Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 67 of 173
Found at i:20003097 original size:40 final size:40
Alignment explanation
Indices: 20003038--20003220 Score: 285
Period size: 40 Copynumber: 4.6 Consensus size: 40
20003028 ATTTGAATAC
*
20003038 ATCCGGGCTAAGACTCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
**
20003078 ATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
20003118 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
20003158 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
20003198 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
20003221 ATTGAGCTTG
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:20003239 original size:80 final size:80
Alignment explanation
Indices: 20003040--20003247 Score: 283
Period size: 80 Copynumber: 2.6 Consensus size: 80
20003030 TTGAATACAT
* * * * *
20003040 CCGGGCTAAGACTCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTAAGACCCGAAGGCATTCG
* *
20003105 TGTGAGTTGATATAT
66 TGCGAGTTGATATAC
* *
20003120 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTAAGACCCGAAGGCATTCG
*
20003185 TGCGAGTTGCTATAC
66 TGCGAGTTGATATAC
* ** *
20003200 CCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTAA
20003248 ATTCCAAAGA
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 6 0.05
80 110 0.95
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTGATATAC
Found at i:20006085 original size:40 final size:40
Alignment explanation
Indices: 20006002--20006264 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
20005992 TTGAATGCTG
* * * * * *
20006002 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
20006042 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
20006082 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
20006122 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
20006162 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
20006202 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
20006241 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20006265 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:20006284 original size:79 final size:80
Alignment explanation
Indices: 20006041--20006298 Score: 229
Period size: 80 Copynumber: 3.3 Consensus size: 80
20006031 AAGTGAATAT
* * * * * * *
20006041 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
20006105 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
20006121 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
20006186 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
20006201 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
20006265 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
20006280 ATCC-GGTTAAAT-CCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
20006299 TACGTGATTT
Statistics
Matches: 153, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
77 7 0.05
78 6 0.04
79 47 0.31
80 93 0.61
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:20026063 original size:480 final size:480
Alignment explanation
Indices: 20025162--20026113 Score: 1589
Period size: 480 Copynumber: 2.0 Consensus size: 480
20025152 CATCTAACAT
20025162 AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTACAAATTCAATTT
1 AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTACAAATTCAATTT
*
20025227 CCGGTGAAACTGGAATTTCAACACTCGGTTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
66 CCAGTGAAACTGGAATTTCAACACTCGGTTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
* * *
20025292 TTCTCAACTTTGATGGAATTGGGCTCTAAATTCTTTCCACTCCTTAATATTAACGCTTTACAATG
131 TTCTCAACTTTGATGGAATTGGGCTCTAAAGTCTTTCCACTCCTCAATATTAACGCTTTACAATA
* *
20025357 CTCCTTCCCTGGATTCCTCAAATTCTCCGTATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTGA
196 CTCCTTCCCTAGATTCCTCAAATTCTCCATATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTGA
* * * *
20025422 GTTTAGTTGCAAGCTGGCCCACTTGATTCTCCAATTTCCTTAAATAAGTATCATTTCTCGCCATG
261 GTTCAGTTGCAAGCTGGCCCACTTGATTCTCCAAATTCCTTAAAGAAGTATCATTTCTAGCCATG
* * * *
20025487 TATTCCTTCAATAGATTCTCTAGGCTATTGTATGGTTCAACTTGGGTTGGTTTTTGAGCTTGTTG
326 TATGCCTTCAACAGATTCTCTAGGCTATTGGATGGTTCAACTTGGGTTGGTTTCTGAGCTTGTTG
* * * * * *
20025552 GGAAAAACTATGTGGCTGGGTCGATCTAGGTTGGACTTAATTGTTACTGATTTCTACGGTTATTC
391 GGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGATTCCTACGGTTACTC
* *
20025617 TAGGAAAAATTCTGGTGTTTAACGC
456 CAGGAAAAATTCGGGTGTTTAACGC
* *
20025642 AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTATAGATTCAATTT
1 AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTACAAATTCAATTT
* * *
20025707 CCAGTGTAACTGGAATTTCAACACTCGGTTGAACTTCCTCTTATTCTTGAGCGTCAGCTAGCTCC
66 CCAGTGAAACTGGAATTTCAACACTCGGTTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
** *
20025772 TTCTCAACTTTGATGGAATTGGGCTCTAAAGTCTTTCTGCTCCTCAATGTTAACGCTTTACAATA
131 TTCTCAACTTTGATGGAATTGGGCTCTAAAGTCTTTCCACTCCTCAATATTAACGCTTTACAATA
*
20025837 CTCTTTCCCTAGATTCCTCAAATTCTCCATATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTGA
196 CTCCTTCCCTAGATTCCTCAAATTCTCCATATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTGA
* *
20025902 GTTCAGTTGCATGCTGGCCCACTTGATTCTCCAAATTCCTTAGAGAAGTATCATTTCTAGCCATG
261 GTTCAGTTGCAAGCTGGCCCACTTGATTCTCCAAATTCCTTAAAGAAGTATCATTTCTAGCCATG
20025967 TATGCCTTCAACAGATTCTCTAGGCTATTGGATGGTTCAACTTGGGTTGGTTTCTGAGCTTGTTG
326 TATGCCTTCAACAGATTCTCTAGGCTATTGGATGGTTCAACTTGGGTTGGTTTCTGAGCTTGTTG
* *
20026032 GGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGGTTCCTGCGGTTACTC
391 GGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGATTCCTACGGTTACTC
20026097 CAGGAAAAATTCGGGTG
456 CAGGAAAAATTCGGGTG
20026114 GTTTCGCCAT
Statistics
Matches: 437, Mismatches: 35, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
480 437 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (480 bp):
AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTACAAATTCAATTT
CCAGTGAAACTGGAATTTCAACACTCGGTTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
TTCTCAACTTTGATGGAATTGGGCTCTAAAGTCTTTCCACTCCTCAATATTAACGCTTTACAATA
CTCCTTCCCTAGATTCCTCAAATTCTCCATATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTGA
GTTCAGTTGCAAGCTGGCCCACTTGATTCTCCAAATTCCTTAAAGAAGTATCATTTCTAGCCATG
TATGCCTTCAACAGATTCTCTAGGCTATTGGATGGTTCAACTTGGGTTGGTTTCTGAGCTTGTTG
GGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGATTCCTACGGTTACTC
CAGGAAAAATTCGGGTGTTTAACGC
Found at i:20034858 original size:67 final size:66
Alignment explanation
Indices: 20034729--20034874 Score: 175
Period size: 67 Copynumber: 2.2 Consensus size: 66
20034719 ACGGCTTGGC
* * * * * * *
20034729 ACACGGACATGTGGCTTGGGGTGAGACCTAAGTCAAAGAGTTACATGGGAACGAATGGGGGCTGG
1 ACACGGCCGTGTGGCTTGGCGTGAGACCCAAGTCAAAGAGTAACATGGGAACGAACGCGGGCTGG
20034794 G
66 G
* * * *
20034795 ACATGGCCGTGTGGCTTGGCCGTGTGACCCAAGTCAAAGAGTAACATGGGCACGGACGCGGGCTG
1 ACACGGCCGTGTGGCTTGG-CGTGAGACCCAAGTCAAAGAGTAACATGGGAACGAACGCGGGCTG
20034860 GG
65 GG
*
20034862 GCACGGCCGTGTG
1 ACACGGCCGTGTG
20034875 TCCCTACTTC
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
66 16 0.24
67 50 0.76
ACGTcount: A:0.23, C:0.21, G:0.40, T:0.17
Consensus pattern (66 bp):
ACACGGCCGTGTGGCTTGGCGTGAGACCCAAGTCAAAGAGTAACATGGGAACGAACGCGGGCTGG
G
Found at i:20038161 original size:20 final size:20
Alignment explanation
Indices: 20038110--20038163 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
20038100 AATTATTTTT
* **
20038110 ATAATTTAGTTTTATTTTTA
1 ATAATTTATTTTTAACTTTA
* *
20038130 TTTATTTAATTTTTAACTTTA
1 ATAATTT-ATTTTTAACTTTA
20038151 ATAATTTATTTTT
1 ATAATTTATTTTT
20038164 TATGTGTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
ATAATTTATTTTTAACTTTA
Found at i:20055991 original size:77 final size:76
Alignment explanation
Indices: 20055864--20056076 Score: 302
Period size: 75 Copynumber: 2.8 Consensus size: 76
20055854 TATCCGTTAC
* * *
20055864 CGGTGGATTCAGCACTTAGCAACCATCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTTCA
20055929 CATTCAAAAATA
66 CATT-AAAAATA
* * *
20055941 CGGTGGAATCAACACTTAGCAACCACCAATGAATCAGGGAATCAACACTTAGCAACCCC-TTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTTCA
* *
20056005 CATTTAAGATA
66 CATTAAAAATA
* * * *
20056016 CGATGGGATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGTACTTAGAAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTT
20056077 AGGGGAATTA
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
75 57 0.47
76 10 0.08
77 53 0.44
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTTCA
CATTAAAAATA
Found at i:20063901 original size:25 final size:25
Alignment explanation
Indices: 20063873--20063922 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
20063863 CAAAAGGGGG
*
20063873 TAAGGCATTTCGCATGAATTTTTAA
1 TAAGACATTTCGCATGAATTTTTAA
20063898 TAAGACATTTCGCATGAATTTTTAA
1 TAAGACATTTCGCATGAATTTTTAA
20063923 AGTATGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (25 bp):
TAAGACATTTCGCATGAATTTTTAA
Found at i:20068088 original size:43 final size:43
Alignment explanation
Indices: 20068021--20068175 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 43
20068011 AAATTCAGTG
* ** *
20068021 ATACGG-GGAATCAACACAGAGCAACCCCTTTCACAGTAAAAA
1 ATACGGTGGAATCAGCACTTAGCAACCCCTTTCACAATAAAAA
* * * * **
20068063 ATACGGTGGATTCAGCACTTAGCAACCACCTTT-ATATTTAGTA
1 ATACGGTGGAATCAGCACTTAGCAACC-CCTTTCACAATAAAAA
* * * * *
20068106 ATACAG-GGAATCAGCACATAACAACCCCTTTCACAATCAAAG
1 ATACGGTGGAATCAGCACTTAGCAACCCCTTTCACAATAAAAA
*
20068148 ATATGGTGGAATCAGCACTTAGCAACCC
1 ATACGGTGGAATCAGCACTTAGCAACCC
20068176 TTTTTTATTC
Statistics
Matches: 86, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
41 5 0.06
42 31 0.36
43 45 0.52
44 5 0.06
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.21
Consensus pattern (43 bp):
ATACGGTGGAATCAGCACTTAGCAACCCCTTTCACAATAAAAA
Found at i:20068156 original size:85 final size:84
Alignment explanation
Indices: 20067982--20068174 Score: 260
Period size: 85 Copynumber: 2.3 Consensus size: 84
20067972 ATCCGTTACT
* * * *
20067982 CGGTGAATTCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAACACAGAGCAACC
1 CGGTGGATTCAGCACTTAGCAACCACCTTAAATTCAGTAATACAGGGAATCAACACAGAACAACC
*
20068047 CCTTTCACAGTAAAAAATA
66 CCTTTCACAATAAAAAATA
* * * *
20068066 CGGTGGATTCAGCACTTAGCAACCACCTTTATATTTAGTAATACAGGGAATCAGCACATAACAAC
1 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTAATACAGGGAATCAACACAGAACAAC
* *
20068131 CCCTTTCACAATCAAAGATA
65 CCCTTTCACAATAAAAAATA
* *
20068151 TGGTGGAATCAGCACTTAGCAACC
1 CGGTGGATTCAGCACTTAGCAACC
20068175 CTTTTTTATT
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 26 0.27
85 69 0.73
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (84 bp):
CGGTGGATTCAGCACTTAGCAACCACCTTAAATTCAGTAATACAGGGAATCAACACAGAACAACC
CCTTTCACAATAAAAAATA
Found at i:20069262 original size:13 final size:12
Alignment explanation
Indices: 20069244--20069324 Score: 51
Period size: 11 Copynumber: 6.8 Consensus size: 12
20069234 GCCCAAACGT
20069244 CGAAATTTTAGAA
1 CGAAATTTTA-AA
*
20069257 CGAAATTTT-TA
1 CGAAATTTTAAA
* *
20069268 TGAAACTTTAGAA
1 CGAAATTTTA-AA
* *
20069281 CAAAATTTT-CA
1 CGAAATTTTAAA
20069292 CGAAATTTTAGAA
1 CGAAATTTTA-AA
* *
20069305 TGAAA-TTTACA
1 CGAAATTTTAAA
20069316 CGAAATTTT
1 CGAAATTTT
20069325 TATGGGATTT
Statistics
Matches: 50, Mismatches: 13, Indels: 11
0.68 0.18 0.15
Matches are distributed among these distances:
11 22 0.44
12 7 0.14
13 21 0.42
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (12 bp):
CGAAATTTTAAA
Found at i:20069277 original size:24 final size:24
Alignment explanation
Indices: 20069244--20069324 Score: 108
Period size: 24 Copynumber: 3.4 Consensus size: 24
20069234 GCCCAAACGT
*
20069244 CGAAATTTTAGAACGAAATTTTTA
1 CGAAATTTTAGAACGAAATTTTCA
* * *
20069268 TGAAACTTTAGAACAAAATTTTCA
1 CGAAATTTTAGAACGAAATTTTCA
* *
20069292 CGAAATTTTAGAATGAAATTTACA
1 CGAAATTTTAGAACGAAATTTTCA
20069316 CGAAATTTT
1 CGAAATTTT
20069325 TATGGGATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (24 bp):
CGAAATTTTAGAACGAAATTTTCA
Found at i:20074248 original size:20 final size:20
Alignment explanation
Indices: 20074223--20074274 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
20074213 AACCTTATGC
20074223 TAAGTAAATGGAATACAAAG
1 TAAGTAAATGGAATACAAAG
* **
20074243 TAAGTAAATGGGATGGAAAG
1 TAAGTAAATGGAATACAAAG
20074263 TAAGTAAATGGA
1 TAAGTAAATGGA
20074275 TTTGCTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.02, G:0.27, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATACAAAG
Found at i:20087486 original size:12 final size:11
Alignment explanation
Indices: 20087459--20087496 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
20087449 GAAAATAGTC
20087459 AAAATTAATA-
1 AAAATTAATAT
20087469 AAAATTAACTAT
1 AAAATTAA-TAT
20087481 AAAATTAAT-T
1 AAAATTAATAT
20087491 AAAATT
1 AAAATT
20087497 CATCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:20094564 original size:15 final size:15
Alignment explanation
Indices: 20094540--20094569 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20094530 TTCTCGGTTC
*
20094540 ACTAATCCAATTTTT
1 ACTAACCCAATTTTT
20094555 ACTAACCCAATTTTT
1 ACTAACCCAATTTTT
20094570 GGGATGTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
ACTAACCCAATTTTT
Found at i:20097411 original size:47 final size:47
Alignment explanation
Indices: 20097346--20097451 Score: 151
Period size: 47 Copynumber: 2.3 Consensus size: 47
20097336 GTCACAAAAA
* * *
20097346 TGCAGATAATCTGTCACTTAAGA-ATATTGTGGACAAGCCACCATTTT
1 TGCAGATAAACTGGCACTTAAGACA-ATTGTGGACAAGCCACCACTTT
* *
20097393 TGTAGATAAACTGGCACTTAATACAATTGTGGACAAGCCACCACTTT
1 TGCAGATAAACTGGCACTTAAGACAATTGTGGACAAGCCACCACTTT
20097440 TGCAGATAAACT
1 TGCAGATAAACT
20097452 ACCACTTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 51 0.98
48 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (47 bp):
TGCAGATAAACTGGCACTTAAGACAATTGTGGACAAGCCACCACTTT
Found at i:20097529 original size:20 final size:20
Alignment explanation
Indices: 20097504--20097543 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20097494 ATGTGGCCAA
20097504 AAAAAT-AACATTTTCACTTT
1 AAAAATCAA-ATTTTCACTTT
20097524 AAAAATCAAATTTTCACTTT
1 AAAAATCAAATTTTCACTTT
20097544 GTCATGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATCAAATTTTCACTTT
Found at i:20098609 original size:24 final size:24
Alignment explanation
Indices: 20098561--20098607 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
20098551 ACTGGTCATA
*
20098561 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
20098585 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
20098608 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:20099305 original size:27 final size:26
Alignment explanation
Indices: 20099262--20099532 Score: 283
Period size: 27 Copynumber: 10.1 Consensus size: 26
20099252 CAATATCTTC
*
20099262 ACCGAAATACCCTCATAGAGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
* * *
20099289 ACCGAAATACCTCCATAGGTTATAATT
1 ACCGAAATACC-CCATAGGGTAAAATG
20099316 ACCGAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
**
20099343 ATTGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
**
20099370 ACTAAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
** *
20099397 ACTAAAAT-CCCTTATAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
*
20099423 ACTGAAATACCCCTATAGGGTAAAATG
1 ACCGAAATACCCC-ATAGGGTAAAATG
**
20099450 ACTAAAATACCCCCATAGGGTAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
* *
20099477 ATCGAAATACCCCCATAGGGTAAAATA
1 ACCGAAATA-CCCCATAGGGTAAAATG
* *
20099504 ATCGAAATACCCCCATAAGGTAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
20099531 AC
1 AC
20099533 TGTAATTGAT
Statistics
Matches: 215, Mismatches: 22, Indels: 14
0.86 0.09 0.06
Matches are distributed among these distances:
26 28 0.13
27 179 0.83
28 8 0.04
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (26 bp):
ACCGAAATACCCCATAGGGTAAAATG
Found at i:20099350 original size:54 final size:54
Alignment explanation
Indices: 20099262--20099532 Score: 341
Period size: 54 Copynumber: 5.0 Consensus size: 54
20099252 CAATATCTTC
* * * * * *
20099262 ACCGAAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGTTATAATT
1 ACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
*
20099316 ACCGAAATACCCTCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
** * **
20099370 ACTAAAATACCCTCATAGGGTAAAATGACTAAAAT-CCCTTATAGGGTAAAATG
1 ACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
* *
20099423 ACTGAAATACCC-CTATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCTC-ATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
* * * *
20099477 ATCGAAATACCCCCATAGGGTAAAAT-AATCGAAATACCCCCATAAGGTAAAATG
1 ACCGAAATACCCTCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATG
20099531 AC
1 AC
20099533 TGTAATTGAT
Statistics
Matches: 191, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 50 0.26
54 139 0.73
55 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (54 bp):
ACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
Found at i:20099458 original size:107 final size:108
Alignment explanation
Indices: 20099266--20099532 Score: 333
Period size: 107 Copynumber: 2.5 Consensus size: 108
20099256 ATCTTCACCG
* * * * *
20099266 AAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGTTATAATTACCGAAATACCCTCA
1 AAATACCCTCATAGGGTAAAATGACCAAAATACCTCCATAGGGTAAAATGACCGAAATACCCTCA
* *
20099331 TAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGA-CTA
66 TAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGATC-A
* * * *
20099374 AAATACCCTCATAGGGTAAAATGACTAAAATCCCT-TATAGGGTAAAATGACTGAAATACCC-CT
1 AAATACCCTCATAGGGTAAAATGACCAAAATACCTCCATAGGGTAAAATGACCGAAATACCCTC-
*
20099437 ATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGATCG
65 ATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGATCA
* * * * * *
20099481 AAATACCCCCATAGGGTAAAATAATCGAAATACCCCCATAAGGTAAAATGAC
1 AAATACCCTCATAGGGTAAAATGACCAAAATACCTCCATAGGGTAAAATGAC
20099533 TGTAATTGAT
Statistics
Matches: 135, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
106 1 0.01
107 88 0.65
108 46 0.34
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (108 bp):
AAATACCCTCATAGGGTAAAATGACCAAAATACCTCCATAGGGTAAAATGACCGAAATACCCTCA
TAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGATCA
Found at i:20099526 original size:134 final size:135
Alignment explanation
Indices: 20099266--20099533 Score: 371
Period size: 134 Copynumber: 2.0 Consensus size: 135
20099256 ATCTTCACCG
* * * * *
20099266 AAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGTTATAATTACCGAAATACCCTCA
1 AAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGGTAAAATGACCAAAATACCCCCA
* * * *
20099331 TAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACTAAAATACCCTCATAGGGTAAAAT
66 TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTAAAATACCCCCATAAGGTAAAAT
20099396 GACTA
131 GACTA
* * * *
20099401 AAAT-CCCTTATAGGGTAAAATGACTGAAATACC-CCTATAGGGTAAAATGACTAAAATACCCCC
1 AAATACCCTCATAGAGTAAAATGACCGAAATACCTCC-ATAGGGTAAAATGACCAAAATACCCCC
*
20099464 ATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAA-TCGAAATACCCCCATAAGGTAAA
65 ATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACT-AAAATACCCCCATAAGGTAAA
20099528 ATGACT
129 ATGACT
20099534 GTAATTGATA
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
133 3 0.03
134 110 0.94
135 4 0.03
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (135 bp):
AAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGGTAAAATGACCAAAATACCCCCA
TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTAAAATACCCCCATAAGGTAAAAT
GACTA
Found at i:20100148 original size:42 final size:42
Alignment explanation
Indices: 20100047--20100129 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
20100037 AATATGTGTG
*
20100047 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
20100089 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
20100130 CTTTGAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (42 bp):
AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
Found at i:20101149 original size:26 final size:26
Alignment explanation
Indices: 20101120--20101193 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
20101110 CATATACTGT
*
20101120 TACTGGTAGCTTTGCTACGATACTAA
1 TACTGGAAGCTTTGCTACGATACTAA
* * * * *
20101146 TACTAGAAGCTCTACTACGATGCTAT
1 TACTGGAAGCTTTGCTACGATACTAA
* *
20101172 TACTGGCAGCTTTGCTGCGATA
1 TACTGGAAGCTTTGCTACGATA
20101194 TTGGTGTGTT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (26 bp):
TACTGGAAGCTTTGCTACGATACTAA
Found at i:20101313 original size:28 final size:29
Alignment explanation
Indices: 20101273--20101473 Score: 256
Period size: 28 Copynumber: 7.2 Consensus size: 29
20101263 TTATTACACT
* *
20101273 ACACTG-TTACTGTATTTGACTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
20101301 ACACTGATT-CTGTATTGGGCTAAGGCCT
1 ACACTGATTACTGTATTGGGCTAAGGCCC
20101329 ACACT-ATTACTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
20101357 ACACT-ATTACTGTATTAGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
* * **
20101385 ACACTAATT-CTGTATTGGACTAAGGCTT
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
20101413 ACACT-ATTACTGTATTGGGCTATGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
20101441 ACACTG-TTACTATATTGGG-TAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
20101468 ACACTG
1 ACACTG
20101474 TACTGTCACT
Statistics
Matches: 153, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
27 19 0.12
28 129 0.84
29 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (29 bp):
ACACTGATTACTGTATTGGGCTAAGGCCC
Found at i:20101372 original size:84 final size:84
Alignment explanation
Indices: 20101273--20101473 Score: 314
Period size: 84 Copynumber: 2.4 Consensus size: 84
20101263 TTATTACACT
* *
20101273 ACACTGTTACTGTATTTGACTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCTACACTATTA
1 ACACTGTTACTGTATTTGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGGCCTACACTATTA
20101338 CTGTATTGGGCTAAGGCCC
66 CTGTATTGGGCTAAGGCCC
* * * *
20101357 ACACTATTACTGTATTAGGCTAAGGCCCACACTAATTCTGTATTGGACTAAGGCTTACACTATTA
1 ACACTGTTACTGTATTTGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGGCCTACACTATTA
*
20101422 CTGTATTGGGCTATGGCCC
66 CTGTATTGGGCTAAGGCCC
* *
20101441 ACACTGTTACTATA-TTGGGTAAGGCCCACACTG
1 ACACTGTTACTGTATTTGGCTAAGGCCCACACTG
20101474 TACTGTCACT
Statistics
Matches: 105, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 16 0.15
84 89 0.85
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (84 bp):
ACACTGTTACTGTATTTGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGGCCTACACTATTA
CTGTATTGGGCTAAGGCCC
Found at i:20106067 original size:49 final size:48
Alignment explanation
Indices: 20105974--20106068 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
20105964 GAATGGTGGA
* * *
20105974 ATTTTGTGGTAGTTTATCTTCACTAATGTGACACTATTCACAATTTTG
1 ATTTTGTGGTAGTATATCTGCAATAATGTGACACTATTCACAATTTTG
**
20106022 ATTTTGTGGTAGTATATCTGCAATTTTGGTGACACTATTCACAATTT
1 ATTTTGTGGTAGTATATCTGCAATAAT-GTGACACTATTCACAATTT
20106069 GGTGTGTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 22 0.54
49 19 0.46
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (48 bp):
ATTTTGTGGTAGTATATCTGCAATAATGTGACACTATTCACAATTTTG
Found at i:20135889 original size:11 final size:10
Alignment explanation
Indices: 20135849--20135904 Score: 51
Period size: 11 Copynumber: 5.4 Consensus size: 10
20135839 ATTCCTTCAT
20135849 TCATCATTCC
1 TCATCATTCC
* *
20135859 TCAAGCATCCC
1 TC-ATCATTCC
20135870 TCAATCATTCC
1 TC-ATCATTCC
20135881 TCATCCATT-C
1 TCAT-CATTCC
*
20135891 TCATCATTCA
1 TCATCATTCC
20135901 TCAT
1 TCAT
20135905 TCTCTCTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 4 0.11
10 13 0.34
11 21 0.55
ACGTcount: A:0.25, C:0.38, G:0.02, T:0.36
Consensus pattern (10 bp):
TCATCATTCC
Found at i:20139257 original size:40 final size:40
Alignment explanation
Indices: 20139175--20139398 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
20139165 AGCTCTCGTT
* *
20139175 CAAATGCCTTCGGGACAT-AGCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
20139214 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
20139254 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
