Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 96 of 222
Found at i:30077983 original size:94 final size:94
Alignment explanation
Indices: 30077822--30078006 Score: 336
Period size: 94 Copynumber: 2.0 Consensus size: 94
30077812 CGGGCTCTAG
* *
30077822 CAAATTTAAATAACTATGAAATTTATAAGTTATAGTTTTTTTAAAAAAAATTTAAATGGAATAAT
1 CAAATTTAAATAACTATGAAATTTATAAGTTATAGTGTTTTTAAAAAAAATTTAAATAGAATAAT
30077887 ATATTTTACATTTATGCGATGACAACTAA
66 ATATTTTACATTTATGCGATGACAACTAA
30077916 CAAATTTAAATAACTATGAAATTTATAAGTTATAG-GTTTTTAAAAAAGAATTTAAATAGAATAA
1 CAAATTTAAATAACTATGAAATTTATAAGTTATAGTGTTTTTAAAAAA-AATTTAAATAGAATAA
30077980 TATATTTTACATTTATGCGATGACAAC
65 TATATTTTACATTTATGCGATGACAAC
30078007 GCAACTCAAA
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
93 11 0.12
94 77 0.88
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.38
Consensus pattern (94 bp):
CAAATTTAAATAACTATGAAATTTATAAGTTATAGTGTTTTTAAAAAAAATTTAAATAGAATAAT
ATATTTTACATTTATGCGATGACAACTAA
Found at i:30078043 original size:94 final size:92
Alignment explanation
Indices: 30077822--30078043 Score: 223
Period size: 94 Copynumber: 2.4 Consensus size: 92
30077812 CGGGCTCTAG
* *** * * *
30077822 CAAATTTAAATAACTATGAAATTTATAAGTTATAGTTTTTTTAAAAAAAATTTAAATGGAATAAT
1 CAAATTTAAAT-ACTATAAAAAGAATAAATTATAG-GTTTTTAAAAAAAATTTAAATAGAATAAT
*
30077887 ATATTTTACATTTATGCGATGACAACTAA
64 ATATTTTACATTTATGCGATGACAACCAA
* *** *
30077916 CAAATTTAAATAACTATGAAATTTATAAGTTATAGGTTTTTAAAAAAGAATTTAAATAGAATAAT
1 CAAATTTAAAT-ACTATAAAAAGAATAAATTATAGGTTTTTAAAAAA-AATTTAAATAGAATAAT
30077981 ATATTTTACATTTATGCGATGACAACGCAA
64 ATATTTTACATTTATGCGATGACAAC-CAA
** *
30078011 CTCAAATTT-GCT-TTATAAAAAGAATAAATTATA
1 --CAAATTTAAATACTATAAAAAGAATAAATTATA
30078044 TATATTTAAC
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
93 11 0.10
94 92 0.81
95 2 0.02
96 1 0.01
97 7 0.06
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (92 bp):
CAAATTTAAATACTATAAAAAGAATAAATTATAGGTTTTTAAAAAAAATTTAAATAGAATAATAT
ATTTTACATTTATGCGATGACAACCAA
Found at i:30086719 original size:51 final size:49
Alignment explanation
Indices: 30086654--30086920 Score: 198
Period size: 51 Copynumber: 5.3 Consensus size: 49
30086644 ACATGGACTG
*
30086654 TGTGTAGG-TCACTATGTGAAAGTGAAAGTGATGGTCACGTGTGTAGTACTA
1 TGTGTAGGCT-ACTATGTGAACG-GAAAGT-ATGGTCACGTGTGTAGTACTA
* * * * * *
30086705 TGTGTAGGCTACTATGTGTACCAGAATGAAAT-GTCGCATGTGTAGTACTA
1 TGTGTAGGCTACTATGTG-AACGGAAAG-TATGGTCACGTGTGTAGTACTA
* * * * *
30086755 TGTGCAGGCTACTATGCGTACCGGATAGCT-TCGATCACGTGTGTAGTACTA
1 TGTGTAGGCTACTATGTG-AACGGAAAG-TAT-GGTCACGTGTGTAGTACTA
* ** * *
30086806 TGTGTAGGCTACTACGTGTATTGGATATTAATGGTCACGTGTGTAGTACTA
1 TGTGTAGGCTACTATGTG-AACGGAAAGT-ATGGTCACGTGTGTAGTACTA
* * * * * *
30086857 TGTGCAGGCTACTACGTGAACCGAAAAGTTTGATCACGTGTGTAGTACAA
1 TGTGTAGGCTACTATGTGAA-CGGAAAGTATGGTCACGTGTGTAGTACTA
*
30086907 TGTGAAGGCTACTA
1 TGTGTAGGCTACTA
30086921 CGTGTATCAA
Statistics
Matches: 174, Mismatches: 34, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
49 1 0.01
50 72 0.41
51 98 0.56
52 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGGCTACTATGTGAACGGAAAGTATGGTCACGTGTGTAGTACTA
Found at i:30086803 original size:101 final size:101
Alignment explanation
Indices: 30086688--30086963 Score: 324
Period size: 101 Copynumber: 2.7 Consensus size: 101
30086678 AAAGTGATGG
* * *
30086688 TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTACCAGAATGAAAT-GTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGAAATGGTCACATGTGTAGTA
* * * *
30086752 CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 CTATGTGCAGGCTACTACGCGAACCGAAAAG-TTCGA
** * *
30086789 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATTGGATAT-TAATGGTCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGA-ATGAAATGGTCACATGTGTAGT
* *
30086853 ACTATGTGCAGGCTACTACGTGAACCGAAAAGTTTGA
65 ACTATGTGCAGGCTACTACGCGAACCGAAAAGTTCGA
* * * * * * *
30086890 TCACGTGTGTAGTACAATGTGAAGGCTACTACGTGTATCA-AATGATAATAGTTAAATGAGTGGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGA-AATGGTCACATGTGTAGT
30086954 ACTATGTGCA
65 ACTATGTGCA
30086964 AACCACCGAA
Statistics
Matches: 147, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
99 2 0.01
100 1 0.01
101 103 0.70
102 41 0.28
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGAAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTACGCGAACCGAAAAGTTCGA
Found at i:30093005 original size:138 final size:138
Alignment explanation
Indices: 30092656--30093212 Score: 805
Period size: 138 Copynumber: 4.0 Consensus size: 138
30092646 AAGAACATAG
* *
30092656 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
* * *
30092721 AATATAAACAGCTATATTAATTACTTTC-AGTCAAAATATAAATGACATGAAAATTAATATTCTT
66 AATATAAACAGTTATATTAATTAATTTCGA-TCAAAATATAAAAGACATGAAAATTAATATTCTT
30092785 TTGG-AAAA
130 TTGGAAAAA
* * * *
30092793 ATATAATTAATAGATGAATTTGATTAATACAAAATATTAATTGTATATATTTTTCCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
* * *
30092858 AATATAAACAGTTATATTAATCAATTTCGATCAAAATAT-AAAGACATGTAAATAAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
30092922 TGGAAAAA
131 TGGAAAAA
* * ** ***
30092930 ATATAATTAATATATGAATTTTGATTCATACAAAATACTAGGTGTATATATTTTACTGGATTTAT
1 ATATAATTAATATATGAA-TTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTAT
* * * * *
30092995 TCATATAAACAGTTGTATTAATTAATTTTGGTTAAAATATAAAAGACATGAAAATTAATATTCTT
65 TAATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTT
*
30093060 TTGGAAAGA
130 TTGGAAAAA
*
30093069 ATATGATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
* * *
30093134 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTTTTT
66 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
*
30093199 TGGAAAGA
131 TGGAAAAA
30093207 ATATAA
1 ATATAA
30093213 CTCCTTTTTC
Statistics
Matches: 369, Mismatches: 47, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
136 25 0.07
137 114 0.31
138 183 0.50
139 47 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCAAATTTATT
AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGGAAAAA
Found at i:30093333 original size:75 final size:77
Alignment explanation
Indices: 30093190--30093351 Score: 195
Period size: 75 Copynumber: 2.1 Consensus size: 77
30093180 ATGGAAATTA
* * *
30093190 ATATT-TTTTTGGAAAGAATATAACTCCTTTTTCTAACTTTAAATTTGCATTCTTTGTTAACAAA
1 ATATTCTTTTTGGAAAGAATATAACTCATTTTTCTAACTTTAAATTTGCATTCTCTATTAACAAA
30093254 GGAATAATCCT-
66 GGAATAATCCTG
* ** * * * *
30093265 ATATTCTTTTT-GAAAGAATATAATTCATTTTTCTAACTTTCCATTTTCCTTCTCTATTAATAAG
1 ATATTCTTTTTGGAAAGAATATAACTCATTTTTCTAACTTTAAATTTGCATTCTCTATTAACAAA
*
30093329 GGAATAATCTTG
66 GGAATAATCCTG
*
30093341 ATTTTCTTTTT
1 ATATTCTTTTT
30093352 TAATATGTGA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
75 58 0.79
76 15 0.21
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (77 bp):
ATATTCTTTTTGGAAAGAATATAACTCATTTTTCTAACTTTAAATTTGCATTCTCTATTAACAAA
GGAATAATCCTG
Found at i:30100181 original size:24 final size:24
Alignment explanation
Indices: 30100147--30100198 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30100137 TTTCTAGAAG
* **
30100147 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
30100171 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
30100195 ATTT
1 ATTT
30100199 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:30105331 original size:25 final size:25
Alignment explanation
Indices: 30105299--30105368 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
30105289 CAGGCCTATT
*
30105299 TTCACAGCTCGTATGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
** *
30105324 TTCACAGCTCGTGTGAAAATTTTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
*
30105349 TTCACAGCTCATGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
30105369 ACATGTACAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:30109710 original size:40 final size:40
Alignment explanation
Indices: 30109523--30109831 Score: 464
Period size: 40 Copynumber: 7.8 Consensus size: 40
30109513 GAACATTGGA
* *
30109523 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
30109563 ACATATCC-GGCTAAGA-CCGAAGGCAATTATGCGAG-TG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
30109600 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
30109640 ATATATCC-GGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
30109679 ACATATCCGGGCTAAGACCCGAAGGCGATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
30109719 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
30109759 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
30109799 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
30109832 TTTGCGGCTG
Statistics
Matches: 243, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
37 9 0.04
38 27 0.11
39 61 0.25
40 146 0.60
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:30118234 original size:40 final size:40
Alignment explanation
Indices: 30118175--30118486 Score: 500
Period size: 40 Copynumber: 7.8 Consensus size: 40
30118165 GAACATTGGA
* *
30118175 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
30118215 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
30118255 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
30118295 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
30118335 ACATATCCGGGCTAAGACCCGAAGGC-ATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
30118374 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
30118414 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
30118454 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
30118487 TTTGCGGCTG
Statistics
Matches: 251, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 37 0.15
40 214 0.85
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:30132081 original size:40 final size:40
Alignment explanation
Indices: 30132022--30132334 Score: 500
Period size: 40 Copynumber: 7.8 Consensus size: 40
30132012 GAACATTGGA
* *
30132022 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
30132062 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
30132102 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
30132142 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
30132182 ACATATCCGGGCTAAGACCCGAAGGCGATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
30132222 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
30132262 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
30132302 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
30132335 TTTGCGGCTG
Statistics
Matches: 251, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 251 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:30135887 original size:40 final size:40
Alignment explanation
Indices: 30135843--30136107 Score: 344
Period size: 40 Copynumber: 6.7 Consensus size: 40
30135833 GCTACTTGTT
*
30135843 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
30135883 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
30135923 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
30135962 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
