
AAAACAGGTTCC
Found at i:39578061 original size:21 final size:21
Alignment explanation
Indices: 39578036--39578088 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
39578026 CAGTGGAGAT
39578036 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
39578057 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
39578078 AGGAAAAACAG
1 AGGAAAAACAG
39578089 TGGCTGTAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.55, C:0.17, G:0.21, T:0.08
Consensus pattern (21 bp):
AGGAAAAACAGGTTCCAAAAC
Found at i:39583901 original size:15 final size:15
Alignment explanation
Indices: 39583861--39583901 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
39583851 CGAACTAAAA
*
39583861 TAATTTTAAATTTTT
1 TAATTTTAAATATTT
*
39583876 TAAATTATAAATATTT
1 T-AATTTTAAATATTT
39583892 TAATTTTAAA
1 TAATTTTAAA
39583902 AATAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTTTAAATATTT
Found at i:39585129 original size:7 final size:7
Alignment explanation
Indices: 39585119--39585145 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
39585109 AATACATAAT
39585119 ATATTAA
1 ATATTAA
39585126 ATATTAA
1 ATATTAA
39585133 ATATTAA
1 ATATTAA
39585140 ATATTA
1 ATATTA
39585146 TTGTTTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATTAA
Found at i:39592667 original size:16 final size:17
Alignment explanation
Indices: 39592643--39592675 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
39592633 AAATAACTAG
39592643 ATGCAAAATTAACCTAA
1 ATGCAAAATTAACCTAA
39592660 ATGC-AAATTAACCTAA
1 ATGCAAAATTAACCTAA
39592676 GTGTGATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
ATGCAAAATTAACCTAA
Found at i:39599948 original size:46 final size:46
Alignment explanation
Indices: 39599881--39600055 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
39599871 TGTAACCCGC
*
39599881 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
39599927 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * ** *
39599977 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
39600020 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
39600056 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.58
47 27 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:39600000 original size:93 final size:93
Alignment explanation
Indices: 39599888--39600059 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
39599878 CGCCCATAAG
** *
39599888 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39599953 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
39599981 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39600046 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
39600060 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:39601670 original size:16 final size:17
Alignment explanation
Indices: 39601641--39601673 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
39601631 AAATAACTAG
39601641 ATGCAAAATAAACCTAA
1 ATGCAAAATAAACCTAA
*
39601658 ATGC-AAATTAACCTAA
1 ATGCAAAATAAACCTAA
39601674 GTGTGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.18, G:0.06, T:0.21
Consensus pattern (17 bp):
ATGCAAAATAAACCTAA
Found at i:39602601 original size:29 final size:29
Alignment explanation
Indices: 39602559--39602620 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
39602549 ATAAATGAAT
39602559 GGGAAGTAAAGGGTGGTATTTATAGTAGA
1 GGGAAGTAAAGGGTGGTATTTATAGTAGA
*
39602588 GGGAATTAAAGGGTGGTATTTATAGTAGA
1 GGGAAGTAAAGGGTGGTATTTATAGTAGA
39602617 GGGA
1 GGGA
39602621 CGGCTAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.39, T:0.27
Consensus pattern (29 bp):
GGGAAGTAAAGGGTGGTATTTATAGTAGA
Done.