20139294 CCAATTCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * ** * * * *
20139333 CGAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
20139374 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
20139399 CTCATTCAAA
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 48 0.30
40 96 0.61
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20139269 original size:79 final size:79
Alignment explanation
Indices: 20139175--20139391 Score: 235
Period size: 79 Copynumber: 2.7 Consensus size: 79
20139165 AGCTCTCGTT
*
20139175 CAAATGCCTTCGGGACATAGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
1 CAAATGCCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
*
20139240 TTTAGTAACTCGCA
66 ATTAGTAACTCGCA
* * * * *
20139254 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATTCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTT-AGCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
*
20139317 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * * *
20139333 CGAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGA-CTTAG-CCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
20139392 GCCCGGACTC
Statistics
Matches: 114, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
78 5 0.04
79 67 0.59
80 40 0.35
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
ATTAGTAACTCGCA
Found at i:20146849 original size:39 final size:39
Alignment explanation
Indices: 20146779--20146933 Score: 192
Period size: 39 Copynumber: 4.0 Consensus size: 39
20146769 GCTCCTCGTT
* *
20146779 CAAATGCCTTCGGGACATAGCCCG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGATT-TAGTAACTCGCA
20146818 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
20146857 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
* * * * * *
20146896 CCAAT-CTTTCGGG-CTTAGCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
20146933 C
1 C
20146934 GATACCTTCG
Statistics
Matches: 105, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
37 15 0.14
38 21 0.20
39 67 0.64
40 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
Found at i:20146958 original size:76 final size:78
Alignment explanation
Indices: 20146806--20146950 Score: 188
Period size: 76 Copynumber: 1.9 Consensus size: 78
20146796 TAGCCCGTTA
* *
20146806 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACAAATGCCTTCGGA
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTAGTAACTCGCACAAATACCTTCGGA
20146871 CTTAACCCGGATT
66 CTTAACCCGGATT
* * * * * *
20146884 TAGTAACTCGCACCAAT-CTTTCGGG-CTTAGCCGGAATTAGTATCTCGCAC-GATACCTTCGGA
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTAGTAACTCGCACAAATACCTTCGGA
20146946 TCTTA
66 -CTTA
20146951 GTCCGGATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
75 10 0.17
76 25 0.43
77 7 0.12
78 16 0.28
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (78 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTAGTAACTCGCACAAATACCTTCGGA
CTTAACCCGGATT
Found at i:20160125 original size:3 final size:3
Alignment explanation
Indices: 20160117--20160144 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
20160107 GATCCCAAAA
20160117 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
20160145 TCCCATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20167763 original size:50 final size:50
Alignment explanation
Indices: 20167638--20167872 Score: 273
Period size: 50 Copynumber: 4.7 Consensus size: 50
20167628 GATAATAACA
* * * * *
20167638 TGCCAAAGCCATGTCCCAAACATGGTCTTACAT-GGA-TGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCT-CGG
* * * *
20167686 TGCCAATC-CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAA-CGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* * ** *
20167736 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
20167786 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
*
20167836 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
20167873 TCTCTTTACC
Statistics
Matches: 159, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
48 29 0.18
49 8 0.05
50 122 0.77
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
Found at i:20186028 original size:24 final size:24
Alignment explanation
Indices: 20185987--20186037 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
20185977 GAGGAATAAT
*
20185987 TGGTTGCTTCATCCACAACCTACA
1 TGGTTGCTTCATCAACAACCTACA
* * *
20186011 TGGTTGTTTCGTCAACAACTTACA
1 TGGTTGCTTCATCAACAACCTACA
20186035 TGG
1 TGG
20186038 CAGCTTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (24 bp):
TGGTTGCTTCATCAACAACCTACA
Found at i:20210986 original size:24 final size:24
Alignment explanation
Indices: 20210954--20211003 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
20210944 GAGGAAGAAT
*
20210954 TGGTGGCTTCATCCACAACCTACA
1 TGGTAGCTTCATCCACAACCTACA
*
20210978 TGGTAGCTTCGTCCACAACCTACA
1 TGGTAGCTTCATCCACAACCTACA
20211002 TG
1 TG
20211004 ACAGCTTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (24 bp):
TGGTAGCTTCATCCACAACCTACA
Found at i:20211009 original size:24 final size:24
Alignment explanation
Indices: 20210959--20211010 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20210949 AGAATTGGTG
**
20210959 GCTTCATCCACAACCTACATGGTA
1 GCTTCATCCACAACCTACATGACA
*
20210983 GCTTCGTCCACAACCTACATGACA
1 GCTTCATCCACAACCTACATGACA
20211007 GCTT
1 GCTT
20211011 GTCTGCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.35, G:0.13, T:0.25
Consensus pattern (24 bp):
GCTTCATCCACAACCTACATGACA
Found at i:20218089 original size:21 final size:21
Alignment explanation
Indices: 20218039--20218118 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
20218029 ATTGGGTGGA
*
20218039 TCAGCTCTTACGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTGT
* *
20218060 TTAGTTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
* * * *
20218081 TCAACTCTTATGAGGTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
20218102 TCAGCT-TT-CGAGCTTCT
1 TCAGCTCTTACGAGCTTCT
20218119 ATTGGCATAT
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
19 6 0.13
20 2 0.04
21 38 0.83
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:20223380 original size:18 final size:19
Alignment explanation
Indices: 20223357--20223392 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20223347 GCCAAATAAA
*
20223357 TATAAGCA-GTATAAGCAT
1 TATAAGCATGGATAAGCAT
20223375 TATAAGCATGGATAAGCA
1 TATAAGCATGGATAAGCA
20223393 CCACATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25
Consensus pattern (19 bp):
TATAAGCATGGATAAGCAT
Found at i:20234309 original size:101 final size:102
Alignment explanation
Indices: 20234188--20234370 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 102
20234178 AGTGATGGTC
* *
20234188 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGTAC
1 ACGTGTGCAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGTAC
20234251 TATGTGCAGGCTACTATGCGTATCGGATAGCTTCGATT
65 TATGTGCAGGCTACTATGCGTATCGGATAGCTTCGATT
* * *
20234289 ACGTGTGCAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTTTAGTCCT
1 ACGTGTGCAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTACT
*
20234354 ATGTTCAGGCTACTATG
66 ATGTGCAGGCTACTATG
20234371 TGAACCCGTA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.51
102 32 0.43
103 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (102 bp):
ACGTGTGCAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTACT
ATGTGCAGGCTACTATGCGTATCGGATAGCTTCGATT
Found at i:20234356 original size:51 final size:51
Alignment explanation
Indices: 20234178--20234368 Score: 212
Period size: 51 Copynumber: 3.8 Consensus size: 51
20234168 TGAAAGTGAA
* *
20234178 AGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
* * * *
20234228 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGAT
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
* *
20234279 AGCTTCGAT--T-ACGTGTGCAGTACTATGTGCAGGCTACTACGTGTATCAGAT
1 AG--T-GATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
* * *
20234330 AGTGATGGTCACATGTTTAGTCCTATGTTCAGGCTACTA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
20234369 TGTGAACCCG
Statistics