*
30136002 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
30136042 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30136083 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30136108 CATCATTCAA
Statistics
Matches: 207, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.01
39 33 0.16
40 159 0.77
41 13 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30142544 original size:11 final size:11
Alignment explanation
Indices: 30142528--30142552 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30142518 GAGCTTAGGG
30142528 TTTTTTTCTTT
1 TTTTTTTCTTT
30142539 TTTTTTTCTTT
1 TTTTTTTCTTT
30142550 TTT
1 TTT
30142553 CATTTATGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:30148099 original size:6 final size:6
Alignment explanation
Indices: 30148090--30148123 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
30148080 TTCAAAAAAA
* *
30148090 AAAATC AAAATC AAAATC AAAATA AAAAAC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
30148124 AAAGAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:30148105 original size:12 final size:12
Alignment explanation
Indices: 30148084--30148123 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
30148074 TTCAGATTCA
*
30148084 AAAAAAAAAATC
1 AAAATAAAAATC
*
30148096 AAAATCAAAATC
1 AAAATAAAAATC
*
30148108 AAAATAAAAAAC
1 AAAATAAAAATC
30148120 AAAA
1 AAAA
30148124 AAAGAAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:30148144 original size:12 final size:11
Alignment explanation
Indices: 30148085--30148143 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
30148075 TCAGATTCAA
30148085 AAAAAAAAATC
1 AAAAAAAAATC
*
30148096 AAAATCAAAATC
1 AAAA-AAAAATC
*
30148108 AAAATAAAAAAC
1 AAAA-AAAAATC
30148120 AAAAAAAGAA--
1 AAAAAAA-AATC
*
30148130 AAGAAAAAATC
1 AAAAAAAAATC
30148141 AAA
1 AAA
30148144 GTCAAAAGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 2 0.05
10 6 0.15
11 9 0.23
12 22 0.56
ACGTcount: A:0.80, C:0.08, G:0.03, T:0.08
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:30149626 original size:87 final size:87
Alignment explanation
Indices: 30149479--30149890 Score: 691
Period size: 87 Copynumber: 4.7 Consensus size: 87
30149469 AAATCAGTGA
*
30149479 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
30149544 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
30149566 AGATCGAAAGCAAAGCCTTGACTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
30149631 CTTCCTGCGTTAACAGCGAAAC
66 CTTCCTGCGTTAACAGCGAAGC
* *
30149653 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAAATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
30149718 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
30149740 AGATCGAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
30149805 CTTCCTGCATTGATAGCAAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
30149827 AGGTCGAAAACAAAGCTTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT-GACAGATCTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAG-CAGATCTTG
30149891 TCCCCCTAAG
Statistics
Matches: 305, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
86 1 0.00
87 304 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:30150087 original size:128 final size:128
Alignment explanation
Indices: 30149885--30150210 Score: 553
Period size: 128 Copynumber: 2.5 Consensus size: 128
30149875 AAGATGACAG
* *
30149885 ATCTTGTCCCCCTAAGCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
* * *
30149950 AAGAAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTATAA
66 AAGCAGATTTAAGCCACAAGTCCTATGTCACTGACCAGCAGTGGAATAGGTTGGAAATTACAA
* * *
30150013 ATCTTATCTCCCTAAGTAGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
* *
30150078 AAGCAGATTTAAGCCACAAGTCCTATGTCACTGACCAGTAGTGGAATAGGTTGGAAATTACAG
66 AAGCAGATTTAAGCCACAAGTCCTATGTCACTGACCAGCAGTGGAATAGGTTGGAAATTACAA
*
30150141 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
30150206 AAGCA
66 AAGCA
30150211 AATTGGAGTC
Statistics
Matches: 184, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 184 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (128 bp):
ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
AAGCAGATTTAAGCCACAAGTCCTATGTCACTGACCAGCAGTGGAATAGGTTGGAAATTACAA
Found at i:30156487 original size:31 final size:31
Alignment explanation
Indices: 30156444--30156523 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
30156434 ACGGGCTGGG
*
30156444 ACACGGCAGTGTGTCCCTACTTCGAATGTCC
1 ACACGGCCGTGTGTCCCTACTTCGAATGTCC
30156475 ACACGGCCGTGTGTCCCTACTTCGAATGTCC
1 ACACGGCCGTGTGTCCCTACTTCGAATGTCC
*
30156506 ACACGGCCGTGTGACCCT
1 ACACGGCCGTGTGTCCCT
30156524 TGCAGTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.17, C:0.35, G:0.24, T:0.24
Consensus pattern (31 bp):
ACACGGCCGTGTGTCCCTACTTCGAATGTCC
Found at i:30157655 original size:10 final size:10
Alignment explanation
Indices: 30157640--30157674 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
30157630 TTATGTATTC
30157640 TAATTAAATT
1 TAATTAAATT
30157650 TAATTAAATTT
1 TAATTAAA-TT
*
30157661 TAAATAAATT
1 TAATTAAATT
30157671 TAAT
1 TAAT
30157675 ACATCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TAATTAAATT
Found at i:30158112 original size:21 final size:20
Alignment explanation
Indices: 30158075--30158116 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
30158065 TTATATTCAA
30158075 TACTCATTTAATATTAAAAT
1 TACTCATTTAATATTAAAAT
* * *
30158095 TACTTATTTTATATTTAAAT
1 TACTCATTTAATATTAAAAT
30158115 TA
1 TA
30158117 TTTTTTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
TACTCATTTAATATTAAAAT
Found at i:30158791 original size:4 final size:4
Alignment explanation
Indices: 30158782--30158835 Score: 81
Period size: 4 Copynumber: 13.5 Consensus size: 4
30158772 TGGGATTGGA
* * *
30158782 ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT AAAT ACAT ACAT ACCT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
30158830 ACAT AC
1 ACAT AC
30158836 GTACGTATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:30159275 original size:2 final size:2
Alignment explanation
Indices: 30159268--30159300 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30159258 CAAATGCATA
30159268 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
30159301 AACCTAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30167479 original size:33 final size:33
Alignment explanation
Indices: 30167413--30167485 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
30167403 ACATGCAATA
* * * *
30167413 ATAGTCTGGGCCTGAGCCCTATTCAGTAACAGT
1 ATAGTGTGGGCCTGAGCCCAATACAATAACAGT
* *
30167446 ATAGTGTGGGCCTTAGCCCAATACAATATCAGT
1 ATAGTGTGGGCCTGAGCCCAATACAATAACAGT
*
30167479 ACAGTGT
1 ATAGTGT
30167486 AATAATACAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (33 bp):
ATAGTGTGGGCCTGAGCCCAATACAATAACAGT
Found at i:30167616 original size:26 final size:26
Alignment explanation
Indices: 30167586--30167653 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
30167576 ACCAATATTG
* *
30167586 CAGCAAAGCTGCTAGTAATAGTATCGT
1 CAGCAAAGCTGCCAGTAACAGTAT-GT
* * *
30167613 -AGCAAACCTACCAGTAACAGTATTT
1 CAGCAAAGCTGCCAGTAACAGTATGT
30167638 CAGCAAAGCTGCCAGT
1 CAGCAAAGCTGCCAGT
30167654 GCAGTATACT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTATGT
Found at i:30176109 original size:17 final size:17
Alignment explanation
Indices: 30176060--30176110 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
30176050 CAATTTCTCA
*
30176060 CACTCATTTTTC-TTTT
1 CACTCTTTTTTCTTTTT
30176076 C-CT-TCTTTTTCTATTTT
1 CACTCT-TTTTTCT-TTTT
30176093 CACTCTTTTTTCTTTTT
1 CACTCTTTTTTCTTTTT
30176110 C
1 C
30176111 CTTCATGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 10 0.34
18 9 0.31
19 1 0.03
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (17 bp):
CACTCTTTTTTCTTTTT
Found at i:30180650 original size:20 final size:20
Alignment explanation
Indices: 30180618--30180664 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
30180608 ATCGTCCTAT
*
30180618 TTTCTGTTCT-TTTTTCT--
1 TTTCTTTTCTATTTTTCTCC
*
30180635 TTTTTTTTCTATTTTTCTCC
1 TTTCTTTTCTATTTTTCTCC
30180655 TTTCTTTTCT
1 TTTCTTTTCT
30180665 TCCTTTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
20 9 0.38
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTCTTTTCTATTTTTCTCC
Found at i:30181291 original size:50 final size:49
Alignment explanation
Indices: 30181237--30181401 Score: 177
Period size: 50 Copynumber: 3.3 Consensus size: 49
30181227 AGATTCGTCA
30181237 TTGTGGCTTTAATCTTTTTAACTGCAATGTTAGGGAGGCAAGATTCACCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTT-GGGAGGCAAGATTCACCG
* ** * * * *
30181287 TTGTGGCTTTAATCTGTTCCACTGCACTGCTTGGGAGGTAAGATTCGCTG
1 TTGTGGCTTTAATCTTTTTAACTGCAATG-TTGGGAGGCAAGATTCACCG
* * * * * *
30181337 CTGTAGCTTTAATCTTTTTAACCGCAATGTCGCGGAAGCAAGATTCATCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTTG-GGAGGCAAGATTCACCG
*
30181387 ATGTGGCTTTAATCT
1 TTGTGGCTTTAATCT
30181402 ATTCCACTAC
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
49 2 0.02
50 87 0.96
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (49 bp):
TTGTGGCTTTAATCTTTTTAACTGCAATGTTGGGAGGCAAGATTCACCG
Found at i:30181397 original size:100 final size:100
Alignment explanation
Indices: 30181242--30181430 Score: 274
Period size: 100 Copynumber: 1.9 Consensus size: 100
30181232 CGTCATTGTG
* * * *
30181242 GCTTTAATCTTTTTAACTGCAATGTTAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACCGCAATGTTAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCC
* *
30181307 ACTGCA-CTGCTTGGGAGGTAAGATTCGCTGCTGTA
66 ACTACATC-GCTTGGGAGATAAGATTCGCTGCTGTA
* *
30181342 GCTTTAATCTTTTTAACCGCAATG-TCGCGGAAGCAAGATTCATCGATGTGGCTTTAATCTATTC
1 GCTTTAATCTTTTTAACCGCAATGTTAG-GGAAGCAAGATTCACCGATGTGGCTTTAATCTATTC
30181406 CACTACATCGCTTGGGAGATAAGAT
65 CACTACATCGCTTGGGAGATAAGAT
30181431 CTGTAATTCT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
99 2 0.03
100 76 0.96
101 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (100 bp):
GCTTTAATCTTTTTAACCGCAATGTTAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCC
ACTACATCGCTTGGGAGATAAGATTCGCTGCTGTA
Found at i:30181556 original size:44 final size:44
Alignment explanation
Indices: 30181450--30181872 Score: 206
Period size: 44 Copynumber: 9.3 Consensus size: 44
30181440 TTCGGTCTAT
* * * * *
30181450 TCCACTGTGATCTCAGGGAGATAAGA-CCT-GA-TGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTCTATTTCAATCTGC
* * *
30181491 TCTACTGTAA-CTTCAGAGAGATAAGATCCTCTATTTTAATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTCTATTTCAATCTGC
* *
30181535 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-CTA-TTTCAATCTGC
* * * * *
30181579 TCCGCTGTAATCTCAGGGTGATAAGGT-TTCTGGTTTCAATCTGATGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTCT-ATTTCAATC---TGC
* * * *
30181626 GATCTACACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTCAATCCGC
1 --TC--CACTGTAATC-TCAGGGAGATAAGATCCTCTATTTCAATCTGC
* * * *
30181674 TCCACTATAATCTCAGGGAGATAGGAT--TACTAGCTTGAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-CTA-TTTCAATCTGC
