Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 161 of 356
Found at i:52058513 original size:55 final size:55
Alignment explanation
Indices: 52058448--52058572 Score: 214
Period size: 55 Copynumber: 2.3 Consensus size: 55
52058438 TAAATTGTGC
*
52058448 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
* *
52058503 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
*
52058558 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52058573 GACTTAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
Found at i:52070926 original size:40 final size:40
Alignment explanation
Indices: 52070722--52070926 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
52070712 CGGAATTTAA
** *
52070722 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52070762 CCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52070802 CCAGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52070842 CCGGAT-TGAGTAACTCGCACCAATGCCTTC-GAATCTTAGT
1 CCGGATAT-AGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
52070882 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
52070922 CCGGA
1 CCGGA
52070927 CATCATTCAA
Statistics
Matches: 138, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.03
40 124 0.90
41 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52078841 original size:40 final size:40
Alignment explanation
Indices: 52078637--52078841 Score: 202
Period size: 40 Copynumber: 5.1 Consensus size: 40
52078627 CGGAATTTAA
** *
52078637 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
52078677 CCGGTTATAGTAACTTGCACAAATTCTTTCGGGACTT-GAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG-C
* *
52078717 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
52078757 CCAGATTTAGTAACTCGCACCAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
52078797 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
52078837 CCGGA
1 CCGGA
52078842 CATCATTCAA
Statistics
Matches: 135, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
39 5 0.04
40 120 0.89
41 10 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52085248 original size:50 final size:49
Alignment explanation
Indices: 52085123--52085410 Score: 333
Period size: 50 Copynumber: 5.8 Consensus size: 49
52085113 AAAGCTATTT
* * * *
52085123 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC
* ** * ** *
52085172 AGTACATGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCC
* * * * *
52085222 GGTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAGTTATCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAATTATCC
* * * *
52085272 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAGTTATCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAATTATCC
* * *
52085322 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC
*
52085371 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGAC
52085411 ATCACAACAG
Statistics
Matches: 207, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 78 0.38
50 128 0.62
51 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC
Found at i:52085378 original size:149 final size:149
Alignment explanation
Indices: 52085123--52085409 Score: 405
Period size: 149 Copynumber: 1.9 Consensus size: 149
52085113 AAAGCTATTT
* * ** *
52085123 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCAGTACATGTAGTAGCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCC
* *
52085188 TGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACGTAGTAGCCTGCACATAGTACTAC
66 TGCACTTAGTACTACACACGCGACCTAACCATCCGGTACACGTAGTAGCCTGCACATAGTACTAC
52085253 ACACGTGATCGAGTTATCG
131 ACACGTGATCGAGTTATCG
* * * ** *
52085272 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAGTTATCGGGTACGCATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAATTATCCAGTACACATAGTAGC
* ** *
52085337 CTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTA
65 CTGCACTTAGTACTACACACGCGACCTAACCATCCGGTACACGTAGTAGCCTGCACATAGTACTA
52085401 CACACGTGA
130 CACACGTGA
52085410 CATCACAACA
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
149 79 0.66
150 41 0.34
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCC
TGCACTTAGTACTACACACGCGACCTAACCATCCGGTACACGTAGTAGCCTGCACATAGTACTAC
ACACGTGATCGAGTTATCG
Found at i:52088411 original size:27 final size:27
Alignment explanation
Indices: 52088282--52088412 Score: 90
Period size: 27 Copynumber: 4.9 Consensus size: 27
52088272 AATACTTTAG
* *
52088282 TTTACCAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACTCAAATACCCTCGA
* **
52088309 CTTGTAAAATTAC-CAAAGTACCC-CTGA
1 TTTACAAAATTACTCAAA-TACCCTC-GA
* **
52088336 TTTACAGAATTACT-ATTTTACCCTCGA
1 TTTACAAAATTACTCA-AATACCCTCGA
* **
52088363 TTTACAGAATTAC-CATTTTACCCTCGA
1 TTTACAAAATTACTCA-AATACCCTCGA
*
52088390 TTTACAAAATTACTGAAATACCC
1 TTTACAAAATTACTCAAATACCC
52088413 CTGTAGGGTA
Statistics
Matches: 82, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
26 4 0.05
27 76 0.93
28 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACTCAAATACCCTCGA
Found at i:52088412 original size:54 final size:53
Alignment explanation
Indices: 52088282--52088412 Score: 124
Period size: 54 Copynumber: 2.4 Consensus size: 53
52088272 AATACTTTAG
*
52088282 TTTACCAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGA
1 TTTACAAAATTACT-AAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGA
* ** ***
52088336 TTTACAGAATTACTATTTTACCCTCGA-TT-TACAGAATTACCATTTTA-CCCTCGA
1 TTTACAAAATTACTA-AATACCCTCGACTTGTA-A-AATTACCAAAGTACCCCT-GA
52088390 TTTACAAAATTACTGAAATACCC
1 TTTACAAAATTACT-AAATACCC
52088413 CTGTAGGGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
52 2 0.03
53 8 0.13
54 51 0.82
55 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (53 bp):
TTTACAAAATTACTAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGA
Found at i:52088427 original size:27 final size:27
Alignment explanation
Indices: 52088397--52088645 Score: 318
Period size: 27 Copynumber: 9.2 Consensus size: 27
52088387 CGATTTACAA
52088397 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
52088424 AATTACTGAAATATCCCTGTACGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
52088451 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
52088478 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
52088505 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
52088532 AATTACTAAAATACCCCTGTGGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
52088559 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
52088586 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
52088613 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
52088640 AATTAC
1 AATTAC
52088646 CATTTTTCCC
Statistics
Matches: 194, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 194 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:52088884 original size:28 final size:28
Alignment explanation
Indices: 52088844--52088925 Score: 141
Period size: 28 Copynumber: 3.0 Consensus size: 28
52088834 GGAGGAAGCG
52088844 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
52088872 TTCTGGTGGCTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
52088899 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
52088926 ATATGGTGAC
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.15
27 17 0.33
28 27 0.52
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:52088914 original size:27 final size:26
Alignment explanation
Indices: 52088843--52088958 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
52088833 TGGAGGAAGC
52088843 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
52088870 GTTTCTGGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
52088898 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * **
52088924 GTATATGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
52088951 GTTCTGGT
1 GTTCTGGT
52088959 AGCCATGCTG
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 14 0.17
27 40 0.49
28 27 0.33
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:52089131 original size:6 final size:6
Alignment explanation
Indices: 52089120--52089205 Score: 77
Period size: 6 Copynumber: 14.2 Consensus size: 6
52089110 ATGGGCTTCC
* * *
52089120 TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTAA TTTTG- TCAGCTGA
1 TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA T--TCTGA
* * *
52089169 TTCTAA TTCTGA TTCTCA TTTTGA TTCT-A GTTCTGA T
1 TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA -TTCTGA T
52089206 AATGTTTCTT
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
5 2 0.03
6 57 0.90
7 3 0.05
8 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
TTCTGA
Found at i:52101948 original size:16 final size:16
Alignment explanation
Indices: 52101922--52101965 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
52101912 GGAAAAAGCC
52101922 AAAATGCCGAAATACCG
1 AAAA-GCCGAAATACCG
52101939 AAAAGCCGAAATACCG
1 AAAAGCCGAAATACCG
*
52101955 AAAAGCTGAAA
1 AAAAGCCGAAA
52101966 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.52, C:0.20, G:0.18, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATACCG
Found at i:52102224 original size:29 final size:28
Alignment explanation
Indices: 52102191--52102290 Score: 119
Period size: 29 Copynumber: 3.5 Consensus size: 28
52102181 AATTTGACTA
*
52102191 GGCCTAACGGGCCATATAAATGTGAGTTG
1 GGCCTAATGGGCCATATAAATGTGA-TTG
* *
52102220 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGA-TTG
* * *
52102249 GGTCTAATGGGCCATATGAATATGATTG
1 GGCCTAATGGGCCATATAAATGTGATTG
*
52102277 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
52102291 GATACAGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
28 15 0.25
29 45 0.75
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
GGCCTAATGGGCCATATAAATGTGATTG
Found at i:52108271 original size:14 final size:13
Alignment explanation
Indices: 52108242--52108279 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
52108232 TATCCTAGAA
52108242 AATTAA-AACAAG
1 AATTAAGAACAAG
*
52108254 AATTAAGAACACAT
1 AATTAAGAACA-AG
52108268 AATTAAGAACAA
1 AATTAAGAACAA
52108280 ATCAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.63, C:0.11, G:0.08, T:0.18
Consensus pattern (13 bp):
AATTAAGAACAAG
Found at i:52109988 original size:41 final size:41
Alignment explanation
Indices: 52109919--52110039 Score: 118