Matches: 115, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
48 3 0.03
49 5 0.04
50 40 0.35
51 62 0.54
52 1 0.01
54 1 0.01
55 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
Found at i:20234615 original size:16 final size:16
Alignment explanation
Indices: 20234594--20234625 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20234584 TGATTGAAAG
*
20234594 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
20234610 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
20234626 GCAACAAAAC
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:20237140 original size:15 final size:15
Alignment explanation
Indices: 20237120--20237150 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20237110 ACATCTACCG
*
20237120 AAATAGATGAATTAC
1 AAATAGACGAATTAC
20237135 AAATAGACGAATTAC
1 AAATAGACGAATTAC
20237150 A
1 A
20237151 TACAACATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:20241180 original size:20 final size:20
Alignment explanation
Indices: 20241146--20241185 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20241136 GAACTTTGTC
*
20241146 CAAAAATTTTCTAAG-TGTT
1 CAAAAATTATCTAAGATGTT
20241165 CAAAACATTATCTAAGATGTT
1 CAAAA-ATTATCTAAGATGTT
20241186 TGGAAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
CAAAAATTATCTAAGATGTT
Found at i:20245997 original size:104 final size:104
Alignment explanation
Indices: 20245817--20246040 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
20245807 TGTATATAAA
** * *
20245817 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
20245882 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
20245921 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
20245985 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
20246025 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
20246041 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:20246092 original size:71 final size:72
Alignment explanation
Indices: 20245959--20246110 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
20245949 TCATTGGTGG
* *
20245959 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
20246024 GAGGGGT
66 GAGGGGT
***
20246031 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
20246095 GAGGGGT
66 GAGGGGT
20246102 TGCTAAGTG
1 TGCTAAGTG
20246111 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:20248376 original size:57 final size:58
Alignment explanation
Indices: 20248282--20248396 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 58
20248272 AAAATCTAGA
* *
20248282 ATGTTTTGAAAATTGGGGGGGGATTGTTGAAACATTTTCAAAATAATATACAATATTC
1 ATGTTTTGAAAATTGGGAGGAGATTGTTGAAACATTTTCAAAATAATATACAATATTC
*
20248340 ATGTTTTGAAAATT-GGAGGAGATTGTTGGAACATTTTCAAAATAATATACAATATTC
1 ATGTTTTGAAAATTGGGAGGAGATTGTTGAAACATTTTCAAAATAATATACAATATTC
20248397 CAATAGTTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 40 0.74
58 14 0.26
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (58 bp):
ATGTTTTGAAAATTGGGAGGAGATTGTTGAAACATTTTCAAAATAATATACAATATTC
Found at i:20257641 original size:22 final size:24
Alignment explanation
Indices: 20257593--20257643 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
20257583 TAGGGCCAGT
20257593 CCAACAGCTAGAAACTGCCATAAG
1 CCAACAGCTAGAAACTGCCATAAG
*
20257617 CCAACAGCTAGAAAC-GGC-TAAG
1 CCAACAGCTAGAAACTGCCATAAG
20257639 CCAAC
1 CCAAC
20257644 CAACGATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 9 0.35
23 2 0.08
24 15 0.58
ACGTcount: A:0.41, C:0.31, G:0.18, T:0.10
Consensus pattern (24 bp):
CCAACAGCTAGAAACTGCCATAAG
Found at i:20261547 original size:23 final size:22
Alignment explanation
Indices: 20261512--20261561 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
20261502 AAAATGAACA
20261512 AAACAAAACAAAAATAAAAAAT
1 AAACAAAACAAAAATAAAAAAT
* * *
20261534 AAACTAAACTAAAAATTATAAAT
1 AAACAAAAC-AAAAATAAAAAAT
20261557 AAACA
1 AAACA
20261562 TGCCTAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (22 bp):
AAACAAAACAAAAATAAAAAAT
Found at i:20266288 original size:31 final size:30
Alignment explanation
Indices: 20266221--20266288 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
20266211 CTCAAGCACG
*
20266221 TAGAAAACATGCAAATAAAAATAAAACAAA
1 TAGAAAACATGAAAATAAAAATAAAACAAA
*
20266251 TTGAAAACTACTGAAAAT-AAAATAAAA-ATAA
1 TAGAAAAC-A-TGAAAATAAAAATAAAACA-AA
20266282 TAGAAAA
1 TAGAAAA
20266289 AATTAAATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 8 0.25
31 18 0.56
32 6 0.19
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (30 bp):
TAGAAAACATGAAAATAAAAATAAAACAAA
Found at i:20267645 original size:43 final size:43
Alignment explanation
Indices: 20267592--20267798 Score: 227
Period size: 43 Copynumber: 4.8 Consensus size: 43
20267582 TTATGTGGAA
* * *
20267592 AAACGCCGCTATAGAACATGATCTTTAGCGGCGCCTTACATAC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
** * * * * *
20267635 AAACGTCGCTATAGAACATGATCTTTAACAGCGTTTTTCCTAT
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
* * * *
20267678 GAACACCGCTATAGAACATGATATTTAGCGACGCTTTTCCTAC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
* * *
20267721 AAACACCGCTATAGAACATTATCTTTAGCGGCGGTTTA-TTAC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
* * *
20267763 AAACACCGCTAAAGAACATTATCTTTAGTGGCGCTT
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTT
20267799 CTTTTACAAA
Statistics
Matches: 137, Mismatches: 27, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 36 0.26
43 101 0.74
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
Found at i:20267820 original size:43 final size:42
Alignment explanation
Indices: 20267690--20267820 Score: 120
Period size: 43 Copynumber: 3.1 Consensus size: 42
20267680 ACACCGCTAT
* * * * * *
20267690 AGAACATGATATTTAGCGACGCTTT-TCCTACAAACACCGCTAT
1 AGAACATTATCTTTAGCGGCGCTTTAT--TACAAACACCACAAA
* * *
20267733 AGAACATTATCTTTAGCGGCGGTTTATTACAAACACCGCTAA
1 AGAACATTATCTTTAGCGGCGCTTTATTACAAACACCACAAA
* * *
20267775 AGAACATTATCTTTAGTGGCGCTTCTTTTACAAACGCCACAAA
1 AGAACATTATCTTTAGCGGCGCTT-TATTACAAACACCACAAA
20267818 AGA
1 AGA
20267821 CCATGTTCTA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
42 36 0.48
43 38 0.51
44 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (42 bp):
AGAACATTATCTTTAGCGGCGCTTTATTACAAACACCACAAA
Found at i:20268143 original size:30 final size:30
Alignment explanation
Indices: 20268102--20268169 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
20268092 AACATCTTCG
* **
20268102 TCATA-TTTTGAAGCTGTAGTTGTTGTTCA
1 TCATATTTTTGAAGCTGTAGCTGGAGTTCA
*
20268131 TCATATTTTTGAAGCTGTAGCTGGAGTTCG
1 TCATATTTTTGAAGCTGTAGCTGGAGTTCA
20268161 TCATATTTT
1 TCATATTTT
20268170 CTTGTTGCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (30 bp):
TCATATTTTTGAAGCTGTAGCTGGAGTTCA
Found at i:20268205 original size:21 final size:21
Alignment explanation
Indices: 20268171--20268210 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20268161 TCATATTTTC
*
20268171 TTGTTGCCTCTGCTGCCCTTG
1 TTGTTACCTCTGCTGCCCTTG
* *
20268192 TTGTTACCTTTGCTTCCCT
1 TTGTTACCTCTGCTGCCCT
20268211 CACTGCTGCC
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:0.03, C:0.33, G:0.17, T:0.47
Consensus pattern (21 bp):
TTGTTACCTCTGCTGCCCTTG
Found at i:20269801 original size:92 final size:92
Alignment explanation
Indices: 20269644--20269829 Score: 255
Period size: 92 Copynumber: 2.0 Consensus size: 92
20269634 GGAAGCTTAA
* * * * *
20269644 GTTAAAGCAAATTATTTAGGAAAATGTGATATTTAAAAAAAATTTAGATGTAAAAACATAGTGTT
1 GTTAAAGCAAATGATTTACGAAAACGTGATATTTAAAAAAAATTGAGATGCAAAAACATAGTGTT
* *
20269709 AGAAAATAGTTATTATTTTGGAAAACT
66 AGAAAACAATTATTATTTTGGAAAACT
* * ** *
20269736 GTTAAAGCAAATGATTTACGAAAACGTGATATTTTAAAAAAATTGAGGTGCGGAAACGTAGTGTT
1 GTTAAAGCAAATGATTTACGAAAACGTGATATTTAAAAAAAATTGAGATGCAAAAACATAGTGTT
*
20269801 AGAAAACAATTATTGTTTTGGAAAACT
66 AGAAAACAATTATTATTTTGGAAAACT
20269828 GT
1 GT
20269830 GTTCTACTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (92 bp):
GTTAAAGCAAATGATTTACGAAAACGTGATATTTAAAAAAAATTGAGATGCAAAAACATAGTGTT
AGAAAACAATTATTATTTTGGAAAACT
Found at i:20270655 original size:27 final size:27