* * *
30181718 TCTACTGTAATCTTAGGGAGATAAGAT--T-TAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTCTA-TTTCAATCTGC
* * * * *
30181760 TCCGCTGTAATCTCTGGGAGATAAGATTTCTGGCTTCAATTTGATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGA--TC---C-TCTA-TT--T-CAATCTGC
* * * * *
30181814 TCTACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTCTATTTCAATCTGC
30181858 TCCACTGTAATCTCA
1 TCCACTGTAATCTCA
30181873 CAGAGATAGG
Statistics
Matches: 290, Mismatches: 59, Indels: 63
0.70 0.14 0.15
Matches are distributed among these distances:
40 1 0.00
41 21 0.07
42 40 0.14
43 6 0.02
44 140 0.48
45 4 0.01
46 2 0.01
47 5 0.02
48 4 0.01
49 3 0.01
50 2 0.01
51 29 0.10
52 5 0.02
53 1 0.00
54 27 0.09
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCTCTATTTCAATCTGC
Found at i:30181665 original size:139 final size:141
Alignment explanation
Indices: 30181477--30181742 Score: 419
Period size: 139 Copynumber: 1.9 Consensus size: 141
30181467 GAGATAAGAC
* * *
30181477 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTAC-CTACTGTAACTTCAGAGAGATAAGATCCTCTATTTCAATCCGCTCCACTA
* *
30181542 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGTGATAAGGTT
65 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGGTT
30181607 TCTGGTTTCAAT
130 TCTGGTTTCAAT
* *
30181619 CTGATGCGATCTA-C-ACTGTAACTTCAGAGAGATAAGATCTTTTATTTCAATCCGCTCCACTAT
1 CTGATGCGATCTACCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTCAATCCGCTCCACTAT
* * *
30181682 AATCTCAGGGAGATAGGATTACTAGCTTGAATCTGCTCTACTGTAATCTTAGGGAGATAAG
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAG
30181743 ATTTAGCTTC
Statistics
Matches: 114, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
139 100 0.88
140 1 0.01
142 13 0.11
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (141 bp):
CTGATGCGATCTACCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTCAATCCGCTCCACTAT
AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGGTTT
CTGGTTTCAAT
Found at i:30181761 original size:42 final size:42
Alignment explanation
Indices: 30181664--30181788 Score: 153
Period size: 42 Copynumber: 2.9 Consensus size: 42
30181654 GATCTTTTAT
* * * *
30181664 TTCAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGC
1 TTCAATCTGCTCCACTGTAATCTTAGGGAGATAAGATT--TAGC
* *
30181708 TTGAATCTGCTCTACTGTAATCTTAGGGAGATAAGATTTAGC
1 TTCAATCTGCTCCACTGTAATCTTAGGGAGATAAGATTTAGC
*
30181750 TTCAATCTGCTCCGCTGTAATCTCT-GGGAGATAAGATTT
1 TTCAATCTGCTCCACTGTAATCT-TAGGGAGATAAGATTT
30181789 CTGGCTTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
42 38 0.54
43 1 0.01
44 32 0.45
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
TTCAATCTGCTCCACTGTAATCTTAGGGAGATAAGATTTAGC
Found at i:30181881 original size:184 final size:182
Alignment explanation
Indices: 30181528--30181902 Score: 563
Period size: 184 Copynumber: 2.0 Consensus size: 182
30181518 CCTCTATTTT
*
30181528 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTA-TAGCTTCAATCTGCTCCGCTGTAATCTC
* * * *
30181593 AGGGTGATAAGGTTTCTGGTTTCAATCTGATGCGATCTACACTGTAACTTCAGAGAGATAAGATC
65 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACACTGTAACCTCAGAGAGATAAGATC
* ** *
30181658 TTTTATTTCAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTG
130 CTTTATTTCAATCCGCTCCACTATAATCTCACAGAGATAGGATTACTAGCTTC
* * *
30181711 AATCTGCTCTACTGTAATCTTAGGGAGATAAGATT-TAGCTTCAATCTGCTCCGCTGTAATCTCT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATAGCTTCAATCTGCTCCGCTGTAATCTCA
*
30181775 GGGAGATAAGATTTCTGGCTTCAATTTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGA
66 GGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTA--C-ACTGTAACCTCAGAGAGATAAGA
* * *
30181840 TCCTTTATTTTAATCTGCTCCACTGTAATCTCACAGAGATAGGATTACTAGCTTC
128 TCCTTTATTTCAATCCGCTCCACTATAATCTCACAGAGATAGGATTACTAGCTTC
30181895 AATCTGCT
1 AATCTGCT
30181903 TCGCTACTGC
Statistics
Matches: 173, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
181 62 0.36
183 33 0.19
184 78 0.45
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (182 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATAGCTTCAATCTGCTCCGCTGTAATCTCA
GGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACACTGTAACCTCAGAGAGATAAGATCC
TTTATTTCAATCCGCTCCACTATAATCTCACAGAGATAGGATTACTAGCTTC
Found at i:30182211 original size:87 final size:87
Alignment explanation
Indices: 30181980--30182422 Score: 663
Period size: 87 Copynumber: 5.1 Consensus size: 87
30181970 ACTTGTAATC
* ** * *
30181980 TTCGATCTGCTTCACTGTCGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
30182045 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * *
30182067 TTCGATCTG-TTCGCTTTTAACACAGGAATGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
30182131 CCGATGGAGGCAATGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * ** * * *
30182153 TTCGATCTTCTTCGCTGTCAATACAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCATTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* *
30182218 TCGGTGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
30182240 TTTGATCTGCTTCGCTATTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
30182305 TCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
30182327 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
30182392 CCGATGGAGGCAAGGGCTTTGTT
66 CCGATGGAGGCAA-GGCTTTGTT
30182415 TTCGATCT
1 TTCGATCT
30182423 TCACTGATCT
Statistics
Matches: 318, Mismatches: 36, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
86 75 0.24
87 226 0.71
88 17 0.05
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:30182274 original size:43 final size:42
Alignment explanation
Indices: 30182225--30182361 Score: 100
Period size: 45 Copynumber: 3.2 Consensus size: 42
30182215 CAATCGGTGG
30182225 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTATTAACGCAGGA
1 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCT-TTAACGCAGGA
* * * * * * * **
30182268 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACTGCAATCG-ATGG-
1 AGGCAAGGCTTTG-T-T-TTTGATCTGCTTCGCTTTAA-CGCA-GGA
*
30182312 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCT-TTAACGCAGGA
30182355 AGGCAAG
1 AGGCAAG
30182362 ATCTGCTATC
Statistics
Matches: 66, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
42 18 0.27
43 18 0.27
44 11 0.17
45 19 0.29
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (42 bp):
AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTTTAACGCAGGA
Found at i:30184619 original size:27 final size:26
Alignment explanation
Indices: 30184561--30184620 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
30184551 TTGATTTCTC
*
30184561 TTTTTTTCTTTTGACGTTGATTTTTT
1 TTTTTTTCTTTTGACGTTGATTTTAT
* **
30184587 TCTTTTTTGTTTTGATTTTGATTTTGAT
1 T-TTTTTTCTTTTGACGTTGATTTT-AT
30184615 TTTTTT
1 TTTTTT
30184621 CTCTCTCCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 2 0.07
ACGTcount: A:0.08, C:0.05, G:0.12, T:0.75
Consensus pattern (26 bp):
TTTTTTTCTTTTGACGTTGATTTTAT
Found at i:30188965 original size:11 final size:11
Alignment explanation
Indices: 30188949--30188975 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30188939 GAATAAAACG
30188949 CAATGGGATGA
1 CAATGGGATGA
30188960 CAATGGGATGA
1 CAATGGGATGA
30188971 CAATG
1 CAATG
30188976 TATATCGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.33, T:0.19
Consensus pattern (11 bp):
CAATGGGATGA
Found at i:30190239 original size:6 final size:6
Alignment explanation
Indices: 30190228--30190260 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
30190218 TTGATTCGTA
30190228 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
30190261 TGAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:30199200 original size:173 final size:173
Alignment explanation
Indices: 30198901--30199247 Score: 613
Period size: 173 Copynumber: 2.0 Consensus size: 173
30198891 TAAAAAGTCC
* * *
30198901 CTGTGGGTACGATTACTCGACATTTACTTGTCTCTTTATTACTTATTGTGATTGTATACACTTGC
1 CTGTAGGTACGATTACTCGACATTTACTTGTCACTTTATTACTTATTGCGATTGTATACACTTGC
* * *
30198966 ACATTTCCATCGTTCCAAAACTGTAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
66 ACATTTCCATCATTCCAAAAATGCAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
30199031 GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
131 GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
* * *
30199074 CTGTAGGTATGATTACTCGACATTTATTTGTCACTTTATTACTTGTTGCGATTGTATACACTTGC
1 CTGTAGGTACGATTACTCGACATTTACTTGTCACTTTATTACTTATTGCGATTGTATACACTTGC
30199139 ACATTTCCATCATTCCAAAAATGCAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
66 ACATTTCCATCATTCCAAAAATGCAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
30199204 GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
131 GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
30199247 C
1 C
30199248 CTGAATTATT
Statistics
Matches: 165, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 165 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (173 bp):
CTGTAGGTACGATTACTCGACATTTACTTGTCACTTTATTACTTATTGCGATTGTATACACTTGC
ACATTTCCATCATTCCAAAAATGCAGATGTATTTACTTAATTATAAACATTTAATTCCATCTAGA
GGCCTAAAATATAACTCTTTTCAAGAGTTATCACACCCCCAAA
Found at i:30222321 original size:15 final size:16
Alignment explanation
Indices: 30222296--30222325 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30222286 ATCAATGTAA
30222296 TAATATAAATCATATC
1 TAATATAAATCATATC
30222312 TAAT-TAAATCATAT
1 TAATATAAATCATAT
30222326 GAACTTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATAAATCATATC
Found at i:30224653 original size:29 final size:28
Alignment explanation
Indices: 30224397--30224647 Score: 263
Period size: 28 Copynumber: 8.9 Consensus size: 28
30224387 TAAAAATAGA
* *
30224397 CCTTTATGGCTATCTC--TAAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
* * *
30224423 TCTTTATGGCTATCTCTGTTAAAGGAAG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
* * * * *
30224451 CCGTTGTTGTTATCTTTATTAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
*
30224479 CCTTTATGGCTATCTCTGTTAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
* *
30224507 CCTTTGTGGCTATCTTTGTTAAAGGAAG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
* * *
30224535 CCTTTGTGACTATCTTTCTTAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGATG
* * * *
30224563 CCTTTGTAGATATCTCTATAAAAAGGATG
1 CCTTTGTGGCTATCTCTGT-TAAAGGATG
* *
30224592 CCTTTGTGGCTATCTCTATAAAAAGGATG
1 CCTTTGTGGCTATCTCTGT-TAAAGGATG
30224621 CCTTTGTGGCTATCTCTGTTCAAAGGA
1 CCTTTGTGGCTATCTCTGTT-AAAGGA
30224648 CACCTTCATG
Statistics
Matches: 188, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
26 15 0.08
28 114 0.61
29 59 0.31
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (28 bp):
CCTTTGTGGCTATCTCTGTTAAAGGATG
Found at i:30224671 original size:86 final size:83
Alignment explanation
Indices: 30224408--30224692 Score: 193
Period size: 84 Copynumber: 3.4 Consensus size: 83
30224398 CTTTATGGCT
* * * * * * * *
30224408 ATCTC-TAAAAGGATGTCTTTATGGCTATCTCTGTTAAAGGAAGCCGTTGTTG-TTATCTTTATT
1 ATCTCATAAAAGGATGCCTTTGTGGCTATCTCTATAAAAGGAAGCCTTTG-TGACTATCTCTCTT