Period size: 44 Copynumber: 2.9 Consensus size: 41
52109909 TCAAATATCA
* *
52109919 ATGCCACTGTCACAGACAGGGTCTTACACAAAATCAAATAAG
1 ATGCCAATGTCACAGACATGGTCTTACACAAAATCAAAT-AG
* * * *
52109961 ATGTCAATGTC-CAGACATGGCCTTACACGTAAATCTCAAATGG
1 ATGCCAATGTCACAGACATGGTCTTACAC--AAA-ATCAAATAG
* * *
52110004 ATGCCAACGTCTCAGATATGGTCTTACACAAAATCA
1 ATGCCAATGTCACAGACATGGTCTTACACAAAATCA
52110040 CATATTGGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
41 18 0.28
42 12 0.19
43 13 0.20
44 21 0.33
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (41 bp):
ATGCCAATGTCACAGACATGGTCTTACACAAAATCAAATAG
Found at i:52112213 original size:12 final size:12
Alignment explanation
Indices: 52112196--52112230 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
52112186 TTTTCAAAAT
52112196 TTTTATTTTTAG
1 TTTTATTTTTAG
52112208 TTTTATTTTTAG
1 TTTTATTTTTAG
52112220 TTTTCATTTTT
1 TTTT-ATTTTT
52112231 TTTGGCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTTATTTTTAG
Found at i:52116933 original size:43 final size:43
Alignment explanation
Indices: 52116850--52116966 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
52116840 AATTTGAGAT
* * * *
52116850 TTACGTGTAAGAGCACGTCTAGGACA-TCAGCATCG-TATTTGA
1 TTACATGTAAGACCACGTCTGGGACAGT-AGCATTGATATTTGA
* * *
52116892 TTTCGTGTGAGACC-CTGTCTGGGACAGTAGCATTGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACAGTAGCATTGATATTTGA
*
52116935 TTACATGTAAGACCACGTCTGGGACATTAGCA
1 TTACATGTAAGACCACGTCTGGGACAGTAGCA
52116967 CTGTACGAGC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.02
42 26 0.42
43 34 0.55
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TTACATGTAAGACCACGTCTGGGACAGTAGCATTGATATTTGA
Found at i:52119886 original size:27 final size:27
Alignment explanation
Indices: 52119807--52119880 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
52119797 CCTTATGTGA
52119807 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
52119834 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
52119861 TAGAATGATCGAAATACCCC
1 TAAAATGATCGAAATACCCC
52119881 TGTAGGATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCATAGGG
Found at i:52123525 original size:26 final size:26
Alignment explanation
Indices: 52123495--52123601 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
52123485 TGAAATTCCC
52123495 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
52123521 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52123547 ATCATGAAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52123572 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
52123598 ATCA
1 ATCA
52123602 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 24 0.31
26 53 0.69
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:52123587 original size:51 final size:52
Alignment explanation
Indices: 52123495--52123601 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
52123485 TGAAATTCCC
*
52123495 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
*
52123547 ATCATGAAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
52123598 ATCA
1 ATCA
52123602 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 34 0.64
52 19 0.36
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:52124013 original size:43 final size:43
Alignment explanation
Indices: 52123966--52124086 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
52123956 CATTGTATTG
* **
52123966 TGATTACGTGTAAGACCACGTCTGGGAAATTGGCATCGTTATA
1 TGATTACGTGTAAGACCATGTCTGGGAAATTGGCATCAATATA
* * *
52124009 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCAATATG
1 TGATTACGTGTAAGACCATGTCTGGGAAATTGGCATCAATATA
* * * *
52124052 TGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGATTACGTGTAAGACCATGTCTGGGAAATTGGCAT
52124087 TGTAGGAGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 6 0.09
43 61 0.91
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGAAATTGGCATCAATATA
Found at i:52127653 original size:46 final size:44
Alignment explanation
Indices: 52127600--52127721 Score: 167
Period size: 45 Copynumber: 2.7 Consensus size: 44
52127590 ACTGTGAGCT
*
52127600 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGACGT--GTC
*
52127646 AGTGTAAGACATG-CTGGGACATGCACCAGCTACGAGACGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGTGTC
52127689 AGTGTAAGACCATGTCTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
52127722 ACAGATATGC
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
43 12 0.17
44 6 0.09
45 31 0.45
46 20 0.29
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGTGTC
Found at i:52134736 original size:46 final size:45
Alignment explanation
Indices: 52134678--52134946 Score: 159
Period size: 46 Copynumber: 5.7 Consensus size: 45
52134668 GGGCTATTGT
*
52134678 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTGTGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-TGTGA
* * * * *
52134724 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCATG-TGA
* * * *
52134772 GTGCTAGTGTAAGGCATGTCTCGGACATGCATCGGCCTCGA-GATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ATG-TG-A
* * * * *
52134819 -AGTCAGTGTAAGACAAGTCTGGGACATGCATTGG-CT-ACGAGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGTGA
* * * * ** *
52134861 CGTGTCAGTATAAGACCATGTCTGGGACATGGTATCGGCACAGATATGCTA
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCATGTG--A
* *
52134912 GAGCCTGTGTAAGACCATGCCTGGGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
52134947 AGCATCTTAC
Statistics
Matches: 171, Mismatches: 37, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 12 0.07
45 15 0.09
46 56 0.33
47 30 0.18
48 23 0.13
49 2 0.01
50 29 0.17
51 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGTGA
Found at i:52139144 original size:43 final size:44
Alignment explanation
Indices: 52139071--52139156 Score: 115
Period size: 43 Copynumber: 1.9 Consensus size: 44
52139061 GACACTCGGA
52139071 TAATCACATATCGTAAATGCCAACGTCCCAGAC-GTGGTCTTACATG
1 TAATCACATATCG--AATGCCAACGTCCCAGACAG-GGTCTTACATG
52139117 TAATCACATATCG-ATGCC-ACTGTCCCAGACAGGGTCTTAC
1 TAATCACATATCGAATGCCAAC-GTCCCAGACAGGGTCTTAC
52139157 TCGCACACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
42 2 0.05
43 22 0.58
44 1 0.03
46 13 0.34
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (44 bp):
TAATCACATATCGAATGCCAACGTCCCAGACAGGGTCTTACATG
Found at i:52153720 original size:25 final size:25
Alignment explanation
Indices: 52153686--52153735 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
52153676 AGGTATTATT
52153686 TTGAGTTAGAATTCACAAGTTTAAA
1 TTGAGTTAGAATTCACAAGTTTAAA
52153711 TTGAGTTAGAATTCACAAGTTTAAA
1 TTGAGTTAGAATTCACAAGTTTAAA
52153736 CATAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (25 bp):
TTGAGTTAGAATTCACAAGTTTAAA
Found at i:52154167 original size:23 final size:23
Alignment explanation
Indices: 52154141--52154188 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
52154131 TAAAAAAAAC
52154141 ATGTGTACTTATTAGTAGTAGTA
1 ATGTGTACTTATTAGTAGTAGTA
52154164 ATGTGTACTTATTAGTAGTAGTA
1 ATGTGTACTTATTAGTAGTAGTA
52154187 AT
1 AT
52154189 CTTCTAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (23 bp):
ATGTGTACTTATTAGTAGTAGTA
Found at i:52163223 original size:54 final size:54
Alignment explanation
Indices: 52163165--52163298 Score: 133
Period size: 54 Copynumber: 2.5 Consensus size: 54
52163155 CCTTAATTGA
* * *** * *
52163165 TAAAATGACAGTTTTGCCCCTATGTGCTAAAATGATTGTTTTGCCCTTACGTGG
1 TAAAATGACTGTTTTGCCCCTATGTGCTAAAATGACTGAAATGCCCCTACATGG
** * * * * *
52163219 TAAAATGTTTGTTCTACCCTTATATGGTAAAATGACTGAAATGCCCCTACATGG
1 TAAAATGACTGTTTTGCCCCTATGTGCTAAAATGACTGAAATGCCCCTACATGG
*
52163273 TAAATTGACTGTTTTGCCCCTATGTG
1 TAAAATGACTGTTTTGCCCCTATGTG
52163299 AGGTATTTAT
Statistics
Matches: 59, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
TAAAATGACTGTTTTGCCCCTATGTGCTAAAATGACTGAAATGCCCCTACATGG
Found at i:52163230 original size:27 final size:27
Alignment explanation
Indices: 52163165--52163298 Score: 97
Period size: 27 Copynumber: 5.0 Consensus size: 27
52163155 CCTTAATTGA
** * *
52163165 TAAAATGACAGTTTTGCCCCTATGTGC
1 TAAAATGATTGTTTTGCCCTTATGTGG
*
52163192 TAAAATGATTGTTTTGCCCTTACGTGG
1 TAAAATGATTGTTTTGCCCTTATGTGG
* * * *
52163219 TAAAATGTTTGTTCTACCCTTATATGG
1 TAAAATGATTGTTTTGCCCTTATGTGG
* *** * **
52163246 TAAAATGACTGAAATGCCCCTACATGG
1 TAAAATGATTGTTTTGCCCTTATGTGG
* * *
52163273 TAAATTGACTGTTTTGCCCCTATGTG
1 TAAAATGATTGTTTTGCCCTTATGTG
52163299 AGGTATTTAT
Statistics
Matches: 83, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATGTGG
Found at i:52163661 original size:18 final size:18
Alignment explanation
Indices: 52163638--52163685 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
52163628 TACTATTTAA
52163638 ACTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
* * *
52163656 ACTGTTACTACTCTGTTT
1 ACTGTTACTGCACTGATT
*
52163674 ACTGTTAATGCA
1 ACTGTTACTGCA
52163686 ATGGGCCAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.42
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:52172874 original size:49 final size:47
Alignment explanation
Indices: 52172800--52172930 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 47
52172790 GGTTAAGTGA
* ** *
52172800 GAGCTAGTGTAAGACCATG-CTTGGGACATGGCATCGGCCTCAATTTTGAT
1 GAGCCAGTGTAAGACCATGTC-TGGGACATGGCATC-GAATCAA--TGGAT
** *
52172850 -ATTCAGTGTAAGACCATGTCTGGGACATGGCATCGAATTAATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAATCAATGGAT
52172896 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
52172931 AGCATTACAC
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
46 4 0.06
47 32 0.46
48 4 0.06
49 29 0.41
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAATCAATGGAT
Found at i:52174960 original size:41 final size:41
Alignment explanation
Indices: 52174903--52174986 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
52174893 CTTTCTATCA
52174903 TTCTTGTACTACCTTCTCTAAATTATTAATGAAACTAACAT
1 TTCTTGTACTACCTTCTCTAAATTATTAATGAAACTAACAT
*
52174944 TTCTTGTATTACCTTCTCTAAATTATTAATGAAACTAACAT
1 TTCTTGTACTACCTTCTCTAAATTATTAATGAAACTAACAT
52174985 TT
1 TT
52174987 TGTTCCCTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (41 bp):
TTCTTGTACTACCTTCTCTAAATTATTAATGAAACTAACAT
Found at i:52176928 original size:25 final size:25
Alignment explanation
Indices: 52176879--52176947 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 25
52176869 TCCGAACTAT
* *
52176879 ATAAT-GAGAAGCTCA-TAAGAGCC
1 ATAATCGAGAAGCTCACAAAGAACC
*
52176902 ATAATCGAGAAGTTCACAAAGAACC
1 ATAATCGAGAAGCTCACAAAGAACC
52176927 AT-ATCCGA-AAGCTCACAAAGA
1 ATAAT-CGAGAAGCTCACAAAGA
52176948 GCAATGTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 5 0.13
24 23 0.59
25 11 0.28
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.16
Consensus pattern (25 bp):
ATAATCGAGAAGCTCACAAAGAACC
Found at i:52178733 original size:42 final size:42
Alignment explanation
Indices: 52178663--52178785 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 42
52178653 TTAGGGTTAT
52178663 TTGAG-TTTACGTGTAAGACCATATCTGGGATATGGCATCG-A
1 TTGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATCGAA
* * *
52178704 TATGAGATTTCGTGTAAGACTATAGCTGGGCTATTGGCATCGAA
1 T-TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGAA
** *
52178748 TTGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TTGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
52178786 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.43
43 36 0.52
44 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
TTGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGAA
Found at i:52187439 original size:47 final size:46
Alignment explanation
Indices: 52187287--52187510 Score: 190
Period size: 47 Copynumber: 4.8 Consensus size: 46
52187277 ATATATACGT
* *
52187287 GCTGATACATGTCCC-GAACATGTCTTACACTAGCACA-A-CTCTTAG
1 GCTGATGCATGTCCCAG-ACATGTCTTACACTGGCACACATCTC-TAG
* * * * *
52187332 TC-GATGCATGTCCTAGACACGTCTTACACTGGCTA-TCATCGTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGC-ACACATC-TCTAG
* *
52187378 GCTGATGCAAGTCCCAGACATGTCTTACACTGGCACACATCTCTAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACACATCTCTAG
* * * * *
52187424 GCTGATGCCATGTCCCAGACTTGGTCTTACATTGGCACTCATAATGT-G
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCACACAT-CTCTAG
** *
52187472 GCCAATGCATGTCCCAAACATGTCTTACACTGGCACACA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACACA
52187511 AGAAGTCTAA
Statistics
Matches: 142, Mismatches: 27, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 25 0.18
45 4 0.03
46 31 0.22
47 58 0.41
48 22 0.15
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCACACATCTCTAG
Found at i:52189322 original size:47 final size:47
Alignment explanation
Indices: 52189254--52189474 Score: 204
Period size: 48 Copynumber: 4.7 Consensus size: 47
52189244 TTTGTGTGCT
* *
52189254 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCAACATT-ATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-AC-TTAATGAGAGCC
* * *
52189300 AGTGTAAGACCATGTCTGGGACATCGCATCGGTA-TTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTT-A-ATGAGAGCC
* ** * *
52189348 AGTATAAGACCATGTCTGGGACATGGTGTCGGC-CTTAATCGCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTAAT---GAGAGCC
*
52189397 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATGTATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTAATG-A-GAGCC
*
52189444 AGTGTAAGATCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
52189475 TCATCCTACC
Statistics
Matches: 143, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
45 3 0.02
46 12 0.08
47 47 0.33
48 50 0.35
49 31 0.22
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTAATGAGAGCC
Found at i:52208130 original size:7 final size:7
Alignment explanation
Indices: 52208118--52208145 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
52208108 GCCGAAGCCT
52208118 TTTCATA
1 TTTCATA
52208125 TTTCATA
1 TTTCATA
52208132 TTTCATA
1 TTTCATA
52208139 TTTCATA
1 TTTCATA
52208146 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:52208481 original size:26 final size:25
Alignment explanation
Indices: 52208373--52208480 Score: 132
Period size: 25 Copynumber: 4.4 Consensus size: 25
52208363 CTAGAGGCCT
* *
52208373 AGCCTCTTTTAAT-AACTGGGTC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
52208397 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
52208422 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
52208447 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-GATAAACTGGGGCAAA
52208472 AGCCCTTTT
1 AGCCCTTTT
52208481 TGCACTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 7 0.09
24 12 0.16
25 45 0.60
26 11 0.15
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:52208551 original size:20 final size:20
Alignment explanation
Indices: 52208528--52208594 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
52208518 TTATGAATAC
52208528 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
52208548 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
52208568 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
52208588 ATCATGT
1 ATCATGT
52208595 ATATCAAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:52208557 original size:40 final size:39
Alignment explanation
Indices: 52208513--52208592 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 39
52208503 TCCCAACCTA
52208513 ATGCATTATGAATAC-ATCATGTGCATATCATA-CATATCAT
1 ATGCA-TAT-AATACAATCATGTGCATATCATATCA-ATCAT
*
52208553 ATGCATATCATACATATCATGTGCATATCATATCAATCAT
1 ATGCATATAATACA-ATCATGTGCATATCATATCAATCAT
52208593 GTATATCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 27 0.75
41 2 0.06
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (39 bp):
ATGCATATAATACAATCATGTGCATATCATATCAATCAT
Found at i:52208559 original size:11 final size:11
Alignment explanation
Indices: 52208528--52208585 Score: 70
Period size: 11 Copynumber: 5.6 Consensus size: 11
52208518 TTATGAATAC
*
52208528 ATCATGTGCAT
1 ATCATATGCAT
52208539 ATCATA--CAT
1 ATCATATGCAT
52208548 ATCATATGCAT
1 ATCATATGCAT
52208559 ATCATA--CAT
1 ATCATATGCAT
*
52208568 ATCATGTGCAT
1 ATCATATGCAT
52208579 ATCATAT
1 ATCATAT
52208586 CAATCATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 17 0.43
11 23 0.57
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:52208591 original size:9 final size:10
Alignment explanation
Indices: 52208536--52208592 Score: 66
Period size: 9 Copynumber: 5.8 Consensus size: 10
52208526 ACATCATGTG
52208536 CATATCATA-
1 CATATCATAT
52208545 CATATCATAT
1 CATATCATAT
52208555 GCATATCATA-
1 -CATATCATAT
*
52208565 CATATCATGT
1 CATATCATAT
52208575 GCATATCATAT
1 -CATATCATAT
52208586 CA-ATCAT
1 CATATCAT
52208593 GTATATCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 22 0.52
10 2 0.05
11 18 0.43
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (10 bp):
CATATCATAT
Found at i:52216204 original size:7 final size:7
Alignment explanation
Indices: 52216192--52216219 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
52216182 GCCGAAGCCT
52216192 TTTCATA
1 TTTCATA
52216199 TTTCATA
1 TTTCATA
52216206 TTTCATA
1 TTTCATA
52216213 TTTCATA
1 TTTCATA
52216220 ACACTGGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:52216555 original size:26 final size:25
Alignment explanation
Indices: 52216447--52216554 Score: 132
Period size: 25 Copynumber: 4.4 Consensus size: 25
52216437 CTGGAGGCCT
*
52216447 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
52216471 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
52216496 AGCCTTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
52216521 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-GATAAACTGGGGCAAA
52216546 AGCCCTTTT
1 AGCCCTTTT
52216555 TGCACTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 7 0.09
24 13 0.18
25 43 0.58
26 11 0.15
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:52216633 original size:11 final size:11
Alignment explanation
Indices: 52216602--52216657 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52216592 TTATGAATAC
52216602 ATCATGTGCAT
1 ATCATGTGCAT
**
52216613 ATCA--CACAT
1 ATCATGTGCAT
52216622 ATCATGTGCAT
1 ATCATGTGCAT
*
52216633 ATCA--TACAT
1 ATCATGTGCAT
52216642 ATCATGTGCAT
1 ATCATGTGCAT
52216653 ATCAT
1 ATCAT
52216658 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:52216657 original size:20 final size:20
Alignment explanation
Indices: 52216602--52216668 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
52216592 TTATGAATAC
*
52216602 ATCATGTGCATATCACACAT
1 ATCATGTGCATATCATACAT
52216622 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
52216642 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
52216662 ATCATGT
1 ATCATGT
52216669 ATATCAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:52216674 original size:9 final size:10
Alignment explanation
Indices: 52216619--52216674 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
52216609 GCATATCACA
52216619 CATATCATGT
1 CATATCATGT
*
52216629 GCATATCAT-A
1 -CATATCATGT
52216639 CATATCATGT
1 CATATCATGT
*
52216649 GCATATCATAT
1 -CATATCATGT
52216660 CA-ATCATGT
1 CATATCATGT
52216669 -ATATCA
1 CATATCA
52216675 AATACCATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 18 0.47
10 2 0.05
11 17 0.45
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (10 bp):
CATATCATGT
Found at i:52216732 original size:25 final size:25
Alignment explanation
Indices: 52216704--52216751 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
52216694 ATAATTAAAC
* * *
52216704 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
52216729 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
52216752 CATAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:52223033 original size:13 final size:13
Alignment explanation
Indices: 52223017--52223051 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
52223007 CTAGACACAC
52223017 GCCCGTGTGTCCT
1 GCCCGTGTGTCCT
52223030 GCCCGTGTGTCCT
1 GCCCGTGTGTCCT
52223043 GCCCGTGTG
1 GCCCGTGTG
52223052 GAAAAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.37, G:0.34, T:0.29
Consensus pattern (13 bp):
GCCCGTGTGTCCT
Found at i:52223719 original size:62 final size:62
Alignment explanation
Indices: 52223622--52223750 Score: 249
Period size: 62 Copynumber: 2.1 Consensus size: 62
52223612 CACATCATTA
*
52223622 TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGGTTCTCTGATGGATATCTCAT
1 TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGGTTCTCTAATGGATATCTCAT
52223684 TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGGTTCTCTAATGGATATCTCAT
1 TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGGTTCTCTAATGGATATCTCAT
52223746 TTCCC
1 TTCCC
52223751 GTCAATTCAT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (62 bp):
TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGGTTCTCTAATGGATATCTCAT
Found at i:52223721 original size:35 final size:35
Alignment explanation
Indices: 52223622--52223721 Score: 83
Period size: 35 Copynumber: 3.1 Consensus size: 35
52223612 CACATCATTA
52223622 TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
1 TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
* ** * *
52223657 TTCTC-GGTT-C-TCTGATG-GA-T---ATCT-CAT
1 TTCCCAATTTACATCTGATGTTAGTCCCAT-TGAAT
52223684 TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
1 TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
52223719 TTC
1 TTC
52223722 TCGGTTCTCT
Statistics
Matches: 45, Mismatches: 10, Indels: 20
0.60 0.13 0.27
Matches are distributed among these distances:
27 8 0.18
28 3 0.07
29 1 0.02
30 8 0.18
31 2 0.04
32 8 0.18
33 1 0.02
34 3 0.07
35 11 0.24
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (35 bp):
TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
Found at i:52229257 original size:48 final size:48
Alignment explanation
Indices: 52229195--52229765 Score: 971
Period size: 48 Copynumber: 11.9 Consensus size: 48
52229185 TATATATGTG
* *
52229195 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
52229243 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
52229291 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
52229339 TGTGGTAACGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
52229387 TGTGGTAAAGCCGAATGGCTAATATGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
52229435 TGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
52229483 TGTGGTAAAGCCGAATGGATAATGTGAAATATGAATGAGATATGTATATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TATA
*
52229533 TATGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
52229581 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
52229629 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
52229677 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
52229725 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
52229766 GTGTGTATAT
Statistics
Matches: 490, Mismatches: 31, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
48 446 0.91
50 44 0.09
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:52229956 original size:37 final size:37
Alignment explanation
Indices: 52229906--52230040 Score: 252
Period size: 37 Copynumber: 3.6 Consensus size: 37
52229896 GGAAATATAT
52229906 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
52229943 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52229980 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52230017 TCCGGGTAAGACCCGATAACTACG
1 TCCGGGTAAGACCCGATGACTACG
52230041 CGCGGGGACT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52240354 original size:20 final size:22
Alignment explanation
Indices: 52240299--52240348 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
52240289 TGGAGGCAAT
52240299 GCACACGCTCGTGTGCATATGG
1 GCACACGCTCGTGTGCATATGG
52240321 GCACACGCTCGTGTGCAT-TGG
1 GCACACGCTCGTGTGCATATGG
52240342 GACACAC
1 G-CACAC
52240349 CCGTGTCCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (22 bp):
GCACACGCTCGTGTGCATATGG
Found at i:52246458 original size:24 final size:24
Alignment explanation
Indices: 52246429--52246510 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
52246419 GGCTATATAA
*
52246429 CGGGAAGCTCA-TAAGAGCCATAAT
1 CGGGAAGCTCACAAAGAGCCAT-AT
* *
52246453 CGGGAAGTTCACAAAGAACCATAT
1 CGGGAAGCTCACAAAGAGCCATAT
*
52246477 CGGGAAACTCACAAAGAGCC-TAT
1 CGGGAAGCTCACAAAGAGCCATAT
* *
52246500 TGGAAAGCTCA
1 CGGGAAGCTCA
52246511 ATAAGAGTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 11 0.23
24 29 0.60
25 8 0.17
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:52249173 original size:412 final size:409
Alignment explanation
Indices: 52248381--52249207 Score: 1530
Period size: 412 Copynumber: 2.0 Consensus size: 409
52248371 TCTAAAAGAA
* *
52248381 ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATAGGCCTAAATTTCAAACT
1 ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATACGCCTAAATTTCAAACC
52248446 CGCCAAACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
66 CGCCAAACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
*
52248511 ATTTTATCTATGGTATTCATACATCTTCCTTATTGAAAATTCAATTACTATTAGTAATCAAGTCA
131 ATTTTATCTATAGTATTCATACATCTTCCTTATTGAAAATTCAATTACTATTAGTAATCAAGTCA
52248576 TCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATCTGTAATGCCAATGAGA
196 TCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATCTGTAATGCCAATGAGA
* * *
52248641 GGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATTTTACATATTGTAG
261 GGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATGTTACATATTATAA
52248706 AAGTCGTATATCCAATGCACCAACTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCTACA
326 AAGTCGTATATCCAATGCACCAACTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCTACA
52248771 CCAAACTATACGAGTCATG
391 CCAAACTATACGAGTCATG
52248790 ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATACGCCTAAATTTCAAACC
1 ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATACGCCTAAATTTCAAACC
*
52248855 CGCCAGACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
66 CGCCAAACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
*
52248920 ATTTTATCTCATAGTATTCATTACATCTTCCTTCTTGAAAATTCAATTACTATTAGTAATCAAGT
131 ATTTTATCT-ATAGTATTCA-TACATCTTCCTTATTGAAAATTCAATTACTATTAGTAATCAAGT
52248985 CATCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATCATGTAATGCCAATG
194 CATCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATC-TGTAATGCCAATG
52249050 AGAGGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATGTTACATATTA
258 AGAGGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATGTTACATATTA
*
52249115 TAAAAGTCGTATATCCAATGCACCAGCTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCT
323 TAAAAGTCGTATATCCAATGCACCAACTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCT
*
52249180 ACATCAAACTATACGAGTCATG
388 ACACCAAACTATACGAGTCATG
52249202 -CATACA
1 ACATACA
52249208 TAGTTCACCA
Statistics
Matches: 405, Mismatches: 10, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
409 136 0.34
410 9 0.02
411 100 0.25
412 160 0.40
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (409 bp):
ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATACGCCTAAATTTCAAACC
CGCCAAACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
ATTTTATCTATAGTATTCATACATCTTCCTTATTGAAAATTCAATTACTATTAGTAATCAAGTCA
TCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATCTGTAATGCCAATGAGA
GGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATGTTACATATTATAA
AAGTCGTATATCCAATGCACCAACTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCTACA
CCAAACTATACGAGTCATG
Found at i:52260533 original size:21 final size:21
Alignment explanation
Indices: 52260500--52260539 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
52260490 TAAATAATGA
*
52260500 TTTAAAAACATAGATATTATC
1 TTTAAAAACATAGAAATTATC
* *
52260521 TTTAAAGATATAGAAATTA
1 TTTAAAAACATAGAAATTA
52260540 AATAAAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTAAAAACATAGAAATTATC
Found at i:52268413 original size:45 final size:45
Alignment explanation
Indices: 52268310--52268483 Score: 161
Period size: 45 Copynumber: 3.9 Consensus size: 45
52268300 ATGCCTAAAG
* ** *
52268310 ATGAGTAATACCATAGCTAAAAGATGCTATGACATCACCA-AACTG
1 ATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATAAC-A
* * * * *
52268355 ATGTGTAAGACCATAGTTGAAAGATGTTATGGCATCATGATAACA
1 ATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATAACA
* * * ** * *
52268400 ATGAGTAAAACCATGGCTGAAAGATGCTATGGTATCATGGTAATA
1 ATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATAACA
* * *
52268445 AGGAGTAAGACCATAGCTAAAAGACGTTATGACATCATG
1 ATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATG
52268484 TGAAAGCACA
Statistics
Matches: 103, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
45 100 0.97
46 3 0.03
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATAACA
Found at i:52273235 original size:20 final size:20
Alignment explanation
Indices: 52273210--52273263 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
52273200 TTTAAGAGAC
52273210 ACACACCCGTGTGGCTTGGA
1 ACACACCCGTGTGGCTTGGA
52273230 ACACACCCGTGTGGCTTGGA
1 ACACACCCGTGTGGCTTGGA
* *
52273250 ACACGCCCGCGTGG
1 ACACACCCGTGTGG
52273264 GAAGGCCGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (20 bp):
ACACACCCGTGTGGCTTGGA
Found at i:52275707 original size:19 final size:19
Alignment explanation
Indices: 52275680--52275719 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
52275670 TGAAAATGTG
*
52275680 TAAGTTATGCCTATAAATT
1 TAAGCTATGCCTATAAATT
*
52275699 TAAGCTATGCCTATGAATT
1 TAAGCTATGCCTATAAATT
52275718 TA
1 TA
52275720 TGATGACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (19 bp):
TAAGCTATGCCTATAAATT
Found at i:52283185 original size:42 final size:42
Alignment explanation
Indices: 52283138--52283220 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
52283128 GGCTTATACA
*
52283138 AAATCTCAT-ATCGATGCCATATCACAGATATGATCTTACACG
1 AAATCTCATAAT-GATGCCATATCACAAATATGATCTTACACG
* *
52283180 AAATCTCATAATGATGCCATATCCCAAATATGGTCTTACAC
1 AAATCTCATAATGATGCCATATCACAAATATGATCTTACAC
52283221 ATAGTCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (42 bp):
AAATCTCATAATGATGCCATATCACAAATATGATCTTACACG
Found at i:52299463 original size:40 final size:40
Alignment explanation
Indices: 52299380--52299642 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
52299370 TCCTCGTTCA
* * * *
52299380 AATGCCTTCGGGACATAGCCC-GATTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGA-TTTAATAACTCGCACG
* *
52299419 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52299459 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52299499 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52299539 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
52299579 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
52299619 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52299643 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 35 0.17
40 157 0.79