Alignment explanation
Indices: 20270625--20270806 Score: 126
Period size: 27 Copynumber: 6.8 Consensus size: 27
20270615 TATAAAAGTC
*
20270625 ATTTTACCCTATGGGGGTATTTCGATA
1 ATTTTACCCTATGAGGGTATTTCGATA
* * * *
20270652 ATTTTATCCTTTGATGG-ATTTCGGTA
1 ATTTTACCCTATGAGGGTATTTCGATA
* * * *
20270678 ATTTTATCCTTTGGGGGTATTT-TAGTA
1 ATTTTACCCTATGAGGGTATTTCGA-TA
* *
20270705 ATTTTA-CCTACGAGGGTATTT-TAGTA
1 ATTTTACCCTATGAGGGTATTTCGA-TA
* *
20270731 ATTTTA-CCTATCGAGGGTATTTTGGTA
1 ATTTTACCCTAT-GAGGGTATTTCGATA
* * *
20270758 ATTTTACCAT-TCGGGGGTATTTCAATA
1 ATTTTACCCTAT-GAGGGTATTTCGATA
20270785 ATTTTACCC-ATCGAGGGTATTT
1 ATTTTACCCTAT-GAGGGTATTT
20270807 TGGTCATTTA
Statistics
Matches: 127, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
26 50 0.39
27 75 0.59
28 2 0.02
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTCGATA
Found at i:20270707 original size:53 final size:52
Alignment explanation
Indices: 20270625--20270792 Score: 151
Period size: 53 Copynumber: 3.2 Consensus size: 52
20270615 TATAAAAGTC
* * ** * *
20270625 ATTTTACCCTATGGGGGTA-TTTCGATAATTTTATCCTTTGATGG-ATTTCGGTA
1 ATTTTA-CCTTTGGGGGTATTTTAG-TAATTTTA-CCTACGAGGGTATTTCAGTA
*
20270678 ATTTTATCCTTTGGGGGTATTTTAGTAATTTTACCTACGAGGGTATTTTAGTA
1 ATTTTA-CCTTTGGGGGTATTTTAGTAATTTTACCTACGAGGGTATTTCAGTA
* * * * * *
20270731 ATTTTACCTATCGAGGGTATTTTGGTAATTTTACCATTCGGGGGTATTTCAATA
1 ATTTTACCT-TTGGGGGTATTTTAGTAATTTTACC-TACGAGGGTATTTCAGTA
20270785 ATTTTACC
1 ATTTTACC
20270793 CATCGAGGGT
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
52 10 0.10
53 60 0.62
54 26 0.27
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (52 bp):
ATTTTACCTTTGGGGGTATTTTAGTAATTTTACCTACGAGGGTATTTCAGTA
Found at i:20270726 original size:26 final size:27
Alignment explanation
Indices: 20270675--20270807 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
20270665 ATGGATTTCG
* *
20270675 GTAATTTTATCCT-TTGGGGGTATTTTA
1 GTAATTTTA-CCTATCGAGGGTATTTTA
20270702 GTAATTTTACCTA-CGAGGGTATTTTA
1 GTAATTTTACCTATCGAGGGTATTTTA
*
20270728 GTAATTTTACCTATCGAGGGTATTTTG
1 GTAATTTTACCTATCGAGGGTATTTTA
* *
20270755 GTAATTTTACC-ATTCGGGGGTATTTCA
1 GTAATTTTACCTA-TCGAGGGTATTTTA
* *
20270782 ATAATTTTACCCATCGAGGGTATTTT
1 GTAATTTTACCTATCGAGGGTATTTT
20270808 GGTCATTTAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 28 0.30
27 64 0.69
28 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.44
Consensus pattern (27 bp):
GTAATTTTACCTATCGAGGGTATTTTA
Found at i:20277491 original size:34 final size:33
Alignment explanation
Indices: 20277419--20277506 Score: 160
Period size: 34 Copynumber: 2.7 Consensus size: 33
20277409 ATATATATTC
20277419 TTTATATTCTTTAAATG-TTATAAATTGCATTT
1 TTTATATTCTTTAAATGTTTATAAATTGCATTT
20277451 TTTATATTCTTTAAATGTTTATAAATTGCATTTT
1 TTTATATTCTTTAAATGTTTATAAATTGCA-TTT
20277485 TTTATATTCTTTAAATGTTTAT
1 TTTATATTCTTTAAATGTTTAT
20277507 GTAAGTTATG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 17 0.31
33 12 0.22
34 25 0.46
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.59
Consensus pattern (33 bp):
TTTATATTCTTTAAATGTTTATAAATTGCATTT
Found at i:20290180 original size:18 final size:20
Alignment explanation
Indices: 20290140--20290181 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
20290130 TTTTACTTTA
* *
20290140 AAAATATATAAAATTATTTT
1 AAAATATATAAAATAATTGT
20290160 AAAATAT-TAAAA-AATTGT
1 AAAATATATAAAATAATTGT
20290178 AAAA
1 AAAA
20290182 GTTATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATATATAAAATAATTGT
Found at i:20290561 original size:29 final size:30
Alignment explanation
Indices: 20290508--20290574 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
20290498 AATTGTAATG
20290508 TTTTTAAAAATGTAAAAATAATTAA-AT-T
1 TTTTTAAAAATGTAAAAATAATTAACATGT
* *
20290536 TTTTTAAAAATGATTAAAAGT-CTTAACATGT
1 TTTTTAAAAATG--TAAAAATAATTAACATGT
20290567 TTTTTAAA
1 TTTTTAAA
20290575 CCACCTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 12 0.36
29 4 0.12
30 8 0.24
31 9 0.27
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (30 bp):
TTTTTAAAAATGTAAAAATAATTAACATGT
Found at i:20303380 original size:40 final size:43
Alignment explanation
Indices: 20303334--20303417 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
20303324 TTTTATCCTA
* *
20303334 GAAAAAATGAATTT-AAAA-A-GAGAAGATAATCTTGGGTTGTT
1 GAAAAAA-GAATTTAAAAATAGGAGAAGATAAACATGGGTTGTT
20303375 GAAAAAAGAATTTAAAAATAGGAGAAGATAAACATGGGTTGTT
1 GAAAAAAGAATTTAAAAATAGGAGAAGATAAACATGGGTTGTT
20303418 CGATTTACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 6 0.16
41 11 0.29
42 1 0.03
43 20 0.53
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.26
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAATAGGAGAAGATAAACATGGGTTGTT
Found at i:20303807 original size:111 final size:111
Alignment explanation
Indices: 20303613--20303820 Score: 389
Period size: 111 Copynumber: 1.9 Consensus size: 111
20303603 TATTTTTAGG
* *
20303613 AAGCAAGACCTACTACGGTTACGTTGCAACTAGCCAATCGATCCTATGCTCATCCGAAAGGTAAA
1 AAGCAAGACCTACTACGGTTACATTGCAACTAGCCAATCAATCCTATGCTCATCCGAAAGGTAAA
20303678 ATTGAAGACGTACTGGTAAGGGTAGATAAATTGAAGACATACTGGA
66 ATTGAAGACGTACTGGTAAGGGTAGATAAATTGAAGACATACTGGA
*
20303724 AAGCAAGACCTACTATGGTTACATTGCAACTAGCCAATCAATCCTATGCTCATCCGAAAGGTAAA
1 AAGCAAGACCTACTACGGTTACATTGCAACTAGCCAATCAATCCTATGCTCATCCGAAAGGTAAA
20303789 ATTGAAGACGTACTGGTAAGGGTAGATAAATT
66 ATTGAAGACGTACTGGTAAGGGTAGATAAATT
20303821 TATCTTCCCT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 94 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (111 bp):
AAGCAAGACCTACTACGGTTACATTGCAACTAGCCAATCAATCCTATGCTCATCCGAAAGGTAAA
ATTGAAGACGTACTGGTAAGGGTAGATAAATTGAAGACATACTGGA
Found at i:20306068 original size:23 final size:23
Alignment explanation
Indices: 20306041--20306087 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
20306031 CATAAGACTA
20306041 TGAACTACTCCCTTTACTTACTT
1 TGAACTACTCCCTTTACTTACTT
20306064 TGAACTACTCCCTTTACTTACTT
1 TGAACTACTCCCTTTACTTACTT
20306087 T
1 T
20306088 CCATTCCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.30, G:0.04, T:0.45
Consensus pattern (23 bp):
TGAACTACTCCCTTTACTTACTT
Found at i:20317246 original size:31 final size:31
Alignment explanation
Indices: 20317203--20317275 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
20317193 ATAAATCTCT
* * *
20317203 AAAATTTTTAAAATTTTTAATTAAAA-CTATA
1 AAAAATTTTAAAAGTTATAATTAAAACCT-TA
* *
20317234 AAAAATTTTAAAAGTTATCATTAAAACCTTC
1 AAAAATTTTAAAAGTTATAATTAAAACCTTA
20317265 AAAAATTTTAA
1 AAAAATTTTAA
20317276 TTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (31 bp):
AAAAATTTTAAAAGTTATAATTAAAACCTTA
Found at i:20317288 original size:21 final size:21
Alignment explanation
Indices: 20317235--20317288 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
20317225 AAAACTATAA
* * *
20317235 AAAATTTTAAAAGTTATCATT
1 AAAATTTCAAAAATTATAATT
* *
20317256 AAAACCTTCAAAAATTTTAATT
1 AAAA-TTTCAAAAATTATAATT
20317278 AAAATTTCAAA
1 AAAATTTCAAA
20317289 CTTAACACCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATTTCAAAAATTATAATT
Found at i:20317968 original size:18 final size:19
Alignment explanation
Indices: 20317945--20317980 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20317935 CCTGGGAGGA
*
20317945 ATTGGGGTTGGT-TTGGGT
1 ATTGGGCTTGGTCTTGGGT
20317963 ATTGGGCTTGGTCTTGGG
1 ATTGGGCTTGGTCTTGGG
20317981 CTTGGTGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.06, C:0.06, G:0.47, T:0.42
Consensus pattern (19 bp):
ATTGGGCTTGGTCTTGGGT
Found at i:20318141 original size:12 final size:12
Alignment explanation
Indices: 20318124--20318156 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
20318114 CAGGTTCATC
20318124 AGCTGGGTCGAG
1 AGCTGGGTCGAG
20318136 AGCTGGGTCGAG
1 AGCTGGGTCGAG
20318148 AGCTGGGTC
1 AGCTGGGTC
20318157 AGGTGGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.18, G:0.48, T:0.18
Consensus pattern (12 bp):
AGCTGGGTCGAG
Found at i:20319575 original size:7 final size:7
Alignment explanation
Indices: 20319563--20319610 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
20319553 AAACAATTCG
20319563 AAAATTA
1 AAAATTA
20319570 AAAATTA
1 AAAATTA
20319577 ACAAA-TA
1 A-AAATTA
20319584 AAAATTA
1 AAAATTA
*
20319591 AAAATAA
1 AAAATTA
*
20319598 AAGAAATA
1 AA-AATTA
20319606 AAAAT
1 AAAAT
20319611 ATTGTATCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 3 0.09
7 23 0.68
8 8 0.24
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (7 bp):
AAAATTA
Found at i:20319588 original size:21 final size:22
Alignment explanation
Indices: 20319563--20319610 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
20319553 AAACAATTCG
*
20319563 AAAATTAAAAAT-TAACAAATA
1 AAAATTAAAAATAAAACAAATA
*
20319584 AAAATTAAAAATAAAAGAAATA
1 AAAATTAAAAATAAAACAAATA
20319606 AAAAT
1 AAAAT
20319611 ATTGTATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATTAAAAATAAAACAAATA
Found at i:20319991 original size:17 final size:17
Alignment explanation
Indices: 20319971--20320003 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20319961 GAGTAATGAA
*
20319971 AAATAAATAATTAAATT
1 AAATAAATAATAAAATT
20319988 AAATAAATAATAAAAT
1 AAATAAATAATAAAAT
20320004 AAACAAACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATAAATAATAAAATT
Found at i:20327237 original size:151 final size:149
Alignment explanation
Indices: 20326893--20327293 Score: 500
Period size: 151 Copynumber: 2.7 Consensus size: 149
20326883 CGGGTGAGAG
* * *
20326893 ACACGCCCATGTCTCAGGCCTTGTAACCTTCGAACTAGGGACACACGACCGTGTCCCAACTCGTG
1 ACACGCCCGTGTCTCAGG-CTTGTAACCTTCGAACTAGGGACACAAGGCCGTGTCCCAACTCGTG
* * * *
20326958 TGCTCACCCGTGTAACTTACTGAGTAGGGTCACACGGACATGCCGCACGCCGTGTGCCAAGCCAT
65 TCCTCACTCGTGTAACTCACTGAGTAGGGTCACACGGACATGCCACACGCCGTGTGCCAAGCCAT
20327023 GTAACTCTATAACTTGCCCC
130 GTAACTCTATAACTTGCCCC
* * * *
20327043 GCACGCCCGTGTCTTAGGCCGTGTAACCTTCGAACTAGGGACACAAGGCCGTCTCCCAACTCGTG
1 ACACGCCCGTGTCTCAGG-CTTGTAACCTTCGAACTAGGGACACAAGGCCGTGTCCCAACTCGTG
* * *
20327108 TCCTCATTTGTGTAACTCACTGAGTAGGGTCACAC-GACCATGTCACACGCCTGTGTGCCAAGCC
65 TCCTCACTCGTGTAACTCACTGAGTAGGGTCACACGGA-CATGCCACACGCC-GTGTGCCAAGCC
* ** *
20327172 ATGTAACTCTCTAGGTTTCCCC
128 ATGTAACTCTATAACTTGCCCC
* * ** *
20327194 ACATGCCCGTGTCTCAGGCTATGTAACCTTCGAATTAGGGACACACA-GCTATGTTCCAACTCGT
1 ACACGCCCGTGTCTCAGGCT-TGTAACCTTCGAACTAGGGACACA-AGGCCGTGTCCCAACTCGT
* * *
20327258 GTCCTCAGTCCTGTAACTCATTGAGTAGGGTCACAC
64 GTCCTCACTCGTGTAACTCACTGAGTAGGGTCACAC
20327294 AGCCGTGTCA
Statistics
Matches: 216, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
149 2 0.01
150 100 0.46
151 113 0.52
152 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (149 bp):
ACACGCCCGTGTCTCAGGCTTGTAACCTTCGAACTAGGGACACAAGGCCGTGTCCCAACTCGTGT
CCTCACTCGTGTAACTCACTGAGTAGGGTCACACGGACATGCCACACGCCGTGTGCCAAGCCATG
TAACTCTATAACTTGCCCC
Found at i:20333631 original size:20 final size:20
Alignment explanation
Indices: 20333606--20333751 Score: 64
Period size: 20 Copynumber: 7.3 Consensus size: 20
20333596 TACTGAATGA
20333606 TTGTACATACGTGCCCATGT
1 TTGTACATACGTGCCCATGT
* * * *
20333626 TTGTAC-TTCGGTACCCCTGA
1 TTGTACATAC-GTGCCCATGT
* *
20333646 TTGCACATACGTTCTCC-TGT
1 TTGTACATACGTGC-CCATGT
* ** * * **
20333666 TTGTACTTTGGTACCCCTAA
1 TTGTACATACGTGCCCATGT
** * *
20333686 TTACACATACGTGCCCCTTT
1 TTGTACATACGTGCCCATGT
* *
20333706 TTGTAC-TTCGGTGCCCATGA
1 TTGTACATAC-GTGCCCATGT
*
20333726 TTGCACATACGTGCCCATGT
1 TTGTACATACGTGCCCATGT
20333746 TTGTAC
1 TTGTAC
20333752 TTCGATACCC
Statistics
Matches: 87, Mismatches: 33, Indels: 12
0.66 0.25 0.09
Matches are distributed among these distances:
19 6 0.07
20 75 0.86
21 6 0.07
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (20 bp):
TTGTACATACGTGCCCATGT
Found at i:20333667 original size:40 final size:40
Alignment explanation
Indices: 20333603--20333765 Score: 220
Period size: 40 Copynumber: 4.1 Consensus size: 40
20333593 AATTACTGAA
*
20333603 TGATTGTACATACGTGCCCATGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCATGTTTGTACTTCGGTACCCC
* *
20333643 TGATTGCACATACGTTCTCC-TGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGC-CCATGTTTGTACTTCGGTACCCC
* * * * * *
20333683 TAATTACACATACGTGCCCCTTTTTGTACTTCGGTGCCCA
1 TGATTGCACATACGTGCCCATGTTTGTACTTCGGTACCCC
*
20333723 TGATTGCACATACGTGCCCATGTTTGTACTTCGATACCCC
1 TGATTGCACATACGTGCCCATGTTTGTACTTCGGTACCCC
20333763 TGA
1 TGA
20333766 ACACATTTAC
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 100 0.96
41 2 0.02
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCATGTTTGTACTTCGGTACCCC
Found at i:20337359 original size:20 final size:20
Alignment explanation
Indices: 20337309--20337365 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
20337299 AGTTTATGCT
* ** *
20337309 AAGTAAATGAAATGAAAAGT
1 AAGTAAATGGAATGGTAAGA
*
20337329 AAGTAAGTGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
20337349 AAGTAAATGGAGTGGTA
1 AAGTAAATGGAATGGTA
20337366 CATAGTTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:20340698 original size:26 final size:26
Alignment explanation
Indices: 20340664--20340744 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
20340654 AACATACCAA
* *
20340664 TATCACAGCAAGGCTGCCAATAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
*
20340690 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
*
20340716 TATCACAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAATAG
20340742 TAT
1 TAT
20340745 ACTACCTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAATAG
Found at i:20340938 original size:27 final size:27
Alignment explanation
Indices: 20340915--20341074 Score: 205
Period size: 27 Copynumber: 6.0 Consensus size: 27
20340905 ACAGTCAGTC
* *
20340915 TACCCTATGGGGGTATTTTGGTCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
* *
20340942 TACCCTATGAGAGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*** *
20340969 TACCCTA-CAAGGTATTTCGATAATTT
1 TACCCTATGGGGGTATTTCGATCATTT
* *
20340995 TACCCTATGGGGGTATTTTGGTCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*
20341022 TACCTTATGGGGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*
20341049 TACCCTATGGGGGTATTTCGACCATT
1 TACCCTATGGGGGTATTTCGATCATT
20341075 CATTGACCTC
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 22 0.19
27 91 0.81
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (27 bp):
TACCCTATGGGGGTATTTCGATCATTT
Found at i:20340994 original size:26 final size:27
Alignment explanation
Indices: 20340938--20341001 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
20340928 TATTTTGGTC
** *
20340938 ATTTTACCCTATGAGAGTATTTCGATC
1 ATTTTACCCTACAAGAGTATTTCGATA
20340965 ATTTTACCCTACAAG-GTATTTCGATA
1 ATTTTACCCTACAAGAGTATTTCGATA
20340991 ATTTTACCCTA
1 ATTTTACCCTA
20341002 TGGGGGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 21 0.62
27 13 0.38
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTACAAGAGTATTTCGATA
Found at i:20341997 original size:15 final size:16
Alignment explanation
Indices: 20341967--20341998 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20341957 ACTTTAGGGG
20341967 CAAAAATGTAATTTTT
1 CAAAAATGTAATTTTT
*
20341983 CAAAAATGTGATTTTT
1 CAAAAATGTAATTTTT
20341999 GGACTGGATT
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:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
CAAAAATGTAATTTTT
Found at i:20342247 original size:50 final size:51
Alignment explanation
Indices: 20342162--20342289 Score: 134
Period size: 50 Copynumber: 2.5 Consensus size: 51
20342152 TAGGTCACGT
* * * * *
20342162 GTGTAGTATTATGTGCAGGCTACTACATGTGCCGGA-ATG-ATAGGTCGCAC
1 GTGTAGTACTATGTGCAGGCTACTACACGTACCGGATA-GCATAGATCACAC
** * * **
20342212 GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACGT
1 GTGTAGTACTATGTGCAGGCTACTACACGTACCGGATAGCATAGATCACAC
20342263 GTGTAGTACTATGTGCAGGCTACTACA
1 GTGTAGTACTATGTGCAGGCTACTACA
20342290 TGTGAGCTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
50 32 0.51
51 31 0.49
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (51 bp):
GTGTAGTACTATGTGCAGGCTACTACACGTACCGGATAGCATAGATCACAC
Found at i:20356675 original size:24 final size:24
Alignment explanation