** * * **
30224471 AAAGGATGCCTTTATGGCT
65 AAAGGACACCTTTGTAGAG
* * * * * *
30224490 ATCTCTGTTAAAGGATGCCTTTGTGGCTATCTTTGTTAAAGGAAGCCTTTGTGACTATCTTTCTT
1 ATCTC-ATAAAAGGATGCCTTTGTGGCTATCTCTATAAAAGGAAGCCTTTGTGACTATCTCTCTT
** *
30224555 AAAGGATGCCTTTGTAGAT
65 AAAGGACACCTTTGTAGAG
* * *
30224574 ATCTCTATAAAAAGGATGCCTTTGTGGCTATCTCTATAAAAAGGATGCCTTTGTGGCTATCTCTG
1 ATCTC-AT-AAAAGGATGCCTTTGTGGCTATCTCTAT-AAAAGGAAGCCTTTGTGACTATCTCTC
30224639 TTCAAAGGACACCTTCATGGT-GAG
63 TT-AAAGGACACCTT--T-GTAGAG
* *
30224663 A-CTC-TAAAAGGAAAGCCTCTGTGGCTATCT
1 ATCTCATAAAAGG-ATGCCTTTGTGGCTATCT
30224693 TTGGAAAGGA
Statistics
Matches: 169, Mismatches: 24, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
82 5 0.03
83 2 0.01
84 71 0.42
85 31 0.18
86 41 0.24
87 10 0.06
88 3 0.02
89 4 0.02
90 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (83 bp):
ATCTCATAAAAGGATGCCTTTGTGGCTATCTCTATAAAAGGAAGCCTTTGTGACTATCTCTCTTA
AAGGACACCTTTGTAGAG
Found at i:30225913 original size:22 final size:23
Alignment explanation
Indices: 30225888--30225931 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
30225878 ACATTCAACC
*
30225888 ATTACTCTTTT-CTTTTGTTTCT
1 ATTACTCTTTTCCTTTTATTTCT
*
30225910 ATTATTCTTTTCCTTTTATTTC
1 ATTACTCTTTTCCTTTTATTTC
30225932 CTTCCGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTACTCTTTTCCTTTTATTTCT
Found at i:30228898 original size:16 final size:16
Alignment explanation
Indices: 30228877--30228908 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30228867 GTTTTGTTGC
*
30228877 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
30228893 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
30228909 CTTTCCATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:30230629 original size:40 final size:40
Alignment explanation
Indices: 30230584--30230968 Score: 610
Period size: 40 Copynumber: 9.6 Consensus size: 40
30230574 CAAGCTCAAT
* * * * * *
30230584 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
30230624 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
*
30230664 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCACACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
30230704 CGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
30230744 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
30230784 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
30230824 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
30230864 TGCCTTCAGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
30230904 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
30230944 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
30230969 CATTCAAATG
Statistics
Matches: 320, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 317 0.99
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:30234465 original size:37 final size:37
Alignment explanation
Indices: 30234405--30234480 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
30234395 TATTACGAAA
* * *
30234405 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
30234442 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
30234479 TC
1 TC
30234481 CTTAGAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:30234688 original size:47 final size:47
Alignment explanation
Indices: 30234601--30235290 Score: 1128
Period size: 47 Copynumber: 14.6 Consensus size: 47
30234591 CCCTTCGGGA
* * * * * *
30234601 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
30234648 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
30234695 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30234742 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
30234791 CTTATCACACATATACACTTTCACATTGTTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30234838 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30234885 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30234932 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30234981 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30235028 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30235075 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30235122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30235169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
30235216 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30235263 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
30235291 ATGGGTTTAA
Statistics
Matches: 604, Mismatches: 33, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
47 498 0.82
49 106 0.18
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30234924 original size:190 final size:190
Alignment explanation
Indices: 30234601--30235290 Score: 1150
Period size: 190 Copynumber: 3.6 Consensus size: 190
30234591 CCCTTCGGGA
** * * * * * * * * *
30234601 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTTACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
**
30234666 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
30234731 GGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
30234791 CTTATCACACATATACACTTTCACATTGTTCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
*
30234856 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
30234921 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30234981 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
*
30235046 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
30235111 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30235169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGCATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
30235234 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACAT
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACAT
30235291 ATGGGTTTAA
Statistics
Matches: 475, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
188 138 0.29
190 337 0.71
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (190 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30238835 original size:40 final size:40
Alignment explanation
Indices: 30238791--30238986 Score: 157
Period size: 40 Copynumber: 4.9 Consensus size: 40
30238781 GAATACATGT
* * * *
30238791 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
* ***
30238831 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
* *
30238871 CACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
* * ** * * *
30238911 CCACAAGCTC-AATTGC-CTTCGGGTCTTAACCCGGGTATAG
1 -CACCAGCACGAA-TGCTCTTCGGAACTTAGCCCGGATATAA
**
30238951 CAACTC-GCACGAATGC-CTTCGGGTCTTAGCCCGGAT
1 C-AC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
30238987 GTATCAACTT
Statistics
Matches: 125, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
40 112 0.90
41 12 0.10
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAA
Found at i:30238971 original size:80 final size:80
Alignment explanation
Indices: 30238876--30239120 Score: 312
Period size: 80 Copynumber: 3.0 Consensus size: 80
30238866 TACCTCACTA
* * * * *
30238876 GCACGAATGCTCTTCGGAAT-TTAGCCCGGATATAACCACAAGCTCAATTGCCTTCGGGTCTTAA
1 GCACGAATGC-CTTCGG-GTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAA
* * *
30238940 CCCGGGTATAGCAACTC
64 CCCGGATATATCAATTC
* * * *
30238957 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTATCAACTTGCACAATTGCCTTCCGGTCTTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAACC
30239022 CGGATATATCAATTC
66 CGGATATATCAATTC
* * * * *
30239037 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAACC
30239102 CGGATATATCAATTC
66 CGGATATATCAATTC
30239117 GCAC
1 GCAC
30239121 ACATAGTGCT
Statistics
Matches: 144, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 1 0.01
80 133 0.92
81 10 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAACC
CGGATATATCAATTC
Found at i:30238971 original size:120 final size:120
Alignment explanation
Indices: 30238820--30239113 Score: 276
Period size: 120 Copynumber: 2.5 Consensus size: 120
30238810 CGGGACCTAG
* * *
30238820 CCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGA
1 CCCGGATATAGCAACTC-GCACGAATGC-CTTCGGAACTTAGCCCGGATACATCAACTAGCAC-A
* * *
30238882 A-TGCTCTT-CGGAAT-TTAGCCCGGATATAACCACAAGCTCAATTGCCTTCGGGTCTTAA
63 ATTGC-CTTCCGG--TCTTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAA
* ** ** *
30238940 CCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTATCAACTTGCACAATT
1 CCCGGATATAGCAACTCGCACGAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCACAATT
* *** *
30239005 GCCTTCCGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAG
66 GCCTTCCGGTCTTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAA
* * * ** * *
30239060 CCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAA
1 CCCGGATATAGCAACTCGCACGAATGCCTTCGGAACTTAGCCCGGATACATCAA
30239114 TTCGCACACA
Statistics
Matches: 145, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
119 1 0.01
120 118 0.81
121 25 0.17
122 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (120 bp):
CCCGGATATAGCAACTCGCACGAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCACAATT
GCCTTCCGGTCTTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAA
Found at i:30238995 original size:40 final size:40
Alignment explanation
Indices: 30238924--30239121 Score: 299
Period size: 40 Copynumber: 5.0 Consensus size: 40
30238914 CAAGCTCAAT
* * * * *
30238924 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
30238964 TGCCTTCGGGTCTTAGCCCGGATGTATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
*
30239004 TGCCTTCCGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
30239044 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
30239084 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACA
30239122 CATAGTGCTT
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 141 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:30239178 original size:29 final size:29
Alignment explanation
Indices: 30239139--30239217 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
30239129 CTTAATAATC
*
30239139 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
30239169 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
30239198 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30239218 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:30239260 original size:43 final size:43
Alignment explanation
Indices: 30239199--30239430 Score: 410
Period size: 43 Copynumber: 5.4 Consensus size: 43
30239189 TGCATTTCAA
* *
30239199 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
30239242 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
*
30239285 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
*
30239328 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
* *
30239371 GCCCGCACACTTAGTGCCAATCTCACAATCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
30239414 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
30239431 TGAAAACCAA
Statistics
Matches: 181, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 181 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
Found at i:30241357 original size:37 final size:37
Alignment explanation
Indices: 30241297--30241372 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
30241287 TATTACGAAA
* * *
30241297 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
30241334 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
30241371 TC
1 TC
30241373 CTTAGAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:30241571 original size:47 final size:47
Alignment explanation
Indices: 30241493--30242152 Score: 784
Period size: 47 Copynumber: 13.6 Consensus size: 47
30241483 CCCTTCGGGA
* * * * * *
30241493 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30241540 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
30241587 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30241634 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* ** **
30241683 CTTATCACACATATACACTTTCACATTGTTCACATCGGCCATTAGAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * ** ** **
30241730 CACATCGGCCAT-TAGGC-CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 CTTATC--ACATATATACACTT-TCAC--AT-T-CA---TCACA-TCGGC-CAT---TA----GG
30241793 C
47 C
30241794 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30241843 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30241890 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30241937 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30241984 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30242031 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
30242078 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30242125 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
30242153 ATGGGTTTAA
Statistics
Matches: 533, Mismatches: 53, Indels: 52
0.84 0.08 0.08
Matches are distributed among these distances:
47 406 0.76
48 7 0.01
49 72 0.14
50 2 0.00
51 1 0.00
55 5 0.01
56 6 0.01
57 6 0.01
58 5 0.01
61 2 0.00
62 2 0.00
63 2 0.00
64 7 0.01
65 7 0.01
66 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30241734 original size:17 final size:17
Alignment explanation
Indices: 30241712--30241744 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30241702 TTCACATTGT
30241712 TCACATCGGCCATTAGA
1 TCACATCGGCCATTAGA
30241729 TCACATCGGCCATTAG
1 TCACATCGGCCATTAG
30241745 GCCTTATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (17 bp):
TCACATCGGCCATTAGA
Found at i:30241744 original size:64 final size:64
Alignment explanation
Indices: 30241664--30241791 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
30241654 TTTCACATTC
* **
30241664 ATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTGTTCACATCGGCCATTAG
1 ATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAG
*
30241728 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
1 ATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAG
30241792 GCCTTATCAC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (64 bp):
ATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAG
Found at i:30241763 original size:160 final size:158
Alignment explanation
Indices: 30241568--30242028 Score: 704
Period size: 160 Copynumber: 3.0 Consensus size: 158
30241558 TTTCACATTC
* * *
30241568 ATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAG
1 ATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG
*
30241633 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
66 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
30241698 CACTTTCACATTGTTCACATCGGCCATTAG
131 CACTTTCACA-T-TTCACATCGGCCATTAG
*
30241728 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 ATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG
30241793 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
66 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
30241858 CACTTTCACA--T----T----C-----
131 CACTTTCACATTTCACATCGGCCATTAG
30241871 ATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG
1 ATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG
* *
30241936 CCTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
30241999 CACTTTCACATTCATCACATCGGCCATTAG
131 CACTTTCACATT--TCACATCGGCCATTAG
30242029 GCCTTATCAC
Statistics
Matches: 276, Mismatches: 8, Indels: 36
0.86 0.03 0.11
Matches are distributed among these distances:
141 62 0.22
143 73 0.26
145 1 0.00
148 1 0.00
149 1 0.00
152 1 0.00
153 1 0.00
156 1 0.00
160 135 0.49
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (158 bp):
ATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG
CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
CACTTTCACATTTCACATCGGCCATTAG
Found at i:30241817 original size:113 final size:112
Alignment explanation
Indices: 30241615--30241840 Score: 373
Period size: 113 Copynumber: 2.0 Consensus size: 112
30241605 TTTCACATTC
*
30241615 ATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTA
1 ATCACATCGGCCATTAAGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTA
**
30241680 GGCCTTATCACACATATACACTTTCACATTGTTCACATCGGCCATTAG
65 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAG
*
30241728 ATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAG
1 ATCACATCGGCCATTAAGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAG
*
30241792 GCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
66 GCCTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAG
30241841 GCCTTATCAC
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
111 46 0.43
113 60 0.57
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (112 bp):
ATCACATCGGCCATTAAGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAG
Found at i:30295429 original size:13 final size:13
Alignment explanation
Indices: 30295411--30295439 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30295401 TGTGTCTTAT
30295411 ACGACTAAGTCAC
1 ACGACTAAGTCAC
30295424 ACGACTAAGTCAC
1 ACGACTAAGTCAC
30295437 ACG
1 ACG
30295440 CCCATGTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (13 bp):
ACGACTAAGTCAC
Found at i:30295583 original size:21 final size:21
Alignment explanation
Indices: 30295545--30295584 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30295535 GCTTAACAGG
*
30295545 TTCAAAACACGATCAAACACA
1 TTCAAAACACGATAAAACACA
* *
30295566 TTCAAAACATGCTAAAACA
1 TTCAAAACACGATAAAACA
30295585 ATCATCCTAG
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:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (21 bp):
TTCAAAACACGATAAAACACA
Found at i:30297521 original size:13 final size:13
Alignment explanation
Indices: 30297483--30297523 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
30297473 TCGTGCGTGA
*
30297483 CTTTCTTTTC-TT
1 CTTTTTTTTCTTT
30297495 CTTTCTTTTTCTTT
1 CTTT-TTTTTCTTT
30297509 CTTTTTTTTCTTT
1 CTTTTTTTTCTTT
30297522 CT
1 CT
30297524 AAGTTGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 16 0.62
14 6 0.23
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
CTTTTTTTTCTTT
Found at i:30300180 original size:54 final size:54
Alignment explanation
Indices: 30300043--30300238 Score: 240
Period size: 57 Copynumber: 3.7 Consensus size: 54
30300033 ATACAAATTA
* * * *
30300043 CAGAAAATATTTCCTATTCACTCATCTTTTCTTGCAGGGAATTTTTACTGTTTTCAT
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTG-TTT--T
*
30300100 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGAAATATTTACTGTTTT
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTGTTTT
* *
30300154 CAGAGAATATTTCTTGTTCACTCGTCTTTTCTTACAGGGAATATTT-C-G---T
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTGTTTT
* * *
30300203 CAGCGAATATTTCATGTTCACTTGTCTTTTCTTGCA
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCA
30300239 TCATATTTTC
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
49 33 0.26
52 1 0.01
53 1 0.01
54 44 0.35
56 3 0.02
57 45 0.35
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (54 bp):
CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTGTTTT
Found at i:30300230 original size:49 final size:49
Alignment explanation
Indices: 30300094--30300235 Score: 176
Period size: 54 Copynumber: 2.8 Consensus size: 49
30300084 TTTTTACTGT
* * *
30300094 TTTCATCAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGAAATA
1 TTTCGTCAGAGAATATTTCATGTTCACTCGTCTTTTCTTACAGGAAATA
* *
30300143 TTTACTGTTTTCAGAGAATATTTCTTGTTCACTCGTCTTTTCTTACAGGGAATA
1 TTT-C-G---TCAGAGAATATTTCATGTTCACTCGTCTTTTCTTACAGGAAATA
* *
30300197 TTTCGTCAGCGAATATTTCATGTTCACTTGTCTTTTCTT
1 TTTCGTCAGAGAATATTTCATGTTCACTCGTCTTTTCTT
30300236 GCATCATATT
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
49 34 0.42
50 1 0.01
52 1 0.01
53 1 0.01
54 44 0.54
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (49 bp):
TTTCGTCAGAGAATATTTCATGTTCACTCGTCTTTTCTTACAGGAAATA
Found at i:30303637 original size:35 final size:35
Alignment explanation
Indices: 30303591--30303657 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
30303581 TGTTTATGAC
30303591 AATATTTATTTTTATTAAATATCTTTGAATAGGAA
1 AATATTTATTTTTATTAAATATCTTTGAATAGGAA
30303626 AATATTTATTTTTATTAAATATCTTTGAATAG
1 AATATTTATTTTTATTAAATATCTTTGAATAG
30303658 ATACTTCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (35 bp):
AATATTTATTTTTATTAAATATCTTTGAATAGGAA
Found at i:30310709 original size:47 final size:47
Alignment explanation
Indices: 30310656--30311093 Score: 651
Period size: 47 Copynumber: 9.2 Consensus size: 47
30310646 AATTCTAAAT
30310656 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30310703 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
30310752 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
30310799 TGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
30310848 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
30310895 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
30310944 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
30310991 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
30311038 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30311085 TGTGATAAG
1 TGTGATAAG
30311094 TCCCGAAGGG
Statistics
Matches: 355, Mismatches: 30, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
47 222 0.63
49 133 0.37
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:30310820 original size:96 final size:96
Alignment explanation
Indices: 30310656--30311078 Score: 706
Period size: 96 Copynumber: 4.4 Consensus size: 96
30310646 AATTCTAAAT
* * *
30310656 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATGG
30310721 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
30310752 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATGG
30310817 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
*
30310848 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATGG
30310913 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * *
30310944 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATGG
30311009 CCGATGTGATGAATGTGAAAGTG--TATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * ** * * *
30311038 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
30311079 CATAAATGTG
Statistics
Matches: 312, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
94 40 0.13
96 272 0.87
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (96 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:30313371 original size:28 final size:28
Alignment explanation
Indices: 30313325--30313391 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
30313315 AAGTCCGCTG
**
30313325 AGGACTGTCTTATGTGGAAAGCCCGCCA
1 AGGACTGTCTTATAAGGAAAGCCCGCCA
***
30313353 AGGACTGTCTTATAAGGAAAGTTTGCCA
1 AGGACTGTCTTATAAGGAAAGCCCGCCA
*
30313381 AGGACTATCTT
1 AGGACTGTCTT
30313392 GAAGATGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (28 bp):
AGGACTGTCTTATAAGGAAAGCCCGCCA
Found at i:30315942 original size:15 final size:15
Alignment explanation
Indices: 30315918--30315949 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30315908 TATGCATGTA
*
30315918 AAATATAAAAGACAT
1 AAATACAAAAGACAT
30315933 AAATACAAAAGACAT
1 AAATACAAAAGACAT
30315948 AA
1 AA
30315950 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:30325919 original size:13 final size:11
Alignment explanation
Indices: 30325892--30325934 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
30325882 AGTTAAAAAT
30325892 TATTTTATTAA
1 TATTTTATTAA
30325903 TATTTTACTTAA
1 TATTTTA-TTAA
*
30325915 -ATATTTATTAT
1 TAT-TTTATTAA
30325926 TATTTTATT
1 TATTTTATT
30325935 TAGAAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:30329475 original size:8 final size:9
Alignment explanation
Indices: 30329450--30329474 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30329440 TAAAATTGAA
30329450 TATAAAAAT
1 TATAAAAAT
30329459 TATAAAAAT
1 TATAAAAAT
30329468 TATAAAA
1 TATAAAA
30329475 TCTATCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TATAAAAAT
Found at i:30335272 original size:36 final size:37
Alignment explanation
Indices: 30335232--30335309 Score: 140
Period size: 36 Copynumber: 2.1 Consensus size: 37
30335222 ATTTAAATTC
*
30335232 ATTTTTATTTATATAATTTTCAAATAAATAT-TTTTA
1 ATTTTTATTTACATAATTTTCAAATAAATATGTTTTA
30335268 ATTTTTATTTACATAATTTTCAAATAAATATGTTTTA
1 ATTTTTATTTACATAATTTTCAAATAAATATGTTTTA
30335305 ATTTT
1 ATTTT
30335310 AAAAATAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 30 0.75
37 10 0.25
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (37 bp):
ATTTTTATTTACATAATTTTCAAATAAATATGTTTTA
Found at i:30335531 original size:21 final size:22
Alignment explanation
Indices: 30335493--30335547 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
30335483 CCAGCCCATT
* **
30335493 TTTTAATAAATACCAAAAATTTA
1 TTTTAA-AAATACAAAAAAAGTA
30335516 TTTTAAAAAT-CAAAAAAAGTA
1 TTTTAAAAATACAAAAAAAGTA
30335537 TTTTAAAAATA
1 TTTTAAAAATA
30335548 TTTTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 18 0.64
22 4 0.14
23 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTTAAAAATACAAAAAAAGTA
Found at i:30335561 original size:17 final size:17
Alignment explanation
Indices: 30335539--30335587 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
30335529 AAAAAGTATT
30335539 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
30335556 TTAAAAAAATTTAAAAA
1 TTAAAAATATTTTAAAA
* *
30335573 ATAAATATATATTTA
1 TTAAAAATAT-TTTA
30335588 TTATATAGGG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:30348566 original size:9 final size:9
Alignment explanation
Indices: 30348550--30348610 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
30348540 GGTATTTTTC
30348550 GGTAATTCG
1 GGTAATTCG
*
30348559 GTTAATTCG
1 GGTAATTCG
*
30348568 GTTAATTCG
1 GGTAATTCG
*
30348577 GTTAATTCG
1 GGTAATTCG
30348586 GGTAATTCG
1 GGTAATTCG
30348595 GGTAATTCG
1 GGTAATTCG
30348604 GGTAATT
1 GGTAATT
30348611 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:30348787 original size:12 final size:12
Alignment explanation
Indices: 30348770--30348794 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30348760 AGTAATTTCG
30348770 GGTCGGTTAACC
1 GGTCGGTTAACC
30348782 GGTCGGTTAACC
1 GGTCGGTTAACC
30348794 G
1 G
30348795 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:30349562 original size:6 final size:6
Alignment explanation
Indices: 30349551--30349581 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
30349541 AGCTACTCCC
*
30349551 TATCTT TATCTT GATCTT TATCTT TATCTT T
1 TATCTT TATCTT TATCTT TATCTT TATCTT T
30349582 TTCTCTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.03, T:0.65
Consensus pattern (6 bp):
TATCTT
Found at i:30362543 original size:230 final size:223
Alignment explanation
Indices: 30362115--30362594 Score: 529
Period size: 230 Copynumber: 2.1 Consensus size: 223
30362105 AAAAGAAATA
* * * *
30362115 TGACAAGTGAAACTATA-TATATGGTACATATATATTTAATGTGTGAATGATTTTTGTGGATCAC
1 TGACAAGTGAAACTATATTATATGGCACATATATATTTAATGTATAAATGATTTTTATGGATCAC
*
30362179 ATTAAATGCAATGTTTTATTGTAAAAACGAAAAAAAAAACGTTTTATTCCTCAAAATGTTTGAAT
66 ATTAAATGCAAAGTTTTATTGTAAAAACG--AAAAAAAACGTTTTATTCCTCAAAATGTTTGAAT
* *** * *
30362244 ATATATAGGCAACAATTATAATAATAATAAAAATCCCTTTGGATATCATTCGCTTAATTTTTGTA
129 ATATATA-GCAACAATTATAATAATAAAAAAAATCCCTTCCAATATCATTCCCTTAATTTTTCTA
30362309 TATTAAAAATTATGTGGCAAACTTCAATGTT
193 TATTAAAAATTATGTGGCAAACTTCAATGTT
* * * * * *
30362340 TGACAAATGAAACTATATTTATATGGCATATGTATATTTAATTTATAAATGTTTTTTATGGGTCA
1 TGACAAGTGAAACTATA-TTATATGGCACATATATATTTAATGTATAAATGATTTTTATGGATCA
* * * * *
30362405 CATTAAGTGCAAAGTTTTCA-TGTAAAAATG-GAAAAAATGTTTTATTCCTCGAAATGTTTGAAT
65 CATTAAATGCAAAGTTTT-ATTGTAAAAACGAAAAAAAACGTTTTATTCCTCAAAATGTTTGAAT
*
30362468 ATTATATA-CAA-TATTATGACAGTAATTATTAAAAAAAAATCCCTTCCAATATCATTCCCTTAA
129 A-TATATAGCAACAATTAT-A-A-T-A--A-T-AAAAAAAATCCCTTCCAATATCATTCCCTTAA
* * * *
30362531 TTTTTCTATATTAAAATTTATGTGGTAAGCTTCGATGTT
185 TTTTTCTATATTAAAAATTATGTGGCAAACTTCAATGTT
* *
30362570 TGACAAGTGGAATTATATCTATATG
1 TGACAAGTGAAACTATAT-TATATG
30362595 ATATAAGTGC
Statistics
Matches: 212, Mismatches: 30, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
222 5 0.02
223 4 0.02
224 32 0.15
225 23 0.11
226 1 0.00
227 62 0.29
228 2 0.01
229 2 0.01
230 81 0.38
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (223 bp):
TGACAAGTGAAACTATATTATATGGCACATATATATTTAATGTATAAATGATTTTTATGGATCAC
ATTAAATGCAAAGTTTTATTGTAAAAACGAAAAAAAACGTTTTATTCCTCAAAATGTTTGAATAT
ATATAGCAACAATTATAATAATAAAAAAAATCCCTTCCAATATCATTCCCTTAATTTTTCTATAT
TAAAAATTATGTGGCAAACTTCAATGTT
Found at i:30362841 original size:20 final size:20
Alignment explanation
Indices: 30362818--30362864 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
30362808 AATAAACACC
*
30362818 AAAAATTTATTTTAAAAATA
1 AAAAATTCATTTTAAAAATA
** *
30362838 AAAAAAGCATTTTAAAATTA
1 AAAAATTCATTTTAAAAATA
30362858 AAAAATT
1 AAAAATT
30362865 AAAAAATATA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATTCATTTTAAAAATA
Found at i:30363654 original size:13 final size:13
Alignment explanation
Indices: 30363624--30363656 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30363614 TATCCTCAAT
*
30363624 TAAATTATTTTTA
1 TAAAATATTTTTA
30363637 -AAAATATTTTTA
1 TAAAATATTTTTA
30363649 TAAAATAT
1 TAAAATAT
30363657 AAATATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAAATATTTTTA
Found at i:30363792 original size:6 final size:6
Alignment explanation
Indices: 30363781--30363827 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
30363771 ATTCAATAAT
* *
30363781 ATATTA ATATTA ATATTA ATATTA AAATAA ATA-TA ATATTA TATATT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA -ATATT
30363828 TTAATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 4 0.11
6 26 0.74
7 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATATTA
Found at i:30374754 original size:52 final size:53
Alignment explanation
Indices: 30374677--30374860 Score: 169
Period size: 52 Copynumber: 3.3 Consensus size: 53
30374667 CTATTTCAAA
* * *
30374677 AATAATATTATT-CTAATATATTTAATATTAAATTAAATTTAATACTTATCTT
1 AATAATATTATTATTAATATATTTAATATTAAATTTAATTTAATATTTATCTT
* * *
30374729 AATAATATT-TTATTAAT-TATCTTAATATTAGATTTAACTTAATGTTTATCTTGT
1 AATAATATTATTATTAATATAT-TTAATATTAAATTTAATTTAATATTTATC-T-T
*
30374783 AGATAAATATTCAATTAATTTAATAATATTTAATATTAAATTTAATCTAATATTTATCTT
1 A-AT-AATATT--ATT-A-TTAAT-ATATTTAATATTAAATTTAATTTAATATTTATCTT
*
30374843 GATAAGTATTA-TATTAAT
1 AATAA-TATTATTATTAAT
30374861 TTAATATTAA
Statistics
Matches: 107, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
51 5 0.05
52 37 0.35
53 1 0.01
54 7 0.07
55 3 0.03
56 7 0.07
57 1 0.01
58 2 0.02
59 8 0.07
60 2 0.02
61 6 0.06
62 25 0.23
63 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (53 bp):
AATAATATTATTATTAATATATTTAATATTAAATTTAATTTAATATTTATCTT
Found at i:30374820 original size:62 final size:59
Alignment explanation
Indices: 30374750--30374866 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 59
30374740 ATTAATTATC
* *
30374750 TTAATATTAGATTTAA-CTTAATGTTTATCTTGTAGATAAATATTCA-ATTAATTTAATAATAT
1 TTAATATTAAATTTAATC-TAATATTTATC-T-T-GATAAATATT-ATATTAATTTAATAATAT
*
30374812 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
30374867 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
58 1 0.02
59 21 0.42
60 1 0.02
61 1 0.02
62 25 0.50
63 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAATAT
Found at i:30379961 original size:32 final size:32
Alignment explanation
Indices: 30379920--30379984 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
30379910 GTTAAGTTAG
*
30379920 TTAATATTGTAGCTAA-GTTGTATTTATATTTC
1 TTAATATTGTAGCTAAGGTT-TATTTACATTTC
30379952 TTAATATTGTAGCTAAGGTTTATTTACATTTC
1 TTAATATTGTAGCTAAGGTTTATTTACATTTC
30379984 T
1 T
30379985 AGTCCCTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 28 0.90
33 3 0.10
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (32 bp):
TTAATATTGTAGCTAAGGTTTATTTACATTTC
Found at i:30381878 original size:18 final size:18
Alignment explanation
Indices: 30381855--30381891 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30381845 TTTTTATGTG
* *
30381855 TGTTTATTTTTGTTTTTA
1 TGTTTATTTGTGTGTTTA
30381873 TGTTTATTTGTGTGTTTA
1 TGTTTATTTGTGTGTTTA
30381891 T
1 T
30381892 TTTTTTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.16, T:0.73
Consensus pattern (18 bp):
TGTTTATTTGTGTGTTTA
Found at i:30381976 original size:41 final size:42
Alignment explanation
Indices: 30381920--30382003 Score: 127
Period size: 41 Copynumber: 2.0 Consensus size: 42
30381910 AAAAAAAAAA
* *
30381920 TCAAAAATTCCAAAAATATTT-TTCGTTTTTATTTTTAATTTT
1 TCAAAAATTCCAAAAATATTTCTT-GCTTTCATTTTTAATTTT
30381962 TCAAAAA-TCCAAAAATATTTCTTGCTTTCATTTTTAATTTT
1 TCAAAAATTCCAAAAATATTTCTTGCTTTCATTTTTAATTTT
30382003 T
1 T
30382004 GTTATTGCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
41 30 0.77
42 9 0.23
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.52
Consensus pattern (42 bp):
TCAAAAATTCCAAAAATATTTCTTGCTTTCATTTTTAATTTT
Found at i:30393443 original size:19 final size:21
Alignment explanation
Indices: 30393398--30393443 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
30393388 ACGAAAAACC
30393398 AAATTAA-ATTAAATTAATCA
1 AAATTAACATTAAATTAATCA
30393418 AAA-TAACA-TAAATTAAT-A
1 AAATTAACATTAAATTAATCA
30393436 AAATTAAC
1 AAATTAAC
30393444 TAAGACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATTAACATTAAATTAATCA
Found at i:30394854 original size:10 final size:10
Alignment explanation
Indices: 30394836--30394866 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30394826 TTACCTAAAA
*
30394836 TCAAACCATT
1 TCAATCCATT
30394846 TCAATCCATT
1 TCAATCCATT
30394856 TCAATCCATT
1 TCAATCCATT
30394866 T
1 T
30394867 TATGCATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
TCAATCCATT
Found at i:30398564 original size:47 final size:47
Alignment explanation
Indices: 30398486--30398923 Score: 669
Period size: 47 Copynumber: 9.2 Consensus size: 47
30398476 CCCTTCGGGA
* * * * * *
30398486 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
30398533 CCTGTCACATATATACACTTTCACATTCATCATATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
30398580 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30398627 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30398676 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30398723 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30398772 CTTATCGCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30398821 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30398868 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30398915 CTTATCACA
1 CTTATCACA
30398924 ATTTAGAATT
Statistics
Matches: 359, Mismatches: 26, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
47 228 0.64
49 128 0.36
51 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30398681 original size:96 final size:95
Alignment explanation
Indices: 30398486--30398925 Score: 668
Period size: 96 Copynumber: 4.6 Consensus size: 95
30398476 CCCTTCGGGA
** * * * * * * *
30398486 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
* *
30398550 CTTTCACATTCATCATATCGGCCATTAAGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
* *
30398580 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
*
30398645 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
30398676 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
30398741 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
30398772 CTTATCGCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATA
1 CTTAT--CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
30398836 CACTTTCACATTCATCACATCGGCCATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
*
30398868 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAAT
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAAT
30398926 TTAGAATTCA
Statistics
Matches: 321, Mismatches: 20, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
94 94 0.29
95 2 0.01
96 178 0.55
98 47 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (95 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30398797 original size:145 final size:143
Alignment explanation
Indices: 30398491--30398923 Score: 686
Period size: 145 Copynumber: 3.0 Consensus size: 143
30398481 CGGGACTTAT
* * * * * * * *
30398491 CACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
* **
30398556 CATTCATCATATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCA
66 CATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
*
30398621 TTAAGCCTTATCA
131 TTAGGCCTTATCA
* * * *
30398634 CATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
30398699 CATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
66 CATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
*
30398764 CATTAGGCCTTATCG
129 CATTAGGCCTTATCA
30398779 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
*
30398844 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
66 CATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
30398909 TTAGGCCTTATCA
131 TTAGGCCTTATCA
30398922 CA
1 CA
30398924 ATTTAGAATT
Statistics
Matches: 265, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
143 131 0.49
145 134 0.51
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (143 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCA
Found at i:30405229 original size:8 final size:8
Alignment explanation
Indices: 30405218--30405248 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
30405208 TAAATAATGA
30405218 AAATAAAC
1 AAATAAAC
30405226 AAATAAAC
1 AAATAAAC
30405234 AAATAAAC
1 AAATAAAC
30405242 AAATAAA
1 AAATAAA
30405249 ATAAATCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAC
Found at i:30407591 original size:40 final size:40
Alignment explanation
Indices: 30407540--30407816 Score: 473
Period size: 40 Copynumber: 6.9 Consensus size: 40
30407530 ATAACCGCAA
* * * *
30407540 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30407580 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30407620 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30407660 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30407700 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30407740 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30407780 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
30407817 ATGCTCATGC
Statistics
Matches: 223, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:30416144 original size:40 final size:40
Alignment explanation
Indices: 30416030--30416302 Score: 446
Period size: 40 Copynumber: 6.9 Consensus size: 40
30416020 ATAACCGCAA
* * *
30416030 GCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30416069 GCAC-GATG-CTTCGGGTCTTAG-CCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30416106 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30416146 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30416186 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30416226 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30416266 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
30416303 ATGCTCATGC
Statistics
Matches: 217, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
36 4 0.02
37 24 0.11
38 4 0.02
39 17 0.08
40 168 0.77
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:30424529 original size:33 final size:33
Alignment explanation
Indices: 30424451--30424532 Score: 139
Period size: 34 Copynumber: 2.5 Consensus size: 33
30424441 CTCGTGCTAT
30424451 ATATCAACTCGCACAATGCCTTCGTGCTTAGCC
1 ATATCAACTCGCACAATGCCTTCGTGCTTAGCC
30424484 ATAATCAACTCGCACAATGCCTTCG-GTCTTAGCC
1 AT-ATCAACTCGCACAATGCCTTCGTG-CTTAGCC
30424518 ATATCAACTCGCACA
1 ATATCAACTCGCACA
30424533 CCTTGGCTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
33 16 0.34
34 31 0.66
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.26
Consensus pattern (33 bp):
ATATCAACTCGCACAATGCCTTCGTGCTTAGCC
Found at i:30424595 original size:26 final size:26
Alignment explanation
Indices: 30424517--30424588 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
30424507 CGGTCTTAGC
30424517 CATA-TCAACTCGCACACCTT-G-GCTA
1 CATAGTCAACTCGCACA-CTTAGTGC-A
30424542 CATAGTCAACTCGCACACTTAGTGCA
1 CATAGTCAACTCGCACACTTAGTGCA
*
30424568 CATAGTCAATTCGCACACTTA
1 CATAGTCAACTCGCACACTTA
30424589 TCTCACAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 7 0.16
26 34 0.79
27 2 0.05
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (26 bp):
CATAGTCAACTCGCACACTTAGTGCA
Found at i:30432840 original size:40 final size:40
Alignment explanation
Indices: 30432789--30433065 Score: 473
Period size: 40 Copynumber: 6.9 Consensus size: 40
30432779 ATAACCGCAA
* * * *
30432789 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30432829 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30432869 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30432909 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30432949 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30432989 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30433029 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
30433066 ATGCTCATGC
Statistics
Matches: 223, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:30441352 original size:40 final size:40
Alignment explanation
Indices: 30441301--30441577 Score: 473
Period size: 40 Copynumber: 6.9 Consensus size: 40
30441291 ATAACCGCAA
* * * *
30441301 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30441341 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30441381 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30441421 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30441461 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30441501 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30441541 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
30441578 ATGCTCATGC
Statistics
Matches: 223, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:30443848 original size:78 final size:77
Alignment explanation
Indices: 30443719--30443870 Score: 286
Period size: 78 Copynumber: 2.0 Consensus size: 77
30443709 ATATAAGGCT
30443719 CGTGTTAGCCTATTGGGTCATAACACCTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTT
1 CGTGTTAGCCTATTGGGTCATAACACCTATGAAATGTGTTAAAAACACTTATTTTTATTAA-TTT
30443784 CTATCCTAAGTCC
65 CTATCCTAAGTCC
*
30443797 CGTGTTAGCCTATTGGGTCATAACACTTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTC
1 CGTGTTAGCCTATTGGGTCATAACACCTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTC
30443862 TATCCTAAG
66 TATCCTAAG
30443871 GCCTAATTAC
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
77 13 0.18
78 60 0.82
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (77 bp):
CGTGTTAGCCTATTGGGTCATAACACCTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTC
TATCCTAAGTCC
Found at i:30465051 original size:40 final size:39
Alignment explanation
Indices: 30464976--30465080 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 39
30464966 AGGGGTATTG
* * * *
30464976 AAGTACAAATAGGGGACGTATGTGTAATCAGGGGTATCA
1 AAGTACAAATAGGGCACGTATGTGCAACCAAGGGTATCA
* * *
30465015 AAGTACAAGTAGGGTCACGTATGTGCAGCCAAGGGTATCG
1 AAGTACAAATAGGG-CACGTATGTGCAACCAAGGGTATCA
* * *
30465055 AAGTTCAAATAAGGGCAAGCATGTGC
1 AAGTACAAAT-AGGGCACGTATGTGC
30465081 TATAAGGGGT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
39 13 0.25
40 36 0.68
41 4 0.08
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.21
Consensus pattern (39 bp):
AAGTACAAATAGGGCACGTATGTGCAACCAAGGGTATCA
Found at i:30476228 original size:37 final size:37
Alignment explanation
Indices: 30476178--30476256 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30476168 TTATTACGAA
* * *
30476178 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
30476215 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
30476252 GTCTT
1 GTCTT
30476257 TAGAGCTCGA
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:30476452 original size:47 final size:47
Alignment explanation
Indices: 30476374--30476857 Score: 752
Period size: 47 Copynumber: 10.2 Consensus size: 47
30476364 CCCTTCGGGA
* * * * * *
30476374 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30476421 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
30476468 CTTATCACGCATATACACTTTCACATTCATCACATTGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30476515 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30476564 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30476611 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30476660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30476707 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30476755 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30476802 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30476849 CTTATCACA
1 CTTATCACA
30476858 ATTTAGAATT
Statistics
Matches: 402, Mismatches: 30, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
47 271 0.67
48 45 0.11
49 86 0.21
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30476569 original size:96 final size:94
Alignment explanation
Indices: 30476374--30476857 Score: 743
Period size: 96 Copynumber: 5.1 Consensus size: 94
30476364 CCCTTCGGGA
** * * * * * * *
30476374 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
30476439 TTTCACATTCATCACATCGGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
30476468 CTTATCACGCATATACACTTTCACATTCATCACATTGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
30476533 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
30476564 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
30476629 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
30476660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACATATATACA
*
30476725 CTTTCACATTCATCACATCGGCCATTAAGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
30476755 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
30476820 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
30476849 CTTATCACA
1 CTTATCACA
30476858 ATTTAGAATT
Statistics
Matches: 364, Mismatches: 23, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
94 96 0.26
95 88 0.24
96 176 0.48
97 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:30483325 original size:27 final size:28
Alignment explanation
Indices: 30483295--30483377 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
30483285 GGCATAACGG
30483295 TCATTTTACCCCAT-GGGGGTATTTCGA
1 TCATTTTACCCCATCGGGGGTATTTCGA
*
30483322 TCATTTT-CCCCTTCGGGGGGTATTTCGA
1 TCATTTTACCCCATC-GGGGGTATTTCGA
* * * *
30483350 TAATTTTA-CCCTTCGAGGGCATTTCGA
1 TCATTTTACCCCATCGGGGGTATTTCGA
30483377 T
1 T
30483378 AGTTTAACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.10
27 19 0.39
28 25 0.51
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (28 bp):
TCATTTTACCCCATCGGGGGTATTTCGA
Found at i:30483348 original size:28 final size:27
Alignment explanation
Indices: 30483309--30483378 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 27
30483299 TTTACCCCAT
* *
30483309 GGGGGTATTTCGATCATTTTCCCCTTC
1 GGGGGTATTTCGATAATTTTACCCTTC
30483336 GGGGGGTATTTCGATAATTTTACCCTTC
1 -GGGGGTATTTCGATAATTTTACCCTTC
* *
30483364 GAGGGCATTTCGATA
1 GGGGGTATTTCGATA
30483379 GTTTAACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 13 0.34
28 25 0.66
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (27 bp):
GGGGGTATTTCGATAATTTTACCCTTC
Found at i:30489535 original size:24 final size:24
Alignment explanation
Indices: 30489508--30489557 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
30489498 ATTTGTGAAA
**
30489508 TTGTT-AATTTTGAATTCTGTTTTT
1 TTGTTAAATTTT-AATTCCATTTTT
30489532 TTGTTAAATTTTAATTCCATTTTT
1 TTGTTAAATTTTAATTCCATTTTT
30489556 TT
1 TT
30489558 CTGTTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.66
Consensus pattern (24 bp):
TTGTTAAATTTTAATTCCATTTTT
Found at i:30491280 original size:16 final size:17
Alignment explanation
Indices: 30491253--30491287 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
30491243 TAAGAGTTGA
30491253 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
30491270 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
30491286 GA
1 GA
30491288 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:30499936 original size:80 final size:79
Alignment explanation
Indices: 30499724--30499945 Score: 329
Period size: 80 Copynumber: 2.8 Consensus size: 79
30499714 GTGTGCACGA
*
30499724 GCAA-TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGA
1 GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGATATATCC-GGCTAAAA
30499788 CCCGAAGGCATTTGT
65 CCCGAAGGCATTTGT
*
30499803 GCGAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGATATATCCAGGCTAAAA
1 GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGATATATCC-GGCTAAAA
30499868 CCCGAAGGCATTTGT
65 CCCGAAGGCATTTGT
* * * * ** * *
30499883 GCAAGTTGATATATCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGGCTAAA
1 GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGATATATCCGGCTAAA
30499946 TTCCGAAGAA
Statistics
Matches: 130, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
79 10 0.08
80 120 0.92
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (79 bp):
GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGATATATCCGGCTAAAAC
CCGAAGGCATTTGT
Found at i:30499940 original size:40 final size:40
Alignment explanation
Indices: 30499728--30499917 Score: 335
Period size: 40 Copynumber: 4.8 Consensus size: 40
30499718 GCACGAGCAA
30499728 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
*
30499768 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
30499808 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
* *
30499848 TTGATATATCCAGGCTAAAACCCGAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
* *
30499888 TTGATATATCCGGGTTAAGACCCGAAGGCA
1 TTGATATATCCGGGCTAAAACCCGAAGGCA
30499918 ATTGAGCTTG
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
Found at i:30508023 original size:40 final size:40
Alignment explanation
Indices: 30507807--30508000 Score: 336
Period size: 40 Copynumber: 4.9 Consensus size: 40
30507797 GTGTGCACGA
30507807 GCAA-TTGATATATCCGGGCTAAAACCCGAAGGCATTTGT
1 GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGT
* *
30507846 GCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGT
30507886 GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGT
1 GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGT
*
30507926 GCGAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGT
1 GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGT
* *
30507966 GCAAGTTGATATATCCGGGTTAAGACCCGAAGGCA
1 GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCA
30508001 ATTGAGCTTG
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 3 0.02
40 143 0.98
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
GCAAGTTGATATATCCGGGCTAAAACCCGAAGGCATTTGT
Found at i:30512502 original size:16 final size:17
Alignment explanation
Indices: 30512475--30512509 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
30512465 AAAGAGTTGA
30512475 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
30512492 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
30512508 GA
1 GA
30512510 TTTAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:30520651 original size:38 final size:39
Alignment explanation
Indices: 30520590--30520664 Score: 134
Period size: 38 Copynumber: 1.9 Consensus size: 39
30520580 GGCATGGTGG
30520590 GGGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGATT
1 GGGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGATT
*
30520629 GGGA-TGTTTGAGTGATTTTAGGAGGAAAATATGGGA
1 GGGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGA
30520665 CTGTAGAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 31 0.89
39 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (39 bp):
GGGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGATT
Found at i:30533950 original size:40 final size:40
Alignment explanation
Indices: 30533913--30534096 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
30533903 GCTACTCGTT
*
30533913 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
30533953 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
30533993 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
30534032 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30534073 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
30534097 GCATCATTCA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30534024 original size:79 final size:81
Alignment explanation
Indices: 30533913--30534095 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
30533903 GCTACTCGTT
* ** *
30533913 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
30533977 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
30533993 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
30534056 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
30534073 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
30534096 GGCATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 53 0.60
80 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:30547958 original size:12 final size:12
Alignment explanation
Indices: 30547941--30547965 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30547931 TTTCGTTTTA
30547941 AAATTTAAAATT
1 AAATTTAAAATT
30547953 AAATTTAAAATT
1 AAATTTAAAATT
30547965 A
1 A
30547966 CCTCTGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTTAAAATT
Found at i:30555353 original size:35 final size:35
Alignment explanation
Indices: 30555263--30555354 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 35
30555253 GACGTACCTT
* *
30555263 ATGTTTACTGTCCCAGTGAAC-T-ATCTCTGTTCC
1 ATGTTTACTGTCCCAGTGGACTTCATCTCTATTCC
* ** * *
30555296 ATGCTTACTGTCCTGGTAGACTTCATCTCTATTTC
1 ATGTTTACTGTCCCAGTGGACTTCATCTCTATTCC
30555331 ATGTTTACTGTCCCAGTGGACTTC
1 ATGTTTACTGTCCCAGTGGACTTC
30555355 TCTGTTTCAT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
33 16 0.35
34 1 0.02
35 29 0.63
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.40
Consensus pattern (35 bp):
ATGTTTACTGTCCCAGTGGACTTCATCTCTATTCC
Found at i:30560193 original size:9 final size:9
Alignment explanation
Indices: 30560164--30560193 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
30560154 TGAACTTTAA
30560164 AATTCGAAT
1 AATTCGAAT
*
30560173 AACTCGAAT
1 AATTCGAAT
30560182 AATTCGAAT
1 AATTCGAAT
30560191 AAT
1 AAT
30560194 AGATTGGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30560323 original size:19 final size:20
Alignment explanation
Indices: 30560275--30560327 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
30560265 TTACAAAAAA
30560275 AAAGATTCAAAATAATTTTC
1 AAAGATTCAAAATAATTTTC
*
30560295 AAAAATTCAAAATAATTTT-
1 AAAGATTCAAAATAATTTTC
*
30560314 TAAGATTCAAAATA
1 AAAGATTCAAAATA
30560328 TTTATAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (20 bp):
AAAGATTCAAAATAATTTTC
Found at i:30560613 original size:23 final size:23
Alignment explanation
Indices: 30560569--30560614 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30560559 TATTGTAAGC
* ***
30560569 TTTTAATTTGACATGCTTAATTT
1 TTTTAATTTAACATGAAAAATTT
30560592 TTTTAATTTAACATGAAAAATTT
1 TTTTAATTTAACATGAAAAATTT
30560615 CACTCGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (23 bp):
TTTTAATTTAACATGAAAAATTT
Done.