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52299651 original size:41 final size:41
Alignment explanation
Indices: 52299574--52299651 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
52299564 TTAGTATCTC
* * *
52299574 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
52299615 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
52299652 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:52307087 original size:46 final size:46
Alignment explanation
Indices: 52307031--52307254 Score: 227
Period size: 46 Copynumber: 4.8 Consensus size: 46
52307021 AATATTTGGG
* * *
52307031 CATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* **
52307077 CATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * * * * * *
52307123 CGTCCGAACCCATTGAGTTGAGTCCAAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-A
*
52307170 CATCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
52307216 CGTCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
52307255 GCGGGTTACA
Statistics
Matches: 146, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
45 1 0.01
46 111 0.76
47 33 0.23
48 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:52307201 original size:93 final size:93
Alignment explanation
Indices: 52307077--52307247 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
52307067 TGGATGCGAA
* **
52307077 CATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACGTCCGAACCCATTGAGTT
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACCCATTGAGTT
52307142 GAGTCCAAGTTCGTGAAATGTAACTAGG
66 GAGTCCAAGTTCGTGAAATGTAACTAGG
* * * *
52307170 CATCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAGCTCATTGAGTT
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACCCATTGAGTT
*
52307235 GAGTCCGAGTTCG
66 GAGTCCAAGTTCG
52307248 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACCCATTGAGTT
GAGTCCAAGTTCGTGAAATGTAACTAGG
Found at i:52322499 original size:40 final size:40
Alignment explanation
Indices: 52322416--52322601 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
52322406 TTGAATGATG
* * *
52322416 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
*
52322456 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
* * *
52322496 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* *
52322536 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
* * *
52322577 -CTGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52322602 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:52322608 original size:80 final size:79
Alignment explanation
Indices: 52322469--52322634 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 79
52322459 GGACTAAGAT
* **
52322469 CCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGTCCCGAAGGTATTTGAACGAG-TAGCT
*
52322533 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* * *
52322549 CCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAAGGTATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCAAGTTACTA-AATCCGGGCTAAGTCCCGAAGGTATTTGAACGAGTAGCT
* *
52322613 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
52322628 CCGAAGG
1 CCGAAGG
52322635 TACGTGATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 16 0.21
80 57 0.76
81 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGTCCCGAAGGTATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:52330622 original size:40 final size:40
Alignment explanation
Indices: 52330473--52330615 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
52330463 AATGATGTCT
* * * *
52330473 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
*
52330513 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
52330553 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
52330593 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
52330616 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 78 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:52335487 original size:22 final size:22
Alignment explanation
Indices: 52335459--52335501 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
52335449 ATTGCACTTA
52335459 AATTATTAATATACTAAATTTT
1 AATTATTAATATACTAAATTTT
**
52335481 AATTATTTTTATACTAAATTT
1 AATTATTAATATACTAAATTT
52335502 ACACAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTATTAATATACTAAATTTT
Found at i:52339365 original size:26 final size:26
Alignment explanation
Indices: 52339336--52339459 Score: 97
Period size: 27 Copynumber: 4.7 Consensus size: 26
52339326 TTAGTTTACC
*
52339336 AAATTACTGAAATACCCCCAATTGTA
1 AAATTACCGAAATACCCCCAATTGTA
** *
52339362 AAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCCC-AATTGTA
* * *
52339389 AAATTACCCAAATATCCTCAATTTGTA
1 AAATTACCGAAATACCCCCAA-TTGTA
***
52339416 AAATTACCGAAATACCCTCTGTTTGTA
1 AAATTACCGAAATACCC-CCAATTGTA
* *
52339443 AAATTACTGAGATACCC
1 AAATTACCGAAATACCC
52339460 TCGACATGTA
Statistics
Matches: 76, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
25 3 0.04
26 14 0.18
27 56 0.74
28 3 0.04
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (26 bp):
AAATTACCGAAATACCCCCAATTGTA
Found at i:52339457 original size:27 final size:27
Alignment explanation
Indices: 52339357--52339461 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
52339347 ATACCCCCAA
* *
52339357 TTGTAAAATTACC-AAAGTACCCCCGGT
1 TTGTAAAATTACCGAAA-TACCCTCTGT
* * * **
52339384 TTATAAAATTACCCAAATATCCTCAAT
1 TTGTAAAATTACCGAAATACCCTCTGT
52339411 TTGTAAAATTACCGAAATACCCTCTGT
1 TTGTAAAATTACCGAAATACCCTCTGT
* *
52339438 TTGTAAAATTACTGAGATACCCTC
1 TTGTAAAATTACCGAAATACCCTC
52339462 GACATGTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTCTGT
Found at i:52339469 original size:27 final size:27
Alignment explanation
Indices: 52339412--52339475 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
52339402 ATCCTCAATT
**
52339412 TGTAAAATTACCGAAATACCCTCTGTT
1 TGTAAAATTACCGAAATACCCTCTGCA
* *
52339439 TGTAAAATTACTGAGATACCCTC-GACA
1 TGTAAAATTACCGAAATACCCTCTG-CA
52339466 TGTAAAATTA
1 TGTAAAATTA
52339476 TTAAAGTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTCTGCA
Found at i:52339470 original size:54 final size:53
Alignment explanation
Indices: 52339336--52339484 Score: 147
Period size: 54 Copynumber: 2.8 Consensus size: 53
52339326 TTAGTTTACC
* *
52339336 AAATTACTGAAATACCCCCAATTGTAAAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACTGAAATACCCTCAAATGTAAAATTACCAAAGTACCCCCGGTTTATA
** * * * * *
52339389 AAATTACCCAAATATCCTCAATTTGTAAAATTACCGAAA-TACCCTCTGTTTGTA
1 AAATTACTGAAATACCCTCAA-ATGTAAAATTACC-AAAGTACCCCCGGTTTATA
* * **
52339443 AAATTACTGAGATACCCTCGACATGTAAAATTATTAAAGTAC
1 AAATTACTGAAATACCCTC-AAATGTAAAATTACCAAAGTAC
52339485 TCTCGAATTA
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
53 20 0.26
54 53 0.69
55 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCAAATGTAAAATTACCAAAGTACCCCCGGTTTATA
Found at i:52339531 original size:27 final size:27
Alignment explanation
Indices: 52339486--52339839 Score: 431
Period size: 27 Copynumber: 13.0 Consensus size: 27
52339476 TTAAAGTACT
*
52339486 CTCGAATTACAAAAATTACTATTTTACC
1 CTCGATTTAC-AAAATTACTATTTTACC
*
52339514 CTTGATTTACAAAATTACTATTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
* **
52339541 CTCGATTTATAAAATTACCGTTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
*
52339568 CTCGATTTACAAAATTACCATTTTGACC
1 CTCGATTTACAAAATTACTATTTT-ACC
* * *
52339596 CTCGATTTATAGAAA-TATTGTTTTACC
1 CTCGATTTACA-AAATTACTATTTTACC
* * **
52339623 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
52339650 CTCGATTTACAAAATTACTATTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
* * *
52339677 CTCGATTGACAGAATTATTATTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
* * *
52339704 CTCGATTGACAGAATTACTGTTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
**
52339731 CTTAATTTACAAAATTACTATTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
*
52339758 CTCGATTTACAAAATTACTGTTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
* * *
52339785 CTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
* *
52339812 CTCGATTTATAAAATTACCATTTTACC
1 CTCGATTTACAAAATTACTATTTTACC
52339839 C
1 C
52339840 CTAGGGTGTT
Statistics
Matches: 286, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 254 0.89
28 27 0.09
29 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.40
Consensus pattern (27 bp):
CTCGATTTACAAAATTACTATTTTACC
Found at i:52339728 original size:81 final size:81
Alignment explanation
Indices: 52339486--52339839 Score: 503
Period size: 81 Copynumber: 4.3 Consensus size: 81
52339476 TTAAAGTACT
* *
52339486 CTCGAATTACAAAAATTACTATTTTACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTAT
1 CTCGATTTAC-AAAATTACTATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTAT
*
52339551 AAAATTACCGTTTTACC
65 AGAATTACCGTTTTACC
* * * *
52339568 CTCGATTTACAAAATTACCATTTTGACCCTCGATTTATAGAAA-TATTGTTTTACCCTCGATTTA
1 CTCGATTTACAAAATTACTATTTT-ACCCTCGATTTACA-AAATTACTATTTTACCCTCGATTTA
52339632 TAGAATTACCGTTTTACC
64 TAGAATTACCGTTTTACC
* * * * *
52339650 CTCGATTTACAAAATTACTATTTTACCCTCGATTGACAGAATTATTATTTTACCCTCGATTGACA
1 CTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATA
*
52339715 GAATTACTGTTTTACC
66 GAATTACCGTTTTACC
** *
52339731 CTTAATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATA
1 CTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATA
*
52339796 GAATTACCATTTTACC
66 GAATTACCGTTTTACC
* *
52339812 CTCGATTTATAAAATTACCATTTTACCC
1 CTCGATTTACAAAATTACTATTTTACCC
52339840 CTAGGGTGTT
Statistics
Matches: 240, Mismatches: 29, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
80 2 0.01
81 155 0.65
82 80 0.33
83 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.40
Consensus pattern (81 bp):
CTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATA
GAATTACCGTTTTACC
Found at i:52340379 original size:31 final size:31
Alignment explanation
Indices: 52340344--52340422 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
52340334 TTGCATTCAC
* * * *
52340344 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTCATACTG
* *
52340375 ATTCTTATTCTGATTCTGTCACCTCATTCTG
1 ATTCTGATTCTGATTCTGTCACCTCATACTG
52340406 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
52340423 AGTTCTGATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.51
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTCATACTG
Found at i:52340384 original size:6 final size:6
Alignment explanation
Indices: 52340366--52340431 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
52340356 ATTTTGTTAC
* * * *
52340366 CTGATA CTGATT CTTATT CTGATT CTG-TCAC CTCATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
52340415 CTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGAT
52340432 AATGTTTCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 2 0.04
6 42 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:52340389 original size:12 final size:12
Alignment explanation
Indices: 52340344--52340431 Score: 56
Period size: 12 Copynumber: 7.2 Consensus size: 12
52340334 TTGCATTCAC
*
52340344 ATTCTGATTTTG
1 ATTCTGATTCTG
*
52340356 ATTTTG-TTACCTG
1 ATTCTGATT--CTG
* *
52340369 ATACTGATTCTT
1 ATTCTGATTCTG
52340381 ATTCTGATTCTG
1 ATTCTGATTCTG
* *
52340393 -TCACCTCATTCTG
1 AT--TCTGATTCTG
52340406 ATTCTGATTCTG
1 ATTCTGATTCTG
52340418 ATTCT-AGTTCTG
1 ATTCTGA-TTCTG
52340430 AT
1 AT
52340432 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
11 4 0.07
12 37 0.64
13 14 0.24
14 3 0.05
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (12 bp):
ATTCTGATTCTG
Found at i:52342137 original size:50 final size:50
Alignment explanation
Indices: 52342037--52342141 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
52342027 GTCACACACT
* *
52342037 CGTGTAGCTTGGGACACGCCCGTTGGGCAGGCCGTGTGGTCACATACGCC
1 CGTGTAGCTTGGGACAAGCCCGTTGGGCAGGCCGTGTGGTCACACACGCC
* * * *
52342087 CGTGTGGCTTGGGACAAGCCTGTTGGGCAGGCTGTGGTGGTCA-ACGCGCC
1 CGTGTAGCTTGGGACAAGCCCGTTGGGCAGGCCGT-GTGGTCACACACGCC
52342137 CGTGT
1 CGTGT
52342142 CCCTAACTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
50 41 0.85
51 7 0.15
ACGTcount: A:0.12, C:0.27, G:0.39, T:0.22
Consensus pattern (50 bp):
CGTGTAGCTTGGGACAAGCCCGTTGGGCAGGCCGTGTGGTCACACACGCC
Found at i:52343337 original size:43 final size:44
Alignment explanation
Indices: 52343220--52343337 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 44
52343210 TACCAATGCT
* * * *
52343220 ATATCCTAGATATGGTCTTACATGT-GATCTCGTATCGATGCGA
1 ATATCCCAGATATGGTCTTACACGTAAATCTCATATCGATGCGA
* * * * * * *
52343263 ATAGCCCAGCTATGGCCTTAAACG-AAGTCTCATATCGATTC-C
1 ATATCCCAGATATGGTCTTACACGTAAATCTCATATCGATGCGA
52343305 ATATCCCAGATATGGTCTTACACGTAAATCTCA
1 ATATCCCAGATATGGTCTTACACGTAAATCTCA
52343338 GTAACCCTAA
Statistics
Matches: 57, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
42 20 0.35
43 37 0.65
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
ATATCCCAGATATGGTCTTACACGTAAATCTCATATCGATGCGA
Found at i:52345225 original size:20 final size:20
Alignment explanation
Indices: 52345196--52345240 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
52345186 AGCACATGTA
* *
52345196 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
52345216 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
52345236 TTCAT
1 TTCAT
52345241 TTTAATCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:52347056 original size:45 final size:45
Alignment explanation
Indices: 52346748--52347064 Score: 424
Period size: 45 Copynumber: 7.1 Consensus size: 45
52346738 TTTTCTCAAA
* * * *
52346748 TCACTGGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
** * ** *
52346790 TCACTAGCATTATAGCCTGTTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * * *
52346835 TCACTGGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * * *
52346880 TCACCGACATTATAGCCTGCTAAGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
52346925 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
52346970 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
52347015 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
52347060 TCACC
1 TCACC
52347065 AGTTCTTTCC
Statistics
Matches: 247, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
42 10 0.04
43 13 0.05
44 7 0.03
45 217 0.88
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
Found at i:52354181 original size:48 final size:48
Alignment explanation
Indices: 52354107--52354448 Score: 549
Period size: 48 Copynumber: 7.0 Consensus size: 48
52354097 CAAGATAAAT
* * * *
52354107 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
52354155 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52354203 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
52354253 ATATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52354301 ATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
52354351 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52354399 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
52354447 AT
1 AT
52354449 GTGTGTATAT
Statistics
Matches: 276, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
48 181 0.66
49 8 0.03
50 87 0.32
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:52354268 original size:98 final size:98
Alignment explanation
Indices: 52354107--52354439 Score: 571
Period size: 98 Copynumber: 3.4 Consensus size: 98
52354097 CAAGATAAAT
* * * * *
52354107 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTG-AA-ATATGTATGAGATATGTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGT
52354170 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
66 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
52354203 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGT
*
52354268 AAAGCCGAATGGATAATGTGAAATATGTATGAG
66 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52354301 ATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGT
*
52354366 AAAGCCGAATGGCTAGTGTGAAATATGTATGAG
66 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52354399 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
52354440 GTAGGAGATG
Statistics
Matches: 224, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
96 31 0.14
97 2 0.01
98 191 0.85
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (98 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:52354397 original size:146 final size:146
Alignment explanation
Indices: 52354107--52354448 Score: 562
Period size: 146 Copynumber: 2.3 Consensus size: 146
52354097 CAAGATAAAT
* * * *
52354107 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATATGTGGTAA
*
52354172 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
52354237 GAAATATATATATGAG
131 GAAATATATATATGAG
* *
52354253 ATATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGAGATACGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATATGTGGTAA
*
52354318 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGT
66 AGCCGAATGGCTAATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
52354383 GTG-AA-ATATGTATGAG
129 GTGAAATATATATATGAG
*
52354399 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
52354449 GTGTGTATAT
Statistics
Matches: 182, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
146 134 0.74
147 4 0.02
148 44 0.24
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (146 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
GAAATATATATATGAG
Found at i:52354690 original size:37 final size:37
Alignment explanation
Indices: 52354589--52354691 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
52354579 GGAAATATAT
*
52354589 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52354626 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52354663 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
52354692 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52356794 original size:45 final size:45
Alignment explanation
Indices: 52356572--52356798 Score: 309
Period size: 45 Copynumber: 5.1 Consensus size: 45
52356562 TTTTCTCAAA
* * *
52356572 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * **
52356614 TCACCGGCATTATAGCCTGTTAGTCTCAAAGGCCCGAATAGTATCT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACAT-T
* * *
52356660 T-ACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
52356704 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
52356749 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
52356794 TCACC
1 TCACC
52356799 AGTTCTTTCC
Statistics
Matches: 164, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
42 11 0.07
43 12 0.07
44 8 0.05
45 131 0.80
46 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
Found at i:52361112 original size:85 final size:85
Alignment explanation
Indices: 52360969--52361147 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
52360959 GGCCGGCCAT
52360969 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATATCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATATCATAAACATGTTGGGGTAGTGCATTAT
52361034 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
52361054 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATATCATAAACATGTTGGGGTAGTGCATTAT
52361119 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
52361139 GGGCATGGG
1 GAGCATGGG
52361148 AAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATATCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:52363383 original size:49 final size:49
Alignment explanation
Indices: 52363330--52363607 Score: 451
Period size: 49 Copynumber: 5.8 Consensus size: 49
52363320 ATTTAGGATT
52363330 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
52363379 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
52363428 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
52363477 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
* * * *
52363524 CGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
* * *
52363571 CAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
52363608 TCCCGAAGGG
Statistics
Matches: 218, Mismatches: 9, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
47 95 0.44
48 1 0.00
49 122 0.56
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
Found at i:52363782 original size:37 final size:37
Alignment explanation
Indices: 52363726--52363804 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52363716 CCGAGCTCTA
* * *
52363726 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
52363763 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52363800 AAGAC
1 AAGAC
52363805 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52367501 original size:17 final size:16
Alignment explanation
Indices: 52367470--52367504 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
52367460 GGAGAAATTG
*
52367470 AATGATGATTGTATGA
1 AATGATGAATGTATGA
52367486 AATGATTGAATGTATGA
1 AATGA-TGAATGTATGA
52367503 AA
1 AA
52367505 AAAGTACGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (16 bp):
AATGATGAATGTATGA
Found at i:52368014 original size:18 final size:17
Alignment explanation
Indices: 52367975--52368041 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 17
52367965 CAAATTGACA
*
52367975 AACCCTTATATGCATGCT
1 AACCCTTATATGTATG-T
52367993 AACCCTTATATGTATGT
1 AACCCTTATATGTATGT
* * *
52368010 GAACCTTTATGTATATGT
1 -AACCCTTATATGTATGT
52368028 AAACCCTTATATGT
1 -AACCCTTATATGT
52368042 TTTGGAGATA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 1 0.03
18 39 0.98
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (17 bp):
AACCCTTATATGTATGT
Found at i:52369060 original size:31 final size:31
Alignment explanation
Indices: 52369019--52369081 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
52369009 TACCAGAGTT
*
52369019 TACAGAATAATTTCATGCAATTTCCTATTCA
1 TACAGAATAATTTCATGCAATTTACTATTCA
* *
52369050 TACATAATAATTTCATGTAATTTACTATTCA
1 TACAGAATAATTTCATGCAATTTACTATTCA
52369081 T
1 T
52369082 GTCTAGAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.43
Consensus pattern (31 bp):
TACAGAATAATTTCATGCAATTTACTATTCA
Found at i:52372512 original size:25 final size:25
Alignment explanation
Indices: 52372484--52372559 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 25
52372474 CTCATTGTAT
52372484 AATAGTATATTCTAATAATGATATC
1 AATAGTATATTCTAATAATGATATC
* *
52372509 AATA-T-GATTC-AACTCATTG-TAT-
1 AATAGTATATTCTAA-T-AATGATATC
52372531 AATAGTATATTCTAATAATGATATC
1 AATAGTATATTCTAATAATGATATC
52372556 AATA
1 AATA
52372560 TGATTCAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
22 6 0.15
23 12 0.30
24 12 0.30
25 10 0.25
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.39
Consensus pattern (25 bp):
AATAGTATATTCTAATAATGATATC
Found at i:52372523 original size:47 final size:47
Alignment explanation
Indices: 52372454--52372573 Score: 240
Period size: 47 Copynumber: 2.6 Consensus size: 47
52372444 CTTTCAAACT
52372454 ATGATATCAATATGATTCAACTCATTGTATAATAGTATATTCTAATA
1 ATGATATCAATATGATTCAACTCATTGTATAATAGTATATTCTAATA
52372501 ATGATATCAATATGATTCAACTCATTGTATAATAGTATATTCTAATA
1 ATGATATCAATATGATTCAACTCATTGTATAATAGTATATTCTAATA
52372548 ATGATATCAATATGATTCAACTCATT
1 ATGATATCAATATGATTCAACTCATT
52372574 ATGGATTGAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (47 bp):
ATGATATCAATATGATTCAACTCATTGTATAATAGTATATTCTAATA
Found at i:52381349 original size:27 final size:27
Alignment explanation
Indices: 52381309--52381373 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
52381299 TTATCTGATA
*
52381309 GTAATACCCCTGTAGGGTAAAATGACC
1 GTAATACCCCTGTAGGATAAAATGACC
*
52381336 GTAATACCCTTGTAGGATAAAATGACC
1 GTAATACCCCTGTAGGATAAAATGACC
52381363 GTAATACCCCT
1 GTAATACCCCT
52381374 ATATGGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (27 bp):
GTAATACCCCTGTAGGATAAAATGACC
Found at i:52381383 original size:27 final size:26
Alignment explanation
Indices: 52381309--52381384 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 26
52381299 TTATCTGATA
52381309 GTAATACCCCTGTAGGGTAAAATGACC
1 GTAATACCCCTGTA-GGTAAAATGACC
*
52381336 GTAATACCCTTGTAGGATAAAATGACC
1 GTAATACCCCTGTAGG-TAAAATGACC
*
52381363 GTAATACCCCTATATGGTAAAA
1 GTAATACCCCTGTA-GGTAAAA
52381385 AGACTATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (26 bp):
GTAATACCCCTGTAGGTAAAATGACC
Found at i:52387341 original size:10 final size:10
Alignment explanation
Indices: 52387326--52387350 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52387316 GTATGGTCAA
52387326 ATAAATTTTC
1 ATAAATTTTC
52387336 ATAAATTTTC
1 ATAAATTTTC
52387346 ATAAA
1 ATAAA
52387351 ATAGGTGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAAATTTTC
Found at i:52388462 original size:24 final size:24
Alignment explanation
Indices: 52388430--52388581 Score: 198
Period size: 24 Copynumber: 6.0 Consensus size: 24
52388420 TGGCATTGTG
**
52388430 CTAAGTGAAATAAGAACATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
52388454 CTAAGTGAAATAA-TACCATGGCAATGT
1 CTAAGTGAAATAAGT-CCATGGC-A--T
52388481 GCTAAGTGAAATAAGTCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
52388506 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
52388533 GCTAAGTGAAATAAGTCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
52388558 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
52388582 GGTGCTAAGT
Statistics
Matches: 116, Mismatches: 2, Indels: 20
0.84 0.01 0.14
Matches are distributed among these distances:
24 65 0.56
25 4 0.03
27 4 0.03
28 42 0.36
29 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:52388489 original size:52 final size:52
Alignment explanation
Indices: 52388419--52388593 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
52388409 TATCTAGGAT
* **
52388419 ATGGCATTGTGCTAAGTGAAATAAGAACATGGCATCTAAGTGAAATAA-TACC
1 ATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGT-CC
52388471 ATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCC
52388523 ATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCC
52388575 ATGGC-ATGGTGCTAAGTGA
1 ATGGCAAT-GTGCTAAGTGA
52388594 GAAATTTCCC
Statistics
Matches: 118, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
51 2 0.02
52 115 0.97
53 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCC
Found at i:52388518 original size:76 final size:75
Alignment explanation
Indices: 52388430--52388581 Score: 204
Period size: 76 Copynumber: 2.0 Consensus size: 75
52388420 TGGCATTGTG
52388430 CTAAGTGAAATAAGAACATGGC-A-T-CTAAGTGAAATAA-TACCATGGCAATGTGCTAAGTGAA
1 CTAAGTGAAATAAGAACATGGCAAGTGCTAAGTGAAATAAGT-CCATGGC-A--T-CTAAGTGAA
52388491 ATAAGTCCATGGCAT
61 ATAAGTCCATGGCAT
**
52388506 CTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAA
1 CTAAGTGAAATAAGAACATGGCAA-GTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAA
52388571 GTCCATGGCAT
65 GTCCATGGCAT
52388582 GGTGCTAAGT
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
76 44 0.64
77 2 0.03
79 2 0.03
80 20 0.29
81 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (75 bp):
CTAAGTGAAATAAGAACATGGCAAGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAG
TCCATGGCAT
Found at i:52388682 original size:51 final size:51
Alignment explanation
Indices: 52388617--52388815 Score: 319
Period size: 51 Copynumber: 3.9 Consensus size: 51
52388607 TGAACCTTAG
* * *
52388617 GAATAAAATAGCTTTGGACATAAGTGTGGTACTATGTGAAGGCCAGTTGGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
52388668 GCATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
52388719 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
52388770 GAAAAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
52388816 CGTGTATCCA
Statistics
Matches: 138, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 1 0.01
51 137 0.99
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:52392566 original size:27 final size:26
Alignment explanation
Indices: 52392525--52392636 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
52392515 AGGAAGCGTC
52392525 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
*
52392552 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
52392579 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
52392607 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
52392633 CTGG
1 CTGG
52392637 CCGCCATGCT
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.11
27 51 0.67
28 17 0.22
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:52392629 original size:54 final size:54
Alignment explanation
Indices: 52392525--52392636 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
52392515 AGGAAGCGTC
*
52392525 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* *
52392579 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
52392633 CTGG
1 CTGG
52392637 CCGCCATGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 1 0.02
54 34 0.64
55 18 0.34
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:52400216 original size:28 final size:26
Alignment explanation
Indices: 52400185--52400248 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
52400175 AATTACTTGA
* **
52400185 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
52400213 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
52400239 ATACCCCTAG
1 ATACCCCTAG
52400249 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:52400394 original size:27 final size:27
Alignment explanation
Indices: 52400353--52400456 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
52400343 AGGAAGCGTC
52400353 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCACAATTATCTGAT
* *
52400380 CTGGTGGCTCTGCCACAAATATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
52400407 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
52400435 GTGGTGGCTCTGTCAC-ATTATC
1 CTGGTGGCTCTGCCACAATTATC
52400457 AGTTCTGGCA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 52 0.76
28 15 0.22
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:52400462 original size:54 final size:54
Alignment explanation
Indices: 52400353--52400464 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
52400343 AGGAAGCGTC
*
52400353 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACAAATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACAAATATCAGTT
* * * *
52400407 CTGGTGGCT-CTGCCACGATTATCTGTATGTGGTGGCTCTGTCAC-ATTATCAGTT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGGCTCTGCCACAAATATCAGTT
52400461 CTGG
1 CTGG
52400465 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 34 0.67
55 16 0.31
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.34
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACAAATATCAGTT
Found at i:52404080 original size:28 final size:26
Alignment explanation
Indices: 52404049--52404107 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
52404039 AATTACTTGA
*
52404049 ATACCCCTATGTATGAAAAATTACTATT
1 ATACCCCTA-G-ATGAAAAATTACCATT
* *
52404077 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGAAAAATTACCATT
52404103 ATACC
1 ATACC
52404108 TTTAGGGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 18 0.64
27 1 0.04
28 9 0.32
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (26 bp):
ATACCCCTAGATGAAAAATTACCATT
Found at i:52404258 original size:27 final size:26
Alignment explanation
Indices: 52404217--52404328 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
52404207 AGGAAGCGTC
52404217 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
* *
52404244 CTGGTGGCTCTGCCACATATAACTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
52404271 CTGGTGGATCTGCCATGATTATCTGTAT
1 CTGGTGGCTCTGCCA-CATTATCTG-AT
* * *
52404299 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
52404325 CTGG
1 CTGG
52404329 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
26 8 0.11
27 47 0.67
28 15 0.21
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:52409357 original size:43 final size:43
Alignment explanation
Indices: 52409220--52409382 Score: 115
Period size: 43 Copynumber: 3.8 Consensus size: 43
52409210 TATGTGTTTT
* *
52409220 CATGTAAGACCACAT-T-TGGGACATTGGCATTGAATTATGATT-
1 CATGTAAGACCAC-TGTCTGGGACAGTGGCATTGTATT-TGATTA
* * * * * * *
52409262 TATGTCTAATATCA-TGTCTAGGACATTGGCATCGTATTTGATTT
1 CATG--TAAGACCACTGTCTGGGACAGTGGCATTGTATTTGATTA
**
52409306 TGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATATTTGATTA
1 CATGTAAGACCACTGTCTGGGACAGTGGCATTG-TATTTGATTA
*
52409349 CATGTAAGACCAC-ATCTGGGAC-GTTGGCATTGTA
1 CATGTAAGACCACTGTCTGGGACAG-TGGCATTGTA
52409383 CGAGCTTTTC
Statistics
Matches: 96, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 29 0.30
43 40 0.42
44 27 0.28
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.35
Consensus pattern (43 bp):
CATGTAAGACCACTGTCTGGGACAGTGGCATTGTATTTGATTA
Found at i:52412493 original size:34 final size:34
Alignment explanation
Indices: 52412421--52412499 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
52412411 GTACTGAAAT
* * *
52412421 GGGCTAAGGCCTACACTGATACTGTTACCATAAT
1 GGGCTAAGGCCCACACTGATACTGCTACCATAAC
* * * *
52412455 GGGCTGAGGCCCACACTGATATTGCTACTATTAC
1 GGGCTAAGGCCCACACTGATACTGCTACCATAAC
*
52412489 GGGCTTAGGCC
1 GGGCTAAGGCC
52412500 TAGATTGTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
GGGCTAAGGCCCACACTGATACTGCTACCATAAC
Found at i:52417158 original size:37 final size:37
Alignment explanation
Indices: 52417099--52417280 Score: 274
Period size: 37 Copynumber: 4.9 Consensus size: 37
52417089 AGCTCGGACG
* *
52417099 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGGCA
52417136 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGGCA
*
52417173 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGGCA
** **
52417210 AAATCTCCGTACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGGCA
* * *
52417247 TACTCTCCACACGTAGTCATCGGGTCTCACCCGG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGG
52417281 AATATATTTC
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 131 1.00
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGGCA
Found at i:52417495 original size:47 final size:47
Alignment explanation
Indices: 52417443--52417957 Score: 742
Period size: 47 Copynumber: 11.0 Consensus size: 47
52417433 TTTCACACTA
* * * * *
52417443 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
52417490 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
52417537 GCCATTCGGCCTTATCATATATATGCGTGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
52417584 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
52417631 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
52417678 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
52417725 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
52417772 GCCATTCAGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
52417819 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
52417866 ACCATTCAGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* ***
52417913 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
52417958 AAAATCCTAA
Statistics
Matches: 415, Mismatches: 53, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 415 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:52417545 original size:94 final size:94
Alignment explanation
Indices: 52417443--52417936 Score: 844
Period size: 94 Copynumber: 5.3 Consensus size: 94
52417433 TTTCACACTA
* *
52417443 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
52417508 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* * * * * *
52417537 GCCATTCGGCCTTATCATATATATGCGTGCTCACATTCATCACATTGGCCATTCGGCCTCATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
* * *
52417602 ATATATGCATGTTCACATTCATCACATAG
66 ACATATGCATGCTCACATTCATCACATTG
52417631 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
52417696 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* *
52417725 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCAGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
52417790 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* * *
52417819 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGACCATTCAGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
52417884 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
52417913 GCCATTCGGCCTTATCACATATAT
1 GCCATTCGGCCTTATCACATATAT
52417937 ACACATTCAC
Statistics
Matches: 377, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 377 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (94 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
ACATATGCATGCTCACATTCATCACATTG
Found at i:52417790 original size:22 final size:22
Alignment explanation
Indices: 52417765--52417838 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 22
52417755 TCATATTCAC
52417765 CACATTGGCCATTCAGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
*
52417787 CACACATAT-G-CATGCTCA-CATTCAT
1 --CACAT-TGGCCAT--TCAGCCTT-AT
*
52417812 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
52417834 CACAT
1 CACAT
52417839 ATATACATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
22 10 0.25
23 12 0.30
24 12 0.30
25 6 0.15
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (22 bp):
CACATTGGCCATTCAGCCTTAT
Found at i:52430926 original size:39 final size:40
Alignment explanation
Indices: 52430689--52431012 Score: 450
Period size: 39 Copynumber: 8.3 Consensus size: 40
52430679 CCAGCATGAT
* * * * * *
52430689 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
52430729 TGCTCTTCGG--GTTAG-CACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAA
52430767 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
52430807 TGCTCTTCGGGA-TTA-ACCTGGATATATCACTAGC-CGAA
1 TGCTCTTCGGAACTTAGTCC-GGATACATCACTAGCACGAA
*
52430845 TGCTCTT-GGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
52430884 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACG-A
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
52430923 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
52430963 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
52431002 TGCTCTTCGGA
1 TGCTCTTCGGA
52431013 TTTAGCCCGG
Statistics
Matches: 259, Mismatches: 14, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
37 4 0.02
38 63 0.24
39 106 0.41
40 85 0.33
41 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:52432504 original size:47 final size:46
Alignment explanation
Indices: 52432391--52432519 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 46
52432381 CCCTTCGGGA
* * * *
52432391 CTTATCACATTTATACAC-TTCACATCCATCACGTTGGCCACTCGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTCGC
* * * *
52432436 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACT-CGC
52432483 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
52432520 AATCCTAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 15 0.21
46 20 0.28
47 37 0.51
ACGTcount: A:0.28, C:0.33, G:0.08, T:0.32
Consensus pattern (46 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTCGC
Found at i:52436614 original size:26 final size:27
Alignment explanation
Indices: 52436509--52436619 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
52436499 AGCATGGCTG
* * *
52436509 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAATAGATAATTGTGGCAGAGCCA
* *
52436535 CCAGATATAGATAATCGTGGCAGAGCAA
1 CCAGA-ATAGATAATTGTGGCAGAGCCA
*
52436563 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAATAGATAAT-TGTGGCAGAGCCA
*
52436590 CCAG-ATAGATAATTGTGGCATAGCCA
1 CCAGAATAGATAATTGTGGCAGAGCCA
52436616 CCAG
1 CCAG
52436620 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 28 0.39
27 29 0.41
28 14 0.20
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAATAGATAATTGTGGCAGAGCCA
Found at i:52436619 original size:53 final size:53
Alignment explanation
Indices: 52436509--52436619 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 53
52436499 AGCATGGCTG
* *
52436509 CCAGAACAGATAATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCAA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGA-ATAGATAATCGTGGCAGAGCAA
* * * *
52436563 CCAGAACAGAAATATGTGGCAGAGCCACCAG-ATAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGAATAGATAATCGTGGCAGAGCAA
52436616 CCAG
1 CCAG
52436620 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 23 0.46
54 11 0.22
55 16 0.32
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (53 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGAATAGATAATCGTGGCAGAGCAA
Found at i:52440938 original size:39 final size:40
Alignment explanation
Indices: 52440895--52441062 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
52440885 CTCGTTCAAG
* * * *
52440895 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
52440934 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
52440974 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
52441014 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
52441054 TGCCTTCGG
1 TGCCTTCGG
52441063 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:52441046 original size:80 final size:80
Alignment explanation
Indices: 52440930--52441115 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
52440920 AGTAACTCAT
* * *
52440930 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
52440994 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
52441009 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
52441073 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
52441090 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
52441116 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Done.