Indices: 20356648--20356693 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
20356638 AGAACAATCC
* *
20356648 TAAAAGGAAATGCAGGAGCAGCTT
1 TAAAAGCAAATGAAGGAGCAGCTT
*
20356672 TAAAAGCAAATGAATGAGCAGC
1 TAAAAGCAAATGAAGGAGCAGC
20356694 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.26, T:0.15
Consensus pattern (24 bp):
TAAAAGCAAATGAAGGAGCAGCTT
Found at i:20359242 original size:14 final size:15
Alignment explanation
Indices: 20359216--20359248 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
20359206 TCCCAAGCTA
*
20359216 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
20359231 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
20359245 GGAA
1 GGAA
20359249 AAGCATCGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:20360895 original size:132 final size:132
Alignment explanation
Indices: 20360653--20360897 Score: 352
Period size: 132 Copynumber: 1.9 Consensus size: 132
20360643 AGCGAAGCAA
* *
20360653 ATCGAAGATGGCGAATTTTACCTCCCTGTGGTTTCAGTGGAGTACATTGAAGCCAGTAATTCTAC
1 ATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTAC
* * *
20360718 TTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGA
66 TTCCCTAGACAACAGTGGAATAGATTGAAGATTTAAGATCCTATCTCCCTAAGCAGTAGTGGAGA
20360783 AG
131 AG
* *
20360785 ATCGAAGATGGCGGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAA-TCATA
1 ATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTC-TA
* * *
20360849 -TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCCTATCTCC
65 CT-TCCCTAGACAACAGTGGAATAGATTGAAGATT-TAAGATCCTATCTCC
20360898 TTGATATTGT
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
131 3 0.03
132 94 0.94
133 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
ATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTAC
TTCCCTAGACAACAGTGGAATAGATTGAAGATTTAAGATCCTATCTCCCTAAGCAGTAGTGGAGA
AG
Found at i:20361235 original size:19 final size:19
Alignment explanation
Indices: 20361208--20361318 Score: 141
Period size: 19 Copynumber: 5.8 Consensus size: 19
20361198 AATCTTCAGG
*
20361208 GATAGGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20361227 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
* ** *
20361246 AATATATAATTTTAGATAT
1 GATATGCAATCTTAGATAT
20361265 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
20361284 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20361303 GATACGCAATCTTAGA
1 GATATGCAATCTTAGA
20361319 AGATATGATT
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 76 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20361317 original size:38 final size:38
Alignment explanation
Indices: 20361215--20361318 Score: 172
Period size: 38 Copynumber: 2.7 Consensus size: 38
20361205 AGGGATAGGC
*
20361215 AATCTTAGATATGATATGCAATCTTAAATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
20361253 AATTTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
20361291 AATCTTAGATATGATACGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
20361319 AGATATGATT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:20368058 original size:22 final size:22
Alignment explanation
Indices: 20368033--20368077 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
20368023 AGATCAACAC
20368033 AAATAT-AATCACATACATATCA
1 AAATATCAATCACA-ACATATCA
*
20368055 AAATATCAATCTCAACATATCA
1 AAATATCAATCACAACATATCA
20368077 A
1 A
20368078 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATATCAATCACAACATATCA
Found at i:20373724 original size:40 final size:40
Alignment explanation
Indices: 20373680--20373901 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
20373670 GCTCCTCGTT
* *
20373680 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
20373720 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
20373759 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
20373798 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
20373836 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
20373877 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20373902 CATCATTCAA
Statistics
Matches: 160, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
37 4 0.03
38 37 0.23
39 53 0.33
40 54 0.34
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:20373762 original size:39 final size:39
Alignment explanation
Indices: 20373680--20373901 Score: 274
Period size: 39 Copynumber: 5.7 Consensus size: 39
20373670 GCTCCTCGTT
* *
20373680 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
20373720 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
20373759 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
20373798 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * * *
20373836 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
20373877 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20373902 CATCATTCAA
Statistics
Matches: 161, Mismatches: 12, Indels: 18
0.84 0.06 0.09
Matches are distributed among these distances:
37 4 0.02
38 36 0.22
39 57 0.35
40 53 0.33
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:20373861 original size:116 final size:118
Alignment explanation
Indices: 20373682--20373894 Score: 292
Period size: 116 Copynumber: 1.8 Consensus size: 118
20373672 TCCTCGTTCA
*
20373682 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
20373747 -TAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCGGATTTAGTAACTCGCAC
* * **
20373799 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
20373861 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
20373895 GCCCGGACAT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
115 4 0.05
116 41 0.49
117 31 0.37
118 8 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (118 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCGGATTTAGTAACTCGCAC
Found at i:20381729 original size:79 final size:81
Alignment explanation
Indices: 20381627--20381811 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
20381617 GCTCCTCGTT
* *
20381627 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20381690 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
20381707 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
20381771 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
20381787 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20381812 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:20381811 original size:40 final size:40
Alignment explanation
Indices: 20381627--20381811 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
20381617 GCTCCTCGTT
* *
20381627 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
20381667 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
20381707 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
20381746 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
20381787 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20381812 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:20397530 original size:20 final size:21
Alignment explanation
Indices: 20397484--20397535 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
20397474 TCAAATGAGG
*
20397484 GAAAAAGAAAAGAATGAAAAT
1 GAAAAAGAAAAGAATGAAAAA
*
20397505 GCAAAAG-AAAGAA-GAAAAAA
1 GAAAAAGAAAAGAATG-AAAAA
*
20397525 GAAAAATAAAA
1 GAAAAAGAAAA
20397536 AAAGGAGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 15 0.60
21 9 0.36
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (21 bp):
GAAAAAGAAAAGAATGAAAAA
Found at i:20397583 original size:17 final size:18
Alignment explanation
Indices: 20397561--20397594 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20397551 GAATGCGAGA
20397561 AAAGAGAG-ATGAAAAAG
1 AAAGAGAGAATGAAAAAG
*
20397578 AAAGAGCGAATGAAAAA
1 AAAGAGAGAATGAAAAA
20397595 TTGAATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.03, G:0.26, T:0.06
Consensus pattern (18 bp):
AAAGAGAGAATGAAAAAG
Found at i:20402170 original size:9 final size:9
Alignment explanation
Indices: 20402156--20402181 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20402146 TTAAAACACA
20402156 AACTAAAAT
1 AACTAAAAT
20402165 AACTAAAAT
1 AACTAAAAT
20402174 AACTAAAA
1 AACTAAