Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 148 of 203
Found at i:47114371 original size:20 final size:20
Alignment explanation
Indices: 47114335--47114374 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47114325 AATGTGCGAT
* *
47114335 CAGAGGCACCGAGGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
47114355 CAGAGGCACCAAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
47114375 TCCTGTACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.25, G:0.30, T:0.05
Consensus pattern (20 bp):
CAGAGGCACCAAAGTGCAAA
Found at i:47141110 original size:23 final size:23
Alignment explanation
Indices: 47141084--47141134 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
47141074 AGGTTATAAT
*
47141084 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
47141107 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
47141130 AGTAA
1 TGTAA
47141135 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:47149861 original size:40 final size:39
Alignment explanation
Indices: 47149830--47150039 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
47149820 GGACTAAGAT
* *
47149830 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
47149870 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
47149910 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
47149950 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
47149990 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
47150029 CCGAAGGCATT
1 CCGAAGGCATT
47150040 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:47149993 original size:120 final size:120
Alignment explanation
Indices: 47149777--47150039 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
47149767 TTGAATGCTG
* *
47149777 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
47149841 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
47149897 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
47149960 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
47150016 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47150040 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:47150059 original size:79 final size:80
Alignment explanation
Indices: 47149830--47150074 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
47149820 GGACTAAGAT
* * * * * * * ** *
47149830 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
47149893 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
47149910 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
47149975 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
47149990 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
47150054 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
47150068 CCGAAGG
1 CCGAAGG
47150075 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:47152443 original size:12 final size:13
Alignment explanation
Indices: 47152417--47152459 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
47152407 TTCTCCGAAG
47152417 AAGAAAAAATGAA
1 AAGAAAAAATGAA
*
47152430 AAGAAAAACT-AA
1 AAGAAAAAATGAA
* *
47152442 AAGCAAAATTGAA
1 AAGAAAAAATGAA
47152455 AAGAA
1 AAGAA
47152460 TTCCCTTAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (13 bp):
AAGAAAAAATGAA
Found at i:47154978 original size:132 final size:133
Alignment explanation
Indices: 47154731--47154983 Score: 393
Period size: 132 Copynumber: 1.9 Consensus size: 133
47154721 AGTCCTTATA
* ** *
47154731 TTTTCTAATTTTTCCAATTTAGTTTCAAATTTGATTTCCATCATACTAATGCATATTTCAACTAA
1 TTTTCTAAATTTTCCAATTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCAACTAA
* *
47154796 TTCTTATGTCATTAAATCAATAATAACTCATATTTTCACATTTTGGTCAAATTGTATTGTCCATG
66 TTCTTATATCATTAAATCAATAATAACTCATATTTTCACATTTTGATCAAATTGTATTGTCCATG
47154861 TAC
131 TAC
* * *
47154864 TTTT-TAAATTTTCCATTTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCATCTTA
1 TTTTCTAAATTTTCCAATTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCAACTAA
*
47154928 TTCTTATATCAATT-AATCAATAATAACTTATATTTTCACATTTTGATCAAATTGTA
66 TTCTTATATC-ATTAAATCAATAATAACTCATATTTTCACATTTTGATCAAATTGTA
47154984 CTTTACTCCT
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
132 102 0.94
133 7 0.06
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.46
Consensus pattern (133 bp):
TTTTCTAAATTTTCCAATTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCAACTAA
TTCTTATATCATTAAATCAATAATAACTCATATTTTCACATTTTGATCAAATTGTATTGTCCATG
TAC
Found at i:47160127 original size:19 final size:19
Alignment explanation
Indices: 47160103--47160141 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47160093 CTACTAAGAT
47160103 ACTTTTTACTCCCAATATC
1 ACTTTTTACTCCCAATATC
* *
47160122 ACTTTTTATTTCCAATATC
1 ACTTTTTACTCCCAATATC
47160141 A
1 A
47160142 TGTTTTTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (19 bp):
ACTTTTTACTCCCAATATC
Found at i:47162687 original size:33 final size:34
Alignment explanation
Indices: 47162622--47162688 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
47162612 TCATTAGTGC
* * * *
47162622 ATTTGTTTCTGATATCCATAAATTTTTTTAGCAT
1 ATTTGTTTCCGAAATACACAAATTTTTTTAGCAT
47162656 ATTTGTTTCCGAAATACACAAA-TTTTTTAGCAT
1 ATTTGTTTCCGAAATACACAAATTTTTTTAGCAT
47162689 TGTTTTTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (34 bp):
ATTTGTTTCCGAAATACACAAATTTTTTTAGCAT
Found at i:47163181 original size:25 final size:25
Alignment explanation
Indices: 47163126--47163181 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
47163116 ATATGAATGA
*
47163126 ATAA-AAA-TATATTTTTTATAAAT
1 ATAATAAATTATATTTATTATAAAT
*
47163149 ATAGTAAATTATATTTATT-TAAAT
1 ATAATAAATTATATTTATTATAAAT
47163173 ATTAATAAA
1 A-TAATAAA
47163182 GTCAGTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 9 0.33
25 15 0.56
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
ATAATAAATTATATTTATTATAAAT
Found at i:47164253 original size:30 final size:28
Alignment explanation
Indices: 47164198--47164264 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
47164188 TTTAAATAGT
47164198 ATTTCTAAAAATGTTTAATAGTATTATAATA
1 ATTT-TAAAAATGTTTAATAGTATTA-AA-A
*
47164229 ATTTTAAAAATGCTTTAA-ATTATTAAAA
1 ATTTTAAAAATG-TTTAATAGTATTAAAA
47164257 A-TTTAAAA
1 ATTTTAAAA
47164265 GAAAATGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 7 0.21
28 2 0.06
29 2 0.06
30 14 0.41
31 9 0.26
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (28 bp):
ATTTTAAAAATGTTTAATAGTATTAAAA
Found at i:47179971 original size:256 final size:259
Alignment explanation
Indices: 47179504--47180013 Score: 762
Period size: 256 Copynumber: 2.0 Consensus size: 259
47179494 CTACAGTTGT
* * * * *
47179504 AACAACCCGTTTTTCAGTGGTGTAAAAATAGTGGTTTCGAAACCACAAATTCGATGAGTGAGCTT
1 AACAACCCGCTTTTCAATGGTGTAAAAATAGTGGTTTCGAAACCAAAAATTCGACGAGTGAGCTC
* *
47179569 GTAAATATTATTAATTAATATTTACGGGTCAAGTATAATATTATTGAAGTTTCAATTTAATAAAA
66 GTAAATATTATTAATTAATATTTACGAGTCAAGTATAATATTATTGAAATTTCAATTTAATAAAA
* *
47179634 GTTGCTAATTCGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTGGAAAA
131 GTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTAGAAAA
* * *
47179699 TGAGGAATCAAGACCTCGTTTCTATAAACCGAG-CCTGTAAATATTTAACAAAATATTTAGTAGG
196 CGAGCAATCAAGACCTCATTTCTATAAACCGAGCCCT-TAAATATTTAACAAAATATTTAGTAGG
*
47179763 AACAACCC-CTTTTCAATGGTGTCAAAAATAGTGGTTTCGAAACCAAAAATTGGACGAGTGAGCT
1 AACAACCCGCTTTTCAATGGTGT-AAAAATAGTGGTTTCGAAACCAAAAATTCGACGAGTGAGCT
* *
47179827 CGT-AA-A-TATTAATTAATATTTATGAGTCAAGTATAATATTATTGAAATTTCGATTTAATAAA
65 CGTAAATATTATTAATTAATATTTACGAGTCAAGTATAATATTATTGAAATTTCAATTTAATAAA
* *
47179889 ATTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCTTAAAGTCAAGTGGTTTTAGAAA
130 AGTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTAGAAA
* * * *
47179954 ACGA-CATATCGAGACCTCATTTTTATAAATCGAGCCCTTAAATATTTAATAAAATATTTA
195 ACGAGCA-ATCAAGACCTCATTTCTATAAACCGAGCCCTTAAATATTTAACAAAATATTTA
47180014 TGGAGTGTTA
Statistics
Matches: 227, Mismatches: 21, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
255 1 0.00
256 160 0.70
257 4 0.02
258 14 0.06
259 48 0.21
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (259 bp):
AACAACCCGCTTTTCAATGGTGTAAAAATAGTGGTTTCGAAACCAAAAATTCGACGAGTGAGCTC
GTAAATATTATTAATTAATATTTACGAGTCAAGTATAATATTATTGAAATTTCAATTTAATAAAA
GTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTAGAAAA
CGAGCAATCAAGACCTCATTTCTATAAACCGAGCCCTTAAATATTTAACAAAATATTTAGTAGG
Found at i:47181499 original size:46 final size:46
Alignment explanation
Indices: 47181376--47181953 Score: 644
Period size: 46 Copynumber: 12.6 Consensus size: 46
47181366 CATGATTCAG
* * * * * *
47181376 ATGAGTAAAACCATAGTTGAAAGACACTATGACATCCTATCA-AAT
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* *
47181421 ATGAATAAGACCATAGTTTAAAGACACTATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* *
47181467 ATGAATAAGACCATGGTTGAAAAACACAATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * * * * *
47181513 TTAAATAAGACCGTGGTTGAAAGACACTTTTGACAACATATC-GAGAA
1 ATGAATAAGACCATGGTTGAAAGACAC-TATGGCATCATATCAGA-AA
* * * * *
47181560 ATCAATAAGACCATAGTTGAAAGTCACGATGACATCATATC-GAAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAG-AAA
* *
47181606 ATTAATAAGACCATGGTTGAAATACACTATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * * *
47181652 ATGAATAAGACTATAGTTGGAAGACACTATGGCATCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * **
47181698 ATGAATAAGACCATGGTTGAAAAAGAAAATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * * * * *
47181744 TTAAATAAGACCATGGTTGAAAGACACTTTGACATCATATCGGGAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* *
47181790 ATGAATAAGACCATAGTTGAAAGACACGATGGCATCATATC-GAAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAG-AAA
* * ** *
47181836 ATTAATAAGACCATGGTTGAAATACACTATGGTGTCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * * *
47181882 ATGAATAAGACCATGGTTGAAAAACACTAAGACAACATATCA-AAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
47181927 AGTGAATAAGACCATGGTTGAAAGACA
1 A-TGAATAAGACCATGGTTGAAAGACA
47181954 TCAGGGCATC
Statistics
Matches: 447, Mismatches: 78, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
45 42 0.09
46 368 0.82
47 37 0.08
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.23
Consensus pattern (46 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
Found at i:47181903 original size:22 final size:22
Alignment explanation
Indices: 47181878--47181949 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
47181868 TGTCATATCG
47181878 GAAAATGAATAAGACCATGGTT
1 GAAAATGAATAAGACCATGGTT
** * * *
47181900 GAAAAACACTAAGACAACAT-ATC
1 GAAAATGAATAAGAC--CATGGTT
*
47181923 AAAAAGTGAATAAGACCATGGTT
1 GAAAA-TGAATAAGACCATGGTT
47181946 GAAA
1 GAAA
47181950 GACATCAGGG
Statistics
Matches: 34, Mismatches: 12, Indels: 7
0.64 0.23 0.13
Matches are distributed among these distances:
22 15 0.44
23 9 0.26
24 10 0.29
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.18
Consensus pattern (22 bp):
GAAAATGAATAAGACCATGGTT
Found at i:47193408 original size:25 final size:25
Alignment explanation
Indices: 47193380--47193434 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
47193370 AGAATTTAAG
47193380 GTTACGACTTTCGTATT-AAATTGAT
1 GTTACG-CTTTCGTATTGAAATTGAT
* **
47193405 GTTAATGCTTTTTTATTGAAATTGAT
1 GTT-ACGCTTTCGTATTGAAATTGAT
47193431 GTTA
1 GTTA
47193435 TTTTGGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.49
Consensus pattern (25 bp):
GTTACGCTTTCGTATTGAAATTGAT
Found at i:47196429 original size:51 final size:51
Alignment explanation
Indices: 47196313--47196593 Score: 218
Period size: 51 Copynumber: 5.6 Consensus size: 51
47196303 TGATACACGA
* * * * *
47196313 AGTAGCC-TCACATAGTACTACACACGGGATC--AG-TTTTACAGTTCACGT
1 AGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACAT
* *
47196361 AGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTACCCAT
1 AGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACAT
* * * * ** * * *
47196412 TGTAGCCTTCACTTAGTACTACACATGTAACCGTAG-TTTACCGATACACGT
1 AGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTT-TCGGTACACAT
* *
47196463 AGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCTTTTCGGTACACAT
1 AGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGCTTTTCGGTACACAT
* * * * * * *
47196514 AGTAGCCTTCTCTTAGTACTACGCATGTGACCATTA--TTTATCGATACACGT
1 AGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTT-TCGGTACACAT
* *
47196565 AGTAGCCTCCACACAGTACTACACACGTG
1 AGTAGCCTTCACATAGTACTACACACGTG
47196594 TTCATCGACA
Statistics
Matches: 179, Mismatches: 44, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
48 7 0.04
49 21 0.12
50 7 0.04
51 135 0.75
52 9 0.05
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
AGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACAT
Found at i:47196474 original size:102 final size:102
Alignment explanation
Indices: 47196313--47196593 Score: 347
Period size: 102 Copynumber: 2.8 Consensus size: 102
47196303 TGATACACGA
* * ** * * * *
47196313 AGTAGCC-TCACATAGTACTACACACGGGATCAGT-TTTACAG-TTCACGTAGTAGCCTTCACAT
1 AGTAGCCTTCACTTAGTACTACACATGTAACCAGTATTTACCGATACACGTAGTAGCCTTCACAC
* *
47196375 AGTACTACATACGTGAC-CAAAGCTTTTCGGTACCCAT
66 AGTACTACACACGTG-CTCAAAGCTTTTCGGTACACAT
* *
47196412 TGTAGCCTTCACTTAGTACTACACATGTAACC-GTAGTTTACCGATACACGTAGTAGCATTCACA
1 AGTAGCCTTCACTTAGTACTACACATGTAACCAGTA-TTTACCGATACACGTAGTAGCCTTCACA
47196476 CAGTACTACACACGTGCTCAAAGCTTTTCGGTACACAT
65 CAGTACTACACACGTGCTCAAAGCTTTTCGGTACACAT
* * * * * *
47196514 AGTAGCCTTCTCTTAGTACTACGCATGTGACCATTATTTATCGATACACGTAGTAGCCTCCACAC
1 AGTAGCCTTCACTTAGTACTACACATGTAACCAGTATTTACCGATACACGTAGTAGCCTTCACAC
47196579 AGTACTACACACGTG
66 AGTACTACACACGTG
47196594 TTCATCGACA
Statistics
Matches: 156, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
99 8 0.05
100 19 0.12
101 7 0.04
102 120 0.77
103 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (102 bp):
AGTAGCCTTCACTTAGTACTACACATGTAACCAGTATTTACCGATACACGTAGTAGCCTTCACAC
AGTACTACACACGTGCTCAAAGCTTTTCGGTACACAT
Found at i:47197291 original size:30 final size:30
Alignment explanation
Indices: 47197255--47197348 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
47197245 AAATGCGAAG
*
47197255 AACATTAAAAACGGAGAAGATGATGTCAAA
1 AACATTAAAAACGGAGAAGATGATATCAAA
* * * * * *
47197285 AACATTAAAAACGGAGAACATTAAAACGGAG
1 AACATTAAAAACGGAGAAGATGATATC-AAA
*
47197316 AACATTAAAAACGGAGAAGATGATTTCAAA
1 AACATTAAAAACGGAGAAGATGATATCAAA
47197346 AAC
1 AAC
47197349 CCTAACATGA
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
30 26 0.53
31 23 0.47
ACGTcount: A:0.54, C:0.12, G:0.18, T:0.16
Consensus pattern (30 bp):
AACATTAAAAACGGAGAAGATGATATCAAA
Found at i:47197312 original size:15 final size:16
Alignment explanation
Indices: 47197285--47197333 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
47197275 TGATGTCAAA
47197285 AACATTAAAAACGGAG
1 AACATTAAAAACGGAG
47197301 AACATT-AAAACGGAG
1 AACATTAAAAACGGAG
47197316 AACATTAAAAACGGAG
1 AACATTAAAAACGGAG
47197332 AA
1 AA
47197334 GATGATTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 15 0.47
16 17 0.53
ACGTcount: A:0.57, C:0.12, G:0.18, T:0.12
Consensus pattern (16 bp):
AACATTAAAAACGGAG
Found at i:47204027 original size:49 final size:49
Alignment explanation
Indices: 47203967--47204351 Score: 305
Period size: 49 Copynumber: 7.7 Consensus size: 49
47203957 TCATTCGATA
*
47203967 CACGTAGTAGCCTTCTCATAGTACTACACACGTGATCAGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
* *
47204016 CACATAGTAGCCTTTACATAGTACTACACACGTGATCAGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
* *
47204065 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAGTT
* * * *
47204115 CACGTAGTAGCCTTCACAT-GTACTACATACGTGACCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTT
* * * * * * * *
47204165 CCCATTGTAGCCTTCACTTAGTACTACACATGT-AACCGTAGTTTATC-GATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT--TTTA-CAG-TT
* * * * * *
47204216 CACGTAGTAGCATTCACACAGTACTACACACCTGCTCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTT
* * * * * * * *
47204267 CACATAGTAGTCTTCACTTAGTACTACGCATGTGACCATTATTTATC-GATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT-TTTA-CAG-TT
* *
47204318 CACGTAGTAGCCTCCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
47204352 TTCATCGACA
Statistics
Matches: 270, Mismatches: 48, Indels: 34
0.77 0.14 0.10
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 103 0.38
50 54 0.20
51 103 0.38
52 2 0.01
53 3 0.01
54 1 0.00
55 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
Found at i:47204226 original size:51 final size:50
Alignment explanation
Indices: 47203960--47204351 Score: 320
Period size: 51 Copynumber: 7.8 Consensus size: 50
47203950 ATTTTTATCA
* *
47203960 TTCGATACACGTAGTAGCCTTCTCATAGTACTACACACGTGATC--AGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * *
47204008 TTAC-AGTTCACATAGTAGCCTTTACATAGTACTACACACGTGATC--AGTT
1 TT-CGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
47204057 TTAC-AGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTT
1 TT-CGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
47204107 TTACGGCT-CACGTAGTAGCCTTCACAT-GTACTACATACGTGACCAAAGCTT
1 TT-C-GATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * * * **
47204158 TTCGGTACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCGTAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * *
47204208 TATCGATACACGTAGTAGCATTCACACAGTACTACACACCTG-CTCAAAGCTT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAG-TT
* * * * * * *
47204260 TTCGGTACACATAGTAGTCTTCACTTAGTACTACGCATGTGACCATTA-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* *
47204310 TATCGATACACGTAGTAGCCTCCACACAGTACTACACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
47204352 TTCATCGACA
Statistics
Matches: 280, Mismatches: 49, Indels: 27
0.79 0.14 0.08
Matches are distributed among these distances:
48 3 0.01
49 100 0.36
50 53 0.19
51 119 0.43
52 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:47206818 original size:15 final size:17
Alignment explanation
Indices: 47206800--47206832 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47206790 TTGTAAGCAA
47206800 TGAAATG-G-ATTAAGT
1 TGAAATGAGAATTAAGT
47206815 TGAAATGAGAATTAAGT
1 TGAAATGAGAATTAAGT
47206832 T
1 T
47206833 AAACATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (17 bp):
TGAAATGAGAATTAAGT
Found at i:47207226 original size:46 final size:46
Alignment explanation
Indices: 47207123--47207419 Score: 422
Period size: 46 Copynumber: 6.5 Consensus size: 46
47207113 CATGATTTAG
* * * *
47207123 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCTTAT-TGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
*
47207168 ATGAATAAGACCATGGTTGAAAGACACTATGACATCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* *
47207214 ATGAATAAGACCATGGTTGAAAGACAC--TGGCATCATATTGAAAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCG-GAAA
* *
47207259 ATGAATAAGACTATGGTTGAAAGACACTATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* *
47207305 ATGAATAAGACCATGGTTGAAAAACATTATGGCATCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * *
47207351 ATGAGTAAGACCATGGTTGAAAGACATTATGACATCATA-CGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
*
47207396 GTGAATAAGACCATGGTTGAAAGA
1 ATGAATAAGACCATGGTTGAAAGA
47207420 AGTCATAGCA
Statistics
Matches: 227, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
44 11 0.05
45 93 0.41
46 112 0.49
47 11 0.05
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (46 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
Found at i:47207236 original size:91 final size:91
Alignment explanation
Indices: 47207123--47207419 Score: 438
Period size: 91 Copynumber: 3.3 Consensus size: 91
47207113 CATGATTTAG
* * *
47207123 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCTTATTGAAAATGAATAAGACCATGGTTGA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATTGAAAATGAATAAGACCATGGTTGA
47207188 AAGACACTATGACATCATATCGGAAA
66 AAGACACTATGACATCATATCGGAAA
*
47207214 ATGAATAAGACCATGGTTGAAAGACAC--TGGCATCATATTGAAAAAATGAATAAGACTATGGTT
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATTG--AAAATGAATAAGACCATGGTT
* *
47207277 GAAAGACACTATGGCATCATATCAGAAA
64 GAAAGACACTATGACATCATATCGGAAA
* * * *
47207305 ATGAATAAGACCATGGTTGAAAAACATTATGGCATCATATCGGAAAATGAGTAAGACCATGGTTG
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATAT-TGAAAATGAATAAGACCATGGTTG
*
47207370 AAAGACATTATGACATCATA-CGGAAA
65 AAAGACACTATGACATCATATCGGAAA
*
47207396 GTGAATAAGACCATGGTTGAAAGA
1 ATGAATAAGACCATGGTTGAAAGA
47207420 AGTCATAGCA
Statistics
Matches: 185, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
89 12 0.06
91 123 0.66
92 38 0.21
93 11 0.06
94 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (91 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATTGAAAATGAATAAGACCATGGTTGA
AAGACACTATGACATCATATCGGAAA
Found at i:47207431 original size:137 final size:136
Alignment explanation
Indices: 47207123--47207419 Score: 427
Period size: 137 Copynumber: 2.2 Consensus size: 136
47207113 CATGATTTAG
* * * *
47207123 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCTTATTGAAAATGAATAAGACCATGGTTGA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATAGAAAATGAATAAGACCATGGTTGA
* * * *
47207188 AAGACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACACTGGCATCATATT
66 AAAACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACAATGACATCATATC
47207253 GAAAAA
131 GAAAAA
*
47207259 ATGAATAAGACTATGGTTGAAAGACACTATGGCATCATATCAGAAAATGAATAAGACCATGGTTG
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATAT-AGAAAATGAATAAGACCATGGTTG
* * *
47207324 AAAAACATTATGGCATCATATCGGAAAATGAGTAAGACCATGGTTGAAAGACATTATGACATCAT
65 AAAAACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACA--ATGACATCAT
*
47207389 A-CG-GAAA
128 ATCGAAAAA
*
47207396 GTGAATAAGACCATGGTTGAAAGA
1 ATGAATAAGACCATGGTTGAAAGA
47207420 AGTCATAGCA
Statistics
Matches: 143, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
136 36 0.25
137 97 0.68
138 1 0.01
139 9 0.06
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (136 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATAGAAAATGAATAAGACCATGGTTGA
AAAACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACAATGACATCATATC
GAAAAA
Found at i:47211986 original size:21 final size:20
Alignment explanation
Indices: 47211957--47212007 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
47211947 TTGCATAAAT
* *
47211957 TAAACACAAAGTAATAAAAAC
1 TAAAAACAAAATAA-AAAAAC
*
47211978 TAAAAACAAAATAAAAACAC
1 TAAAAACAAAATAAAAAAAC
47211998 TATAAAACAA
1 TA-AAAACAA
47212008 GTCATTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.71, C:0.14, G:0.02, T:0.14
Consensus pattern (20 bp):
TAAAAACAAAATAAAAAAAC
Found at i:47218282 original size:40 final size:40
Alignment explanation
Indices: 47218239--47218468 Score: 264
Period size: 40 Copynumber: 5.8 Consensus size: 40
47218229 AATTGTTTAA
* *
47218239 TGAATGCACATACATGCCCCTGTTTGTACTTTGGTACCCA
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
47218279 TGAATGCACATATGTGCCCTTGTTTGTA-TTTCGGTAACCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTT-GGTACCCC
* * *
47218319 TTAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * **
47218359 TTAATTCACATATGTGCCCCTATTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
47218399 TAAATGCACATACGTGCCCCTATTTATACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
47218439 TGAATGCACTTCCGTGCCCCTGTTTATACT
1 TGAATGCACATACGTGCCCCTGTTTGTACT
47218469 CTAGTAACTC
Statistics
Matches: 166, Mismatches: 22, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 161 0.97
41 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
Found at i:47218456 original size:80 final size:80
Alignment explanation
Indices: 47218241--47218476 Score: 294
Period size: 80 Copynumber: 3.0 Consensus size: 80
47218231 TTGTTTAATG
* * *
47218241 AATGCACATACATGCCCCTGTTTGTACTTTGGTACCCATGAATGCACATATGTGCCCTTGTTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
* * *
47218306 ATTTCGGTAACCCTT
66 ACTTCAGTAACCCTA
* * * * *
47218321 AATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTTAATTCACATATGTGCCCCTATTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
*
47218386 ACTTCAGTACCCCTA
66 ACTTCAGTAACCCTA
* * * ** *
47218401 AATGCACATACGTGCCCCTATTTATACTTTGGTACCCCTGAATGCACTTCCGTGCCCCTGTTTAT
1 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
47218466 AC-TCTAGTAAC
66 ACTTC-AGTAAC
47218477 TCTGAATCAT
Statistics
Matches: 131, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
79 2 0.02
80 129 0.98
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (80 bp):
AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
ACTTCAGTAACCCTA
Found at i:47223717 original size:24 final size:24
Alignment explanation
Indices: 47223690--47223738 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
47223680 AGTCATACCA
* *
47223690 ATCACAAACAAATTAGTCATTTAC
1 ATCACAAACAAATCAATCATTTAC
**
47223714 ATCACGGACAAATCAATCATTTAC
1 ATCACAAACAAATCAATCATTTAC
47223738 A
1 A
47223739 CTCGAGGGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (24 bp):
ATCACAAACAAATCAATCATTTAC
Found at i:47223814 original size:27 final size:27
Alignment explanation
Indices: 47223759--47223995 Score: 209
Period size: 27 Copynumber: 8.8 Consensus size: 27
47223749 AAAACAGTTA
* * * *
47223759 TTTACCCTTTAGGGGCATTACGATCAT
1 TTTACCCTTCAGGGGTATTTCGATAAT
*
47223786 TTTACCCTACAGGGGTAATTT-GATAAT
1 TTTACCCTTCAGGGGT-ATTTCGATAAT
47223813 TTTACCCTTC-GAGGGTATTTCGATAAT
1 TTTACCCTTCAG-GGGTATTTCGATAAT
* * *
47223840 TTTATCCTTCAGGAGTATTTCGGTAAT
1 TTTACCCTTCAGGGGTATTTCGATAAT
* * *
47223867 TTTACCCTTCAAGGTTATTTCAATAAT
1 TTTACCCTTCAGGGGTATTTCGATAAT
* * * *
47223894 CTTACCTTTCGGGGGTATTTTGATAAT
1 TTTACCCTTCAGGGGTATTTCGATAAT
**
47223921 TTTACCCTTC-GGGAGT-TTTTTAGTAAT
1 TTTACCCTTCAGGG-GTATTTCGA-TAAT
47223948 TTTACCCTTC-GAGGGTATTTC-AGTAAT
1 TTTACCCTTCAG-GGGTATTTCGA-TAAT
47223975 TTTACCCTTC-GAGGGTATTTC
1 TTTACCCTTCAG-GGGTATTTC
47223996 AATCATTCGA
Statistics
Matches: 176, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
26 13 0.07
27 154 0.88
28 9 0.05
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
TTTACCCTTCAGGGGTATTTCGATAAT
Found at i:47223919 original size:81 final size:81
Alignment explanation
Indices: 47223784--47223995 Score: 273
Period size: 81 Copynumber: 2.6 Consensus size: 81
47223774 CATTACGATC
* * * *
47223784 ATTTTACCCTACAGGGGTAATTT-GATAATTTTACCCTTCGAGGGTATTTCGATAATTTTATCCT
1 ATTTTACCCTTCAAGGGT-ATTTCAATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCT
*
47223848 TCAGGAGTATTTCGGTA
65 TCAGGAGTATTTCAGTA
* * * * *
47223865 ATTTTACCCTTCAAGGTTATTTCAATAATCTTACCTTTCGGGGGTATTTTGATAATTTTACCCTT
1 ATTTTACCCTTCAAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTT
* * *
47223930 CGGGAGTTTTTTAGTA
66 CAGGAGTATTTCAGTA
* *
47223946 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTC
1 ATTTTACCCTTCAAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTTC
47223996 AATCATTCGA
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 4 0.04
81 106 0.96
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTTCAAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTT
CAGGAGTATTTCAGTA
Found at i:47223996 original size:27 final size:27
Alignment explanation
Indices: 47223784--47223996 Score: 213
Period size: 27 Copynumber: 7.9 Consensus size: 27
47223774 CATTACGATC
* *
47223784 ATTTTACCCTAC-AGGGGTAATTTGA-TA
1 ATTTTACCCTTCGA-GGGT-ATTTCAGTA
47223811 ATTTTACCCTTCGAGGGTATTTC-GATA
1 ATTTTACCCTTCGAGGGTATTTCAG-TA
* *
47223838 ATTTTATCCTTC-AGGAGTATTTCGGTA
1 ATTTTACCCTTCGAGG-GTATTTCAGTA
* * *
47223865 ATTTTACCCTTCAAGGTTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
* * * *
47223892 ATCTTACCTTTCGGGGGTATTT-TGATA
1 ATTTTACCCTTCGAGGGTATTTCAG-TA
* *
47223919 ATTTTACCCTTCG-GGAGTTTTTTAGTA
1 ATTTTACCCTTCGAGG-GTATTTCAGTA
47223946 ATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
47223973 ATTTTACCCTTCGAGGGTATTTCA
1 ATTTTACCCTTCGAGGGTATTTCA
47223997 ATCATTCGAA
Statistics
Matches: 156, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
26 9 0.06
27 139 0.89
28 8 0.05
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCAGTA
Found at i:47225523 original size:25 final size:25
Alignment explanation
Indices: 47225486--47225539 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
47225476 TGAACCTCTA
47225486 ACCTCCTTACCACACATGTGACACC
1 ACCTCCTTACCACACATGTGACACC
* * * *
47225511 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACATGTGACACC
47225536 ACCT
1 ACCT
47225540 TACCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.46, G:0.11, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACATGTGACACC
Found at i:47228822 original size:40 final size:40
Alignment explanation
Indices: 47228767--47228887 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
47228757 TACGTGCCCC
* *
47228767 TGTACTTCGGTACCCCTTAATGCACATATGTGCCCCTCTT
1 TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
* * **
47228807 TGTACTTCAGTACCCCGAAATGCACATACATGCCCCTATT
1 TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
* * * *
47228847 TGTACTGCGGGACCCCTAAATGCACTTGTGTGCCCCTATT
1 TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
47228887 T
1 T
47228888 ATACCCCAGT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (40 bp):
TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
Found at i:47237194 original size:29 final size:30
Alignment explanation
Indices: 47237135--47237192 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47237125 TCCGAGCCTT
*
47237135 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
47237165 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
47237193 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:47238241 original size:56 final size:50
Alignment explanation
Indices: 47238143--47238383 Score: 275
Period size: 50 Copynumber: 4.7 Consensus size: 50
47238133 ATTTGGGTAA
* * * *
47238143 AGAGATCCCATGTAAGGCCATGTCTGGGACATGACATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAG---ATG
* *
47238199 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* ** *
47238249 AGAGGTCCCATGTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** * *
47238299 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
**
47238349 AGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
47238384 ATTTGGCATG
Statistics
Matches: 160, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
50 91 0.57
51 28 0.17
53 3 0.02
55 1 0.01
56 37 0.23
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:47238327 original size:100 final size:101
Alignment explanation
Indices: 47238196--47238380 Score: 309
Period size: 100 Copynumber: 1.8 Consensus size: 101
47238186 CCTTGAGATC
* * * * **
47238196 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATGAG-AGGTCCCAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
47238260 GTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAG
66 GTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAG
47238296 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
47238361 GTAAGACCATGTCTGGGACA
66 GTAAGACCATGTCTGGGACA
47238381 TGGATTTGGC
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 51 0.65
101 27 0.35
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (101 bp):
ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
GTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAG
Found at i:47238920 original size:56 final size:50
Alignment explanation
Indices: 47238822--47238962 Score: 183
Period size: 56 Copynumber: 2.7 Consensus size: 50
47238812 ATTTGGGTAA
* * * *
47238822 AGAGATCCCATGTAAGGCCATGTCTGGGACATGACATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCAT-C--GAG---ATG
*
47238878 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATG
47238928 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
47238963 TTTGGCATGT
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
50 37 0.47
53 3 0.04
55 1 0.01
56 38 0.48
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATG
Found at i:47238970 original size:50 final size:53
Alignment explanation
Indices: 47238822--47238970 Score: 196
Period size: 50 Copynumber: 2.8 Consensus size: 53
47238812 ATTTGGGTAA
* * *
47238822 AGAGATCCCATGTAAGGCCATGTCTGGGACATGACATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATG
* *
47238878 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCAT-C-GAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATG
*
47238928 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
47238971 GTTTTTACCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
50 43 0.51
53 3 0.04
55 1 0.01
56 38 0.45
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATG
Found at i:47241539 original size:22 final size:22
Alignment explanation
Indices: 47241511--47241557 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
47241501 CAGTGTTATC
47241511 AGTGGCAGTTTATCTACAAATT
1 AGTGGCAGTTTATCTACAAATT
*
47241533 AGTGGCAGTTTATCTATAAATT
1 AGTGGCAGTTTATCTACAAATT
47241555 AGT
1 AGT
47241558 TGTGGCATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (22 bp):
AGTGGCAGTTTATCTACAAATT
Found at i:47242246 original size:21 final size:21
Alignment explanation
Indices: 47242220--47242265 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
47242210 TAAATACGTG
*
47242220 ATTTCAAAATTAAATCTGTTT
1 ATTTCAAAATTAAATATGTTT
* *
47242241 ATTTCAACATTATATATGTTT
1 ATTTCAAAATTAAATATGTTT
47242262 ATTT
1 ATTT
47242266 TAACTCATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTCAAAATTAAATATGTTT
Found at i:47251613 original size:6 final size:6
Alignment explanation
Indices: 47251546--47251758 Score: 74
Period size: 6 Copynumber: 35.5 Consensus size: 6
47251536 TAGTATTACC
* * * * * ** *
47251546 ATTATT TTTACTT -TTATT TTTATT TTTATT TTTAAT ATTGCT ATTACT
1 ATTATT ATTA-TT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * *
47251594 ATTATT -GTATTT ATTATT ATTACTT ACT-TT ATTATT ATTATC ATTATT
1 ATTATT ATTA-TT ATTATT ATTA-TT ATTATT ATTATT ATTATT ATTATT
** * * * * * **
47251642 ATTACA ATTAAT ATTAAT ATTAAT ATTGTT ATTATT ACTATT GCTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
** * * * * * ** *
47251690 ACTT-TT ATTATT ACCAAT ATTTTT ATTTTT ATTTTT ATTTTT ACCACT
1 A-TTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* *
47251738 ATTATT ATCATT ATTTTT ATT
1 ATTATT ATTATT ATTATT ATT
47251759 TTTAAACTGT
Statistics
Matches: 158, Mismatches: 41, Indels: 16
0.73 0.19 0.07
Matches are distributed among these distances:
5 10 0.06
6 139 0.88
7 9 0.06
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (6 bp):
ATTATT
Found at i:47251625 original size:15 final size:16
Alignment explanation
Indices: 47251606--47251646 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
47251596 TATTGTATTT
47251606 ATTATTATTACTTA-C
1 ATTATTATTACTTATC
*
47251621 TTTATTATTA-TTATC
1 ATTATTATTACTTATC
47251636 ATTATTATTAC
1 ATTATTATTAC
47251647 AATTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTATTACTTATC
Found at i:47251759 original size:30 final size:30
Alignment explanation
Indices: 47251687--47251762 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
47251677 TACTATTGCT
* * * *
47251687 ATTACTTTTATTATTACCAATATTTTTATT
1 ATTATTTTTATTTTTACCAATATTATTATC
* *
47251717 TTTATTTTTATTTTTACCACTATTATTATC
1 ATTATTTTTATTTTTACCAATATTATTATC
47251747 ATTATTTTTATTTTTA
1 ATTATTTTTATTTTTA
47251763 AACTGTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTATTTTTATTTTTACCAATATTATTATC
Found at i:47251904 original size:12 final size:11
Alignment explanation
Indices: 47251875--47251914 Score: 64
Period size: 12 Copynumber: 3.6 Consensus size: 11
47251865 AATTAGTTAG
47251875 TTTTATTTT-T
1 TTTTATTTTGT
47251885 TTTTATTTTGT
1 TTTTATTTTGT
47251896 TTCTTATTTTGT
1 TT-TTATTTTGT
47251908 TTTTATT
1 TTTTATT
47251915 CTTAATATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTTATTTTGT
Found at i:47253840 original size:25 final size:25
Alignment explanation
Indices: 47253809--47253890 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
47253799 TTAACTATCA
* * * *
47253809 CCTCTGCTGCATCGCCATCAACACT
1 CCTCTGCTGTATCACCGTCGACACT
47253834 CCTCTGCCT-TATCACCGTCGACACT
1 CCTCTG-CTGTATCACCGTCGACACT
*
47253859 CCTCTACTGTATCACCGTCGACACT
1 CCTCTGCTGTATCACCGTCGACACT
47253884 CCTCTGC
1 CCTCTGC
47253891 CCCAAAACAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.04
25 45 0.92
26 2 0.04
ACGTcount: A:0.17, C:0.44, G:0.12, T:0.27
Consensus pattern (25 bp):
CCTCTGCTGTATCACCGTCGACACT
Found at i:47254064 original size:21 final size:22
Alignment explanation
Indices: 47254017--47254066 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
47254007 CCGAAACATC
*
47254017 TATTTTTTGGGTTAATATTTAT
1 TATTTTTTGGGTTAATATTCAT
47254039 TATTTTTTGGGTT-ATA-TCAT
1 TATTTTTTGGGTTAATATTCAT
*
47254059 TAATTTTT
1 TATTTTTT
47254067 ATTATGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 10 0.38
21 3 0.12
22 13 0.50
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.64
Consensus pattern (22 bp):
TATTTTTTGGGTTAATATTCAT
Found at i:47256240 original size:72 final size:71
Alignment explanation
Indices: 47256160--47256442 Score: 266
Period size: 72 Copynumber: 4.0 Consensus size: 71
47256150 AGTAAATTCA
*
47256160 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATCTTAAGT
1 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTAAGT
*
47256225 GAAATCG
66 -AAACCG
* *
47256232 TTTATTTAATTATGTGTTTTT-AAAATTTTAATTTAATTAAATTTATTGAA-TTTTGATATTAAG
1 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATT-AAGTTTTGATATTAAG
47256295 TAGAACCG
65 TA-AACCG
** * ** * * * * *
47256303 TTTATCCAATTATGTATTTTTAAAAAGGCTACTTTAGTTCAATTCATTGAGTTTCGATATTAAGT
1 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTAAGT
47256368 AAAACCG
66 -AAACCG
* * * * * * * * ** * *
47256375 TTTACTCAAGTTATATG-TTTTGAGAAGATTAAATTAATTTGATTTATTGAGTTTTAATATTAAG
1 TTTATTTAA-TTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTAAG
47256439 TAAA
65 TAAA
47256443 ATTGTTTATT
Statistics
Matches: 173, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
70 1 0.01
71 63 0.36
72 103 0.60
73 6 0.03
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (71 bp):
TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTAAGT
AAACCG
Found at i:47256942 original size:13 final size:13
Alignment explanation
Indices: 47256924--47256951 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47256914 AAAAAAACCA
47256924 AAATAATCAATTT
1 AAATAATCAATTT
47256937 AAATAATCAATTT
1 AAATAATCAATTT
47256950 AA
1 AA
47256952 TATCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATAATCAATTT
Found at i:47258493 original size:46 final size:46
Alignment explanation
Indices: 47258426--47258519 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
47258416 ATGCCAAGAT
47258426 ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
1 ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
*
47258472 ATGAATAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
1 ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
47258518 AT
1 AT
47258520 AGTTGCCCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (46 bp):
ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
Found at i:47263311 original size:66 final size:66
Alignment explanation
Indices: 47263200--47263333 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 66
47263190 GAAAATTGCT
* * * * * * *
47263200 CAACTTAAAGTGGAGGCAGCATCGATAGAAACAGAGGCTTAAAGAAAATATGATGAACTCCAACT
1 CAACTTAAAATGGAGGCAACAGCGAGAGAAACAGAGGCTAAAAGAAAATACGACGAACTCCAACT
47263265 A
66 A
* * *
47263266 CAACTTAAAATGGAGGCAACAGCGAGGGAAATAGAGGC-AACAAGAAAATACGGCGAACTCCAAC
1 CAACTTAAAATGGAGGCAACAGCGAGAGAAACAGAGGCTAA-AAGAAAATACGACGAACTCCAAC
47263330 TA
65 TA
47263332 CA
1 CA
47263334 GCTTCAGAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 1 0.02
66 56 0.98
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (66 bp):
CAACTTAAAATGGAGGCAACAGCGAGAGAAACAGAGGCTAAAAGAAAATACGACGAACTCCAACT
A
Found at i:47269683 original size:20 final size:20
Alignment explanation
Indices: 47269658--47269738 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
47269648 TTGTACAGAA
47269658 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
47269678 TTGCACAATT--GTGCCTTTGT
1 TTGCAC--TTCGGTGCCTCTGT
** *
47269698 TTGCACTTCAATTCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
47269718 TACT-CATCTTCGGTGCCTCTG
1 T--TGCA-CTTCGGTGCCTCTG
47269739 GGATGGTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
18 2 0.04
20 29 0.62
21 2 0.04
22 14 0.30
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.42
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:47272515 original size:15 final size:15
Alignment explanation
Indices: 47272492--47272525 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
47272482 ATTTCATGCC
47272492 TCAAACACCGTGTTA
1 TCAAACACCGTGTTA
*
47272507 TCAATCACCGTGTTA
1 TCAAACACCGTGTTA
47272522 TCAA
1 TCAA
47272526 GGAACAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (15 bp):
TCAAACACCGTGTTA
Found at i:47279181 original size:15 final size:15
Alignment explanation
Indices: 47279146--47279175 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47279136 GCCCCTTTTC
47279146 ATAATTTAATTAACA
1 ATAATTTAATTAACA
*
47279161 ATAATTTATTTAACA
1 ATAATTTAATTAACA
47279176 CAAATTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTTAATTAACA
Found at i:47296037 original size:40 final size:39
Alignment explanation
Indices: 47296006--47296215 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
47295996 GGACTAAGAT
* *
47296006 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
47296046 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
47296086 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
47296126 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
47296166 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
47296205 CCGAAGGCATT
1 CCGAAGGCATT
47296216 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:47296169 original size:120 final size:120
Alignment explanation
Indices: 47295953--47296215 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
47295943 TTGAATGCTG
* *
47295953 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
47296017 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
47296073 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
47296136 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
47296192 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47296216 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:47296235 original size:79 final size:80
Alignment explanation
Indices: 47295954--47296250 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
47295944 TGAATGCTGT
* ** * * * **
47295954 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
47296017 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
47296034 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
47296098 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
47296114 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
47296178 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
47296193 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
47296251 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:47299141 original size:233 final size:233
Alignment explanation
Indices: 47298714--47299179 Score: 815
Period size: 233 Copynumber: 2.0 Consensus size: 233
47298704 TGAACGTCGA
*
47298714 GACAGGACGAAATGCCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTCCCTGACCGCTC
1 GACAGAACGAAATGCCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTCCCTGACCGCTC
* * *
47298779 CTGTTACAAGTGCGGATCAGTTGACCACTTCATTAAAGATTGCCCGAGGTTGTCGGGACAGAATG
66 CTGTTACAAATGCGGATCAGTGGACCACTTCATTAAAGATTGCCCGAGGTTGTCGGAACAGAATG
* *
47298844 CAAATCAGAGTGGGAGACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATACGGGCAAT
131 AAAATCAGAGTGGGAAACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATACGGGCAAT
47298909 GCTAGTGGTGGTCAGAGAGGATCTAGAGATGATATAAC
196 GCTAGTGGTGGTCAGAGAGGATCTAGAGATGATATAAC
* * *
47298947 GACAGAACGGAATGTCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTTCCTGACCGCTC
1 GACAGAACGAAATGCCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTCCCTGACCGCTC
**
47299012 CTGTTACAAATGCGGATCAGTGGACCACTTCATTAAAGATTGCCCGAGGTTGTTTGAACAGAATG
66 CTGTTACAAATGCGGATCAGTGGACCACTTCATTAAAGATTGCCCGAGGTTGTCGGAACAGAATG
*
47299077 AAAATCAGAGTGGGAAACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATATGGGCAAT
131 AAAATCAGAGTGGGAAACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATACGGGCAAT
*
47299142 GCTGGTGGTGGTCAGAGAGGATCTAGAGATGATATAAC
196 GCTAGTGGTGGTCAGAGAGGATCTAGAGATGATATAAC
47299180 CAGATCCGAA
Statistics
Matches: 220, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
233 220 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (233 bp):
GACAGAACGAAATGCCGATATTGCGGTAAATGGCATTCGGGGAGTTGTAGATTCCCTGACCGCTC
CTGTTACAAATGCGGATCAGTGGACCACTTCATTAAAGATTGCCCGAGGTTGTCGGAACAGAATG
AAAATCAGAGTGGGAAACCGGGTGCTACCACTGCTCGAGGTAGACCATCTGGAAATACGGGCAAT
GCTAGTGGTGGTCAGAGAGGATCTAGAGATGATATAAC
Found at i:47304269 original size:80 final size:80
Alignment explanation
Indices: 47304132--47304314 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
47304122 TTGAATGCTG
* * *
47304132 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGG-CAT
47304196 TGTGCGAGATACTAAA
65 TGTGCGAGATACTAAA
* * * * * *
47304212 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCAT
* *
47304275 TGTGTGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
47304291 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47304315 TGAACGAGGA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 38 0.44
80 43 0.49
81 6 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
GTGCGAGATACTAAA
Found at i:47304296 original size:39 final size:39
Alignment explanation
Indices: 47304132--47304314 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
47304122 TTGAATGCTG
* * * * * * *
47304132 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
47304172 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
47304212 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
47304252 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
47304291 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
47304315 TGAACGAGGA
Statistics
Matches: 123, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 39 0.32
40 75 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:47313355 original size:22 final size:22
Alignment explanation
Indices: 47313330--47313371 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
47313320 TAGAGCTATG
*
47313330 ATTTAATTGATTCTTGGACTAA
1 ATTTAATTGATTCTAGGACTAA
47313352 ATTTAATTGATTCTAGGACT
1 ATTTAATTGATTCTAGGACT
47313372 GAACGTAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTTAATTGATTCTAGGACTAA
Found at i:47317363 original size:20 final size:21
Alignment explanation
Indices: 47317340--47317383 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47317330 AGTGAACCTA
47317340 CCCT-CGATGTCATGACATAC
1 CCCTCCGATGTCATGACATAC
* *
47317360 CCCTCCTATGTCGTGACATAC
1 CCCTCCGATGTCATGACATAC
47317381 CCC
1 CCC
47317384 CTACGTAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.20, C:0.41, G:0.14, T:0.25
Consensus pattern (21 bp):
CCCTCCGATGTCATGACATAC
Found at i:47326115 original size:25 final size:23
Alignment explanation
Indices: 47326067--47326111 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
47326057 CGGAACTAAA
47326067 AAAATGAATTGAGATTCAAAAAG
1 AAAATGAATTGAGATTCAAAAAG
*
47326090 AAAATGAATTGTGATTCAAAAA
1 AAAATGAATTGAGATTCAAAAA
47326112 AAGAGTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.16, T:0.24
Consensus pattern (23 bp):
AAAATGAATTGAGATTCAAAAAG
Found at i:47327183 original size:21 final size:21
Alignment explanation
Indices: 47327150--47327198 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
47327140 AAATCAAGAA
*
47327150 AAAAAGAGCTTGAGAGAAAAT-
1 AAAAAGAGATTGA-AGAAAATG
* *
47327171 AAAAATAGATTGAAGAACATG
1 AAAAAGAGATTGAAGAAAATG
47327192 AAAAAGA
1 AAAAAGA
47327199 AAAAGTGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.61, C:0.04, G:0.20, T:0.14
Consensus pattern (21 bp):
AAAAAGAGATTGAAGAAAATG
Found at i:47331265 original size:27 final size:27
Alignment explanation
Indices: 47331234--47331475 Score: 258
Period size: 27 Copynumber: 9.0 Consensus size: 27
47331224 CAAATTTACT
** *
47331234 GAAATACCCTTAAAGGGTAAAATTACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* *
47331261 AAAATACCC-CTGAAGGGTAAAATGACT
1 GAAATACCCTC-GAAGGGTAAAATGACC
* *
47331288 GAAATACCCCCGAAGGGTAAAATGATC
1 GAAATACCCTCGAAGGGTAAAATGACC
* * *
47331315 GAAATACCCCCGAAGGGTTAAATGACT
1 GAAATACCCTCGAAGGGTAAAATGACC
* * *
47331342 AAAATA-CGTCTGAAGGGTAAAATAACC
1 GAAATACCCTC-GAAGGGTAAAATGACC
**
47331369 GAAATACCCTCGAAGGGTAAAATGATG
1 GAAATACCCTCGAAGGGTAAAATGACC
*
47331396 GAAATACCCTC-ATAGGGTAAAATGACT
1 GAAATACCCTCGA-AGGGTAAAATGACC
*
47331423 GAAATACCCTCGAAGGGTAACATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
*
47331450 GAAATACCCTC-ATAGGGTGAAATGAC
1 GAAATACCCTCGA-AGGGTAAAATGAC
47331476 TGTTATACCC
Statistics
Matches: 180, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.02
27 171 0.95
28 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGACC
Found at i:47331485 original size:81 final size:81
Alignment explanation
Indices: 47331234--47331474 Score: 301
Period size: 81 Copynumber: 3.0 Consensus size: 81
47331224 CAAATTTACT
* * * * *
47331234 GAAATACCCTTAAAGGGTAAAATTACCAAAATACCC-CTGAAGGGTAAAATGACTGAAATACCCC
1 GAAATACCC-TCAAGGGTAAAATGACTAAAATACCCTCTGAAGGGTAAAATGACCGAAATACCCT
47331298 CGAAGGGTAAAATGATC
65 CGAAGGGTAAAATGATC
* * * *
47331315 GAAATACCCCCGAAGGGTTAAATGACTAAAATA-CGTCTGAAGGGTAAAATAACCGAAATACCCT
1 GAAATACCCTC-AAGGGTAAAATGACTAAAATACCCTCTGAAGGGTAAAATGACCGAAATACCCT
*
47331379 CGAAGGGTAAAATGATG
65 CGAAGGGTAAAATGATC
* *
47331396 GAAATACCCTCATAGGGTAAAATGACTGAAATACCCTC-GAAGGGTAACATGACCGAAATACCCT
1 GAAATACCCTCA-AGGGTAAAATGACTAAAATACCCTCTGAAGGGTAAAATGACCGAAATACCCT
*
47331460 C-ATAGGGTGAAATGA
65 CGA-AGGGTAAAATGA
47331475 CTGTTATACC
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
80 3 0.02
81 132 0.96
82 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (81 bp):
GAAATACCCTCAAGGGTAAAATGACTAAAATACCCTCTGAAGGGTAAAATGACCGAAATACCCTC
GAAGGGTAAAATGATC
Found at i:47331683 original size:26 final size:26
Alignment explanation
Indices: 47331654--47331751 Score: 115
Period size: 26 Copynumber: 3.8 Consensus size: 26
47331644 ACAAATATTG
* *
47331654 TTACTGGCAACTCTGCTGCGTTACTT
1 TTACTGGCAGCTCTGCTGCGTTACTA
* * *
47331680 TTACTGGTAGCTCTGTTGCGTTACTG
1 TTACTGGCAGCTCTGCTGCGTTACTA
* * *
47331706 TTACTGGTAGCTATGCTGCGTTACCA
1 TTACTGGCAGCTCTGCTGCGTTACTA
*
47331732 TTACTGGCAGCTTTGCTGCG
1 TTACTGGCAGCTCTGCTGCG
47331752 ATATTGGTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTCTGCTGCGTTACTA
Found at i:47334586 original size:42 final size:42
Alignment explanation
Indices: 47334527--47334677 Score: 203
Period size: 42 Copynumber: 3.6 Consensus size: 42
47334517 ACAACCTAGC
* *
47334527 ACACGACTTGACACACGGGCGTGTGAGGCCATTTCGAGAGTT
1 ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
* * *
47334569 ACACGGCTTAGCACACGGGCGTGAGAGGCCATTTTGAGAGTT
1 ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
** *
47334611 ACACGGCTTGGCACATAGGTGTGTGAGGCCATTTCGAGAGTT
1 ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
** *
47334653 GTACGGCCTGGCACACGGGCGTGTG
1 ACACGGCTTGGCACACGGGCGTGTG
47334678 GTTCGGTCGT
Statistics
Matches: 92, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.22
Consensus pattern (42 bp):
ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
Found at i:47341731 original size:21 final size:21
Alignment explanation
Indices: 47341705--47341767 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
47341695 TTGGTATTTG
47341705 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
47341726 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
47341747 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
47341768 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:47342862 original size:10 final size:10
Alignment explanation
Indices: 47342847--47342888 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
47342837 TTTGCAAGTT
47342847 TTGAGCTAAA
1 TTGAGCTAAA
* *
47342857 TTGAGCTGAT
1 TTGAGCTAAA
*
47342867 TTGAGCT-TA
1 TTGAGCTAAA
47342876 TTGAGCTAAA
1 TTGAGCTAAA
47342886 TTG
1 TTG
47342889 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:47345944 original size:19 final size:20
Alignment explanation
Indices: 47345918--47345962 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
47345908 CTTTTCATTC
*
47345918 TCTTTTTTTGAATTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
*
47345938 T-TTTTTTTCATTTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
47345957 TCTTTT
1 TCTTTT
47345963 GTATTTTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (20 bp):
TCTTTTTTTCAATTTTCTTT
Found at i:47348200 original size:18 final size:18
Alignment explanation
Indices: 47348165--47348200 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47348155 AGACTGTATG
**
47348165 CAATTTTTTTTTTCTTTT
1 CAATTTTTTTTTGATTTT
47348183 CAATTTTTTTTTGATTTT
1 CAATTTTTTTTTGATTTT
47348201 TTTTTCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (18 bp):
CAATTTTTTTTTGATTTT
Found at i:47348200 original size:29 final size:28
Alignment explanation
Indices: 47348169--47348223 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
47348159 TGTATGCAAT
47348169 TTTTTTTTTC-TTTTCAATTTTTTTTTGA
1 TTTTTTTTTCATTTT-AATTTTTTTTTGA
47348197 TTTTTTTTTCGATTTTAATTTTTTTTT
1 TTTTTTTTTC-ATTTTAATTTTTTTTT
47348224 CGAACTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 10 0.40
29 11 0.44
30 4 0.16
ACGTcount: A:0.11, C:0.05, G:0.04, T:0.80
Consensus pattern (28 bp):
TTTTTTTTTCATTTTAATTTTTTTTTGA
Found at i:47348205 original size:11 final size:12
Alignment explanation
Indices: 47348173--47348212 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
47348163 TGCAATTTTT
*
47348173 TTTTTCTTTTCAA
1 TTTTT-TTTTCGA
47348186 TTTTTTTTT-GA
1 TTTTTTTTTCGA
47348197 TTTTTTTTTCGA
1 TTTTTTTTTCGA
47348209 TTTT
1 TTTT
47348213 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 10 0.40
13 5 0.20
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTCGA
Found at i:47348212 original size:19 final size:18
Alignment explanation
Indices: 47348191--47348226 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47348181 TTCAATTTTT
*
47348191 TTTTGATTTTTTTTTCGA
1 TTTTAATTTTTTTTTCGA
47348209 TTTTAATTTTTTTTTCGA
1 TTTTAATTTTTTTTTCGA
47348227 ACTCCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTAATTTTTTTTTCGA
Found at i:47348563 original size:21 final size:21
Alignment explanation
Indices: 47348537--47348580 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
47348527 TTGGTATTTG
47348537 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
47348558 GGAATTTGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
47348579 GG
1 GG
47348581 TATGGTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:47350180 original size:18 final size:18
Alignment explanation
Indices: 47350145--47350180 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47350135 AGACTGTATG
**
47350145 CAATTTTTTTTTTCTTTT
1 CAATTTTTTTTTGATTTT
47350163 CAATTTTTTTTTGATTTT
1 CAATTTTTTTTTGATTTT
47350181 TTTTTCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (18 bp):
CAATTTTTTTTTGATTTT
Found at i:47350180 original size:29 final size:28
Alignment explanation
Indices: 47350149--47350203 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
47350139 TGTATGCAAT
47350149 TTTTTTTTTC-TTTTCAATTTTTTTTTGA
1 TTTTTTTTTCATTTT-AATTTTTTTTTGA
47350177 TTTTTTTTTCGATTTTAATTTTTTTTT
1 TTTTTTTTTC-ATTTTAATTTTTTTTT
47350204 CGAACTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 10 0.40
29 11 0.44
30 4 0.16
ACGTcount: A:0.11, C:0.05, G:0.04, T:0.80
Consensus pattern (28 bp):
TTTTTTTTTCATTTTAATTTTTTTTTGA
Found at i:47350185 original size:11 final size:12
Alignment explanation
Indices: 47350153--47350192 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
47350143 TGCAATTTTT
*
47350153 TTTTTCTTTTCAA
1 TTTTT-TTTTCGA
47350166 TTTTTTTTT-GA
1 TTTTTTTTTCGA
47350177 TTTTTTTTTCGA
1 TTTTTTTTTCGA
47350189 TTTT
1 TTTT
47350193 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 10 0.40
13 5 0.20
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTCGA
Found at i:47350192 original size:19 final size:18
Alignment explanation
Indices: 47350171--47350206 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47350161 TTCAATTTTT
*
47350171 TTTTGATTTTTTTTTCGA
1 TTTTAATTTTTTTTTCGA
47350189 TTTTAATTTTTTTTTCGA
1 TTTTAATTTTTTTTTCGA
47350207 ACTCCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTAATTTTTTTTTCGA
Found at i:47350543 original size:21 final size:21
Alignment explanation
Indices: 47350517--47350560 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
47350507 TTGGTATTTG
47350517 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
47350538 GGAATTTGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
47350559 GG
1 GG
47350561 TATGGTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:47351657 original size:10 final size:10
Alignment explanation
Indices: 47351642--47351683 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
47351632 TTTGCAAGTT
47351642 TTGAGCTAAA
1 TTGAGCTAAA
* *
47351652 TTGAGCTGAT
1 TTGAGCTAAA
*
47351662 TTGAGCT-CA
1 TTGAGCTAAA
47351671 TTGAGCTAAA
1 TTGAGCTAAA
47351681 TTG
1 TTG
47351684 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:47359888 original size:30 final size:30
Alignment explanation
Indices: 47359852--47360160 Score: 206
Period size: 30 Copynumber: 10.4 Consensus size: 30
47359842 GTTGTCACGT
*
47359852 TCCCTTTTCATAGTTCGATAGTCGAAGCTA
1 TCCCTTTTCATAATTCGATAGTCGAAGCTA
* *
47359882 TCCCTTTTCATAATTTGATCATTGTC--A-CCA
1 TCCCTTTTCATAATTCGAT-A--GTCGAAGCTA
*
47359912 TCCCTTTTCATTATTCGATAG-CTGAAGCTA
1 TCCCTTTTCATAATTCGATAGTC-GAAGCTA
* * * *
47359942 TCCCTTTTCATAATTTGATGGTCGTCA-CCA
1 TCCCTTTTCATAATTCGATAGTCG-AAGCTA
* * * *
47359972 TGCTTTTTCATAATTCCATAGTCGAAGATA
1 TCCCTTTTCATAATTCGATAGTCGAAGCTA
* * * * *
47360002 ACGCTTTTCATATTTC-AAAGTCGGAGCTA
1 TCCCTTTTCATAATTCGATAGTCGAAGCTA
* * *
47360031 TCCCTTTTCAT-ATTCCGATGGTCGTCA-CCA
1 TCCCTTTTCATAATT-CGATAGTCG-AAGCTA
* * *
47360061 TCCCTTTTCATTATT-GATGGTCGTCA-CTA
1 TCCCTTTTCATAATTCGATAGTCG-AAGCTA
* ** *
47360090 TCCTTTTTCATAATTCGATAACCGAAGCCA
1 TCCCTTTTCATAATTCGATAGTCGAAGCTA
* * *
47360120 TCCATTTTCATAATTCGATAGCCAAAGCTA
1 TCCCTTTTCATAATTCGATAGTCGAAGCTA
47360150 TCCCTTTTCAT
1 TCCCTTTTCAT
47360161 TGATCGATGA
Statistics
Matches: 216, Mismatches: 47, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
26 1 0.00
27 1 0.00
28 2 0.01
29 50 0.23
30 151 0.70
31 8 0.04
33 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (30 bp):
TCCCTTTTCATAATTCGATAGTCGAAGCTA
Found at i:47360087 original size:29 final size:30
Alignment explanation
Indices: 47360030--47360108 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
47360020 AGTCGGAGCT
47360030 ATCCCTTTTCA-TATTCCGATGGTCGTCACC
1 ATCCCTTTTCATTATT-CGATGGTCGTCACC
*
47360060 ATCCCTTTTCATTATT-GATGGTCGTCACT
1 ATCCCTTTTCATTATTCGATGGTCGTCACC
* *
47360089 ATCCTTTTTCATAATTCGAT
1 ATCCCTTTTCATTATTCGAT
47360109 AACCGAAGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 26 0.59
30 14 0.32
31 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATTATTCGATGGTCGTCACC
Found at i:47372336 original size:54 final size:54
Alignment explanation
Indices: 47372273--47372388 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
47372263 TTTTAGTTCC
* *
47372273 TGGAATAAATTACTCATCTTAGTTAATTGA-TTCCATCTTAGTTAATTAAGCTAT
1 TGGAATAAATTACTCATCTTAGTTAATTAAGTT-CATCTTAGCTAATTAAGCTAT
* * * *
47372327 TGGAATAAATTAGTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTTAGTTGT
1 TGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTAAGCTAT
47372381 TGGAATAA
1 TGGAATAA
47372389 TTTATTATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 53 0.96
55 2 0.04
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (54 bp):
TGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTAAGCTAT
Found at i:47372364 original size:19 final size:19
Alignment explanation
Indices: 47372286--47372378 Score: 70
Period size: 19 Copynumber: 5.1 Consensus size: 19
47372276 AATAAATTAC
*
47372286 TCATCTTAGTTAATTGA-T
1 TCATCTTAGTTAATTAAGT
*
47372304 TCCATCTTAGTTAATTAAGC
1 T-CATCTTAGTTAATTAAGT
* * *
47372324 T-AT-TGGAATAAATT-AG-
1 TCATCT-TAGTTAATTAAGT
47372340 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* *
47372359 TCATCTTAGCTAATTTAGT
1 TCATCTTAGTTAATTAAGT
47372378 T
1 T
47372379 GTTGGAATAA
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
16 1 0.02
17 11 0.19
18 12 0.21
19 33 0.57
20 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:47379134 original size:33 final size:33
Alignment explanation
Indices: 47379096--47379167 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
47379086 GATTACTCTC
47379096 TTCACTCG-TTTCTTTTGCAAACTCTCTTTCTTT
1 TTCACTCGATTTCTTTT-CAAACTCTCTTTCTTT
**
47379129 TTCACTCGATTTCTTTTCAGGCTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCAAACTCTCTTTCTTT
*
47379162 TCCACT
1 TTCACT
47379168 TTCATTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 27 0.77
34 8 0.23
ACGTcount: A:0.11, C:0.29, G:0.07, T:0.53
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAACTCTCTTTCTTT
Found at i:47379160 original size:17 final size:15
Alignment explanation
Indices: 47379116--47379163 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
47379106 TCTTTTGCAA
47379116 ACTCTCTTTCTTTTTC
1 ACTCTCTTTC-TTTTC
**
47379132 ACTCGATTTCTTTTC
1 ACTCTCTTTCTTTTC
47379147 AGGCTCTCTTTCTTTTC
1 A--CTCTCTTTCTTTTC
47379164 CACTTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 12 0.46
ACGTcount: A:0.08, C:0.29, G:0.06, T:0.56
Consensus pattern (15 bp):
ACTCTCTTTCTTTTC
Found at i:47379218 original size:21 final size:20
Alignment explanation
Indices: 47379155--47379218 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
47379145 TCAGGCTCTC
47379155 TTTC-TTTTCCA-CTTTCAT
1 TTTCTTTTTCCATCTTTCAT
** *
47379173 TTTCTTTTTCTTTTCTTTCAA
1 TTTCTTTTTC-CATCTTTCAT
*
47379194 TTTCTTTTTCCACTCTTTCTT
1 TTTCTTTTTCCA-TCTTTCAT
47379215 TTTC
1 TTTC
47379219 GATAATCATT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
21 26 0.74
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTTTTTCCATCTTTCAT
Found at i:47380561 original size:11 final size:10
Alignment explanation
Indices: 47380540--47380583 Score: 61
Period size: 10 Copynumber: 4.2 Consensus size: 10
47380530 TTTTTTTTAA
47380540 TTTAATATTTT
1 TTTAAT-TTTT
*
47380551 TTTAACTTTT
1 TTTAATTTTT
47380561 TTTAATTTTT
1 TTTAATTTTT
47380571 TTTGAATTTTT
1 TTT-AATTTTT
47380582 TT
1 TT
47380584 ATTCTGAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 16 0.53
11 14 0.47
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:47382449 original size:54 final size:54
Alignment explanation
Indices: 47382360--47382531 Score: 290
Period size: 54 Copynumber: 3.2 Consensus size: 54
47382350 GTATTTAGTC
* * *
47382360 GCTGGTATAAATTACTCATCTTAGTTAACTGAGTTCATCTTAGTTAATTAAGCT
1 GCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTAAGCT
47382414 GCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTAAGCT
1 GCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTAAGCT
* *
47382468 GCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTTAGTT
1 GCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTAAGCT
*
47382522 GCTAGAATAA
1 GCTGGAATAA
47382532 TTTATTGTTG
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.41
Consensus pattern (54 bp):
GCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTAAGCT
Found at i:47382453 original size:19 final size:19
Alignment explanation
Indices: 47382429--47382521 Score: 88
Period size: 19 Copynumber: 5.1 Consensus size: 19
47382419 AATAAATTAC
47382429 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
47382448 TCATCTTAGTTAATTAAG-
1 TCATCTTAGTTAATTAAGT
* * * *
47382466 -C-TGCTGGAATAAATT-A-C
1 TCAT-CT-TAGTTAATTAAGT
47382483 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
47382502 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
47382521 T
1 T
47382522 GCTAGAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
16 1 0.02
17 10 0.17
18 10 0.17
19 38 0.64
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:47382648 original size:9 final size:9
Alignment explanation
Indices: 47382634--47382671 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
47382624 TATGTGTTAA
47382634 AATGTGTTT
1 AATGTGTTT
47382643 AATGTGTTT
1 AATGTGTTT
47382652 AATGTGTTTTT
1 AATGTG--TTT
47382663 AATGTGTTT
1 AATGTGTTT
47382672 GTTTGTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (9 bp):
AATGTGTTT
Found at i:47382663 original size:11 final size:11
Alignment explanation
Indices: 47382640--47382671 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
47382630 TTAAAATGTG
47382640 TTTAATGTG--
1 TTTAATGTGTT
47382649 TTTAATGTGTT
1 TTTAATGTGTT
47382660 TTTAATGTGTT
1 TTTAATGTGTT
47382671 T
1 T
47382672 GTTTGTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:47384129 original size:20 final size:20
Alignment explanation
Indices: 47384106--47384147 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
47384096 TAGCTCAACG
* *
47384106 AGCTCGTTCCTAGCTCACTT
1 AGCTCATTCCTACCTCACTT
*
47384126 AGCTCATTCCTACCTCATTT
1 AGCTCATTCCTACCTCACTT
47384146 AG
1 AG
47384148 TTTGCATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (20 bp):
AGCTCATTCCTACCTCACTT
Found at i:47387371 original size:22 final size:20
Alignment explanation
Indices: 47387327--47387379 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 20
47387317 CATATATACG
47387327 AAATTAAAAAAAAAGGAAGT
1 AAATTAAAAAAAAAGGAAGT
47387347 AAATT-AAAAAAAA--AAGT
1 AAATTAAAAAAAAAGGAAGT
*
47387364 GAATTAAAAAAAAAGG
1 AAATTAAAAAAAAAGG
47387380 TTGTGTTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 8 0.28
18 8 0.28
19 8 0.28
20 5 0.17
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (20 bp):
AAATTAAAAAAAAAGGAAGT
Found at i:47400588 original size:39 final size:40
Alignment explanation
Indices: 47400493--47400715 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
47400483 TTGAATGATG
*
47400493 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
47400531 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
47400572 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
47400611 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
47400650 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
47400689 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
47400716 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:47400679 original size:79 final size:81
Alignment explanation
Indices: 47400493--47400715 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
47400483 TTGAATGATG
* * *
47400493 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
47400554 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
47400572 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
47400634 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
47400650 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
47400714 TG
66 TG
47400716 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:47400737 original size:79 final size:79
Alignment explanation
Indices: 47400493--47400748 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
47400483 TTGAATGATG
* * * *
47400493 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
47400554 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
47400572 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
47400636 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
47400650 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
47400714 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
47400730 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
47400749 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:47405423 original size:17 final size:18
Alignment explanation
Indices: 47405396--47405429 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
47405386 AAATAATATA
47405396 AATAGTAAATAAAAAATT
1 AATAGTAAATAAAAAATT
47405414 AATA-TAAATAAAAAAT
1 AATAGTAAATAAAAAAT
47405430 AAACAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAGTAAATAAAAAATT
Found at i:47408028 original size:100 final size:100
Alignment explanation
Indices: 47407824--47408008 Score: 253
Period size: 100 Copynumber: 1.9 Consensus size: 100
47407814 TGATATCTTT
* * *
47407824 AATCTGTTTAACTGGAATGTCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTATTCCACTAT
1 AATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTACTCCACTAC
47407889 ACCGCCAAGGAAGTAAGATTCACCATTGCGCCTTC
66 ACCGCCAAGGAAGTAAGATTCACCATTGCGCCTTC
* * ** ** *
47407924 AATCTTTTTAATTGCAATGTCGGGGAAACAAGATTGGCTGTCGTAGCTTCAATCTGCTCCACTAC
1 AATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTACTCCACTAC
** *
47407989 ATTGCCAGGGAAGTAAGATT
66 ACCGCCAAGGAAGTAAGATT
47408009 TGCTGTTGCA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 72 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (100 bp):
AATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTACTCCACTAC
ACCGCCAAGGAAGTAAGATTCACCATTGCGCCTTC
Found at i:47422076 original size:20 final size:20
Alignment explanation
Indices: 47422053--47422100 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
47422043 CAGCTTAACT
47422053 CTAGCTCAAGGAGCTCATTC
1 CTAGCTCAAGGAGCTCATTC
***
47422073 CTAGCTCACTTAGCTCATTC
1 CTAGCTCAAGGAGCTCATTC
*
47422093 GTAGCTCA
1 CTAGCTCA
47422101 TTTAGTGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (20 bp):
CTAGCTCAAGGAGCTCATTC
Found at i:47422105 original size:20 final size:20
Alignment explanation
Indices: 47422064--47422105 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
47422054 TAGCTCAAGG
47422064 AGCTCATTCCTAGCTCACTT
1 AGCTCATTCCTAGCTCACTT
* *
47422084 AGCTCATTCGTAGCTCATTT
1 AGCTCATTCCTAGCTCACTT
47422104 AG
1 AG
47422106 TGTAACAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (20 bp):
AGCTCATTCCTAGCTCACTT
Found at i:47424515 original size:15 final size:15
Alignment explanation
Indices: 47424473--47424525 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
47424463 AACTAATACA
47424473 AATAATAAT-ACTAAT
1 AATAATAATAAC-AAT
* ** *
47424488 AATTATAGGAACATT
1 AATAATAATAACAAT
47424503 AATAATAATAACAAT
1 AATAATAATAACAAT
47424518 AATAATAA
1 AATAATAA
47424526 AGAAAATAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 27 0.93
16 2 0.07
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:47425238 original size:18 final size:18
Alignment explanation
Indices: 47425215--47425253 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47425205 AACTAATATC
47425215 GAAGAAA-CAGAAAAGAAA
1 GAAGAAATC-GAAAAGAAA
*
47425233 GAAGAAATCTAAAAGAAA
1 GAAGAAATCGAAAAGAAA
47425251 GAA
1 GAA
47425254 AAGAATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (18 bp):
GAAGAAATCGAAAAGAAA
Found at i:47426239 original size:44 final size:44
Alignment explanation
Indices: 47426186--47426692 Score: 650
Period size: 44 Copynumber: 11.7 Consensus size: 44
47426176 ATTTGTAATT
* * **
47426186 TTCAACCTATTCAACTACTGGTCAGGGAGATAGGACTTGTAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* *
47426230 TTCAACCTATTCCACTGCTGGTCAGAGAGATAGGACTTGCAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* * *
47426274 TTCAACTTATTCCACTGTTGGTCAAGGAGATAGG----AC--T-
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* * * *
47426311 TTCGACCTATTCCACTGTTGGTCAGGGAGATAGCAGTTACAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
***
47426355 TTCAACCTATTTTGCTGCTGGTCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* * *
47426399 TTCAACCTATTCCATTGCTGGTCAGGGAGCTAGGACTTAGAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
**** * * *
47426443 TTCAACCTATTTTGTTGCTGGTCAGAGAGCTAGGACTTAAAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* * *
47426487 TTCAACCTATTCCACTGCTGGTTAGGTAGATAGGACTTGCAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* * * *
47426531 TTCAACCTATTCCACAGCTGCTCAGGGAGCTAAGACTTACAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
*
47426575 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTACAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
*
47426619 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTACAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
47426663 TTCAACCTATTCCACTGCTGGTCAGGGAGA
1 TTCAACCTATTCCACTGCTGGTCAGGGAGA
47426693 CAAGGCTGGG
Statistics
Matches: 403, Mismatches: 53, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
37 30 0.07
38 1 0.00
40 1 0.00
41 2 0.00
43 1 0.00
44 368 0.91
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
Found at i:47426755 original size:88 final size:88
Alignment explanation
Indices: 47426663--47427182 Score: 496
Period size: 88 Copynumber: 5.9 Consensus size: 88
47426653 GCTTACAATC
* *** * * * *
47426663 TTCAACCTATTCCACTGCTGGTCAGGGAGACAAGGCTGGGGTCTTCGCTCTGCTTCACCGTTAGT
1 TTCAACCTACTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAGT
47426728 ACAGGAAGGCAAGATCTGTTATT
66 ACAGGAAGGCAAGATCTGTTATT
* * * * *
47426751 TTCAACCTGCTTCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGT
1 TTCAACCTACTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAGT
* * * *
47426816 ACAGGAAGGTAAGGTCTGCTACCT
66 ACAGGAAGGCAAGATCTGTTA-TT
* * ** *
47426840 TT-AACCTACTCCACTGCAACTCAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTTGCTG-TCGA
1 TTCAACCTACTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAG-
* *
47426903 TGCAGGAAGGCAAGATCTGTTATC
65 TACAGGAAGGCAAGATCTGTTATT
* * *
47426927 TTCAACCTACTCCACTGCAAC-CGAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTG-TCG
1 TTCAACCTACTCCACTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAG
* *
47426990 TTGCAGGAAGGCAAGATCTGCTATCT
65 -TACAGGAAGGCAAGATCTGTTAT-T
* * * * * *
47427016 TT-ATCCTGCTCCACTACAAC-CGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATTGG
1 TTCAACCTACTCCACTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAG
* * * *
47427079 TGCAAGAAGGCAAGATCTGGTATG
65 TACAGGAAGGCAAGATCTGTTATT
* * * * * * **
47427103 TTCAACCTGCTCCACTACAAC-CGAGGGAGGCAAGACTGGTGTCTTCAATCTACTTCGCTGTCGG
1 TTCAACCTACTCCACTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAG
*
47427167 TGCAGGAAGGCAAGAT
65 TACAGGAAGGCAAGAT
47427183 ATGCTATCTT
Statistics
Matches: 369, Mismatches: 56, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
87 6 0.02
88 356 0.96
89 7 0.02
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (88 bp):
TTCAACCTACTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAGT
ACAGGAAGGCAAGATCTGTTATT
Found at i:47426929 original size:45 final size:45
Alignment explanation
Indices: 47426861--47427193 Score: 166
Period size: 44 Copynumber: 7.6 Consensus size: 45
47426851 CACTGCAACT
* * *
47426861 CAGGGAGGCAAGGT-TGGTATCTTCGATCTGCTTTGCTGTCGATG
1 CAGGAAGGCAAGATCTGGTATCTTCGATCTGCTTCGCTGTCGATG
* * * * * * **
47426905 CAGGAAGGCAAGATCTGTTATCTTCAACCTACTCCACTG-C-AAC
1 CAGGAAGGCAAGATCTGGTATCTTCGATCTGCTTCGCTGTCGATG
* * *
47426948 CGAGGGAGGCAAGA-CTGGTGTCTTCGATCTGCTTCGCTGTCGTTG
1 C-AGGAAGGCAAGATCTGGTATCTTCGATCTGCTTCGCTGTCGATG
* * * * * **
47426993 CAGGAAGGCAAGATCTGCTATCTT-TATCCTGCTCCACT-AC-AAC
1 CAGGAAGGCAAGATCTGGTATCTTCGAT-CTGCTTCGCTGTCGATG
* * * * * *
47427036 CGAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTATTGGTG
1 C-AGGAAGGCAAGATCTGGTATCTTCGATCTGCTTCGCTGTCGATG
* * * * * * * **
47427081 CAAGAAGGCAAGATCTGGTATGTTCAACCTGCTCCACT-AC-AAC
1 CAGGAAGGCAAGATCTGGTATCTTCGATCTGCTTCGCTGTCGATG
* * * * *
47427124 CGAGGGAGGCAAGA-CTGGTGTCTTCAATCTACTTCGCTGTCGGTG
1 C-AGGAAGGCAAGATCTGGTATCTTCGATCTGCTTCGCTGTCGATG
* *
47427169 CAGGAAGGCAAGATATGCTATCTTC
1 CAGGAAGGCAAGATCTGGTATCTTC
47427194 ACTGATTTGT
Statistics
Matches: 200, Mismatches: 74, Indels: 29
0.66 0.24 0.10
Matches are distributed among these distances:
43 56 0.28
44 82 0.41
45 62 0.31
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.26
Consensus pattern (45 bp):
CAGGAAGGCAAGATCTGGTATCTTCGATCTGCTTCGCTGTCGATG
Found at i:47427190 original size:176 final size:176
Alignment explanation
Indices: 47426684--47427192 Score: 678
Period size: 176 Copynumber: 2.9 Consensus size: 176
47426674 CCACTGCTGG
* * * * * * *
47426684 TCAGGGAGACAAGGCTGGGGTCTTCGCTCTGCTTCACCGTTAGTACAGGAAGGCAAGATCTGTTA
1 TCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGTTA
* * * * * * *
47426749 TTTTCAACCTGCTTCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCA
66 TCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCG
* * * * *
47426814 GTACAGGAAGGTAAGGTCTGCTACCTTTAACCTACTCCACTGCAAC
131 GTGCAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTACAAC
* * * * *
47426860 TCAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTTGCTGTCGATGCAGGAAGGCAAGATCTGTTA
1 TCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGTTA
*
47426925 TCTTCAACCTACTCCACTGCAACCGAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCG
66 TCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCG
* * *
47426990 TTGCAGGAAGGCAAGATCTGCTATCTTTATCCTGCTCCACTACAAC
131 GTGCAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTACAAC
* * *
47427036 -CGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATTGGTGCAAGAAGGCAAGATCTGGT
1 TC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGTT
* * * *
47427100 ATGTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGACTGGTGTCTTCAATCTACTTCGCTGTC
65 ATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTC
*
47427165 GGTGCAGGAAGGCAAGATATGCTATCTT
130 GGTGCAGGAAGGCAAGATCTGCTATCTT
47427193 CACTGATTTG
Statistics
Matches: 289, Mismatches: 43, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
175 1 0.00
176 288 1.00
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.27
Consensus pattern (176 bp):
TCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGTTA
TCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCG
GTGCAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTACAAC
Found at i:47428587 original size:83 final size:81
Alignment explanation
Indices: 47428399--47428611 Score: 198
Period size: 83 Copynumber: 2.6 Consensus size: 81
47428389 CCCCTTTGGT
* * * *
47428399 CTCAAGGCGCCCTTTGCGGGTTTTCACATTGGCCTCTCCTTTTTCTTTTTCTTTTTTCATTTTCA
1 CTCAAAGCGCCCTTTGCGGGTTTTCACATTGTCCCCT-CTTCTTCTTTTTCTTTTTT-ATTTTCA
47428464 TCTTCATCATTTTTTTGA
64 TCTTCATCATTTTTTTGA
* ** * *
47428482 CTCAAAGTGCTATTTGCAGGTTTTCACCTTGATCCCCTCTTCTTCTTTTT-TTCTTTT-TTTTC-
1 CTCAAAGCGCCCTTTGCGGGTTTTCACATTG-TCCCCTCTTCTTCTTTTTCTT-TTTTATTTTCA
* *
47428544 TTTTCATCTTTTTTTTTGAAA
64 TCTTCATC-ATTTTTTTG--A
* * * *
47428565 CTCAAAGCGCCCTTTGTGGGTTTTCACGTTGGTCCCTTCTCCTTCTT
1 CTCAAAGCGCCCTTTGCGGGTTTTCACATT-GTCCCCTCTTCTTCTT
47428612 CAGGTGAAGT
Statistics
Matches: 105, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
80 7 0.07
81 13 0.12
82 2 0.02
83 78 0.74
84 5 0.05
ACGTcount: A:0.11, C:0.25, G:0.12, T:0.51
Consensus pattern (81 bp):
CTCAAAGCGCCCTTTGCGGGTTTTCACATTGTCCCCTCTTCTTCTTTTTCTTTTTTATTTTCATC
TTCATCATTTTTTTGA
Found at i:47433901 original size:3 final size:3
Alignment explanation
Indices: 47433893--47433945 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
47433883 AACTAATACA
* * * * * *
47433893 AAT AAT AAT ACT AAT AAT TAT AGT AAC ATT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47433941 AAT AA
1 AAT AA
47433946 AGAAAATAGT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47434651 original size:18 final size:18
Alignment explanation
Indices: 47434630--47434668 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47434620 AACTAATATT
*
47434630 GAAGAAA-CAGAAAATAAA
1 GAAGAAATC-GAAAAGAAA
47434648 GAAGAAATCGAAAAGAAA
1 GAAGAAATCGAAAAGAAA
47434666 GAA
1 GAA
47434669 AAGAATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (18 bp):
GAAGAAATCGAAAAGAAA
Found at i:47435434 original size:41 final size:40
Alignment explanation
Indices: 47435371--47435644 Score: 244
Period size: 41 Copynumber: 6.6 Consensus size: 40
47435361 CTTTGAATGT
* * * * *
47435371 AAGGGGTTGCTAAGTACAGATTCCTCGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TAA
* * * *
47435412 AAAGGGTTGCTATGTGCTGATTCCCCGTATCATTTATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* *
47435452 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* **
47435496 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTGT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * * * *
47435536 AAGGTGGCTGCTAAGTGCTAATTCCACCGCATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* *
47435580 AAGGGGTTGCTATA-TGCTGATTCCCTGTATCATTGATTAT
1 AAGGGGTTGCTA-AGTGCTGATTCCCCGTATCATTGATTAA
*
47435620 AAGGTGGTTGCCAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
47435645 ACCGGGATCC
Statistics
Matches: 190, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
40 16 0.08
41 85 0.45
42 40 0.21
43 37 0.19
44 12 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
Found at i:47435515 original size:84 final size:84
Alignment explanation
Indices: 47435415--47435648 Score: 396
Period size: 84 Copynumber: 2.8 Consensus size: 84
47435405 GATCAAAAAA
*
47435415 GGGTTGCTATGTGCTGATTCCCCGTATCATTTATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
*
47435480 GTATCCTTGATTGTGAAAG
66 GCATCCTTGATTGTGAAAG
* * *
47435499 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTGTAAGGTGGCTGCTAAGTGCTAATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
47435564 GCATCCTTGATTGTGAAAG
66 GCATCCTTGATTGTGAAAG
* * *
47435583 GGGTTGCTATATGCTGATTCCCTGTATCATTGATTATAAGGTGGTTGCCAAGTGCTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
47435648 G
66 G
47435649 GGATCCTTTG
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 139 1.00
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (84 bp):
GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
GCATCCTTGATTGTGAAAG
Found at i:47445299 original size:20 final size:20
Alignment explanation
Indices: 47445274--47445312 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
47445264 TACTTTCTTC
47445274 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
47445294 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
47445313 AAATAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:47445644 original size:50 final size:51
Alignment explanation
Indices: 47445522--47445812 Score: 202
Period size: 56 Copynumber: 5.6 Consensus size: 51
47445512 ACATGCAAAA
* * ** * * * *
47445522 GCCATGTCCCAAACATGGTCTTATATGGGATGTTTCCTGT-ACTG-CCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCCAAT
* * **
47445571 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAGTGCCCAA-
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCCAAT
* *
47445621 GCCATGTCCCAGACATGGCCTTACGA-GGGACCTCTCATCTC-G-GCGCCAAT
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATCAGTGC-CCAAT
* * *
47445671 GCCATGTCCCAGACATAGTCTTACGTGGGACCTCTCATAACCTCAATAATG-CCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AGTGCCCAAT
* * *
47445727 GCCATGTCCCAGACATAGTCTTACGTGGGACCTCTCATAACCTCAATAATG-CCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AGTGCCCAAT
* *
47445783 GCCATGTCCCAGACAGGGTCTTACAGGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
47445813 TCTCATTCCC
Statistics
Matches: 203, Mismatches: 25, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
48 2 0.01
49 36 0.18
50 70 0.34
51 5 0.02
53 2 0.01
56 87 0.43
58 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCCAAT
Found at i:47445740 original size:56 final size:56
Alignment explanation
Indices: 47445665--47445806 Score: 266
Period size: 56 Copynumber: 2.5 Consensus size: 56
47445655 TCATCTCGGC
47445665 GCCAATGCCATGTCCCAGACATAGTCTTACGTGGGACCTCTCATAACCTCAATAAT
1 GCCAATGCCATGTCCCAGACATAGTCTTACGTGGGACCTCTCATAACCTCAATAAT
47445721 GCCAATGCCATGTCCCAGACATAGTCTTACGTGGGACCTCTCATAACCTCAATAAT
1 GCCAATGCCATGTCCCAGACATAGTCTTACGTGGGACCTCTCATAACCTCAATAAT
**
47445777 GCCAATGCCATGTCCCAGACAGGGTCTTAC
1 GCCAATGCCATGTCCCAGACATAGTCTTAC
47445807 AGGGGATCTC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 84 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (56 bp):
GCCAATGCCATGTCCCAGACATAGTCTTACGTGGGACCTCTCATAACCTCAATAAT
Found at i:47464664 original size:27 final size:28
Alignment explanation
Indices: 47464622--47464691 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
47464612 ATTTTTAATG
47464622 CATG-TTTTAATATGTCATAG-CTAGTA
1 CATGTTTTTAATATGTCATAGTCTAGTA
* * *
47464648 CATGTTTTTAATTTGTCTTAGTCTATTA
1 CATGTTTTTAATATGTCATAGTCTAGTA
47464676 CATGTTTTTAATATGT
1 CATGTTTTTAATATGT
47464692 TCTTGTTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.11
27 14 0.37
28 20 0.53
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (28 bp):
CATGTTTTTAATATGTCATAGTCTAGTA
Found at i:47470059 original size:25 final size:25
Alignment explanation
Indices: 47470025--47470078 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
47470015 TGAACCTCTG
47470025 ACCTCCTTACCACACCTATGACGCC
1 ACCTCCTTACCACACCTATGACGCC
*
47470050 ACCTCCTTACCACACCTATGTCGCC
1 ACCTCCTTACCACACCTATGACGCC
47470075 ACCT
1 ACCT
47470079 TGCCACTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACGCC
Found at i:47472620 original size:19 final size:19
Alignment explanation
Indices: 47472596--47472680 Score: 72
Period size: 19 Copynumber: 4.6 Consensus size: 19
47472586 AATAAATTAC
47472596 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
*
47472615 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTGAGT
* * *
47472634 T--GC-TAGAATAAATT-A-C
1 TCATCTTAG--TTAATTGAGT
47472650 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
*
47472669 TCACCTTAGTTA
1 TCATCTTAGTTA
47472681 CTTAAGTTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
16 4 0.08
17 7 0.14
18 7 0.14
19 33 0.65
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (19 bp):
TCATCTTAGTTAATTGAGT
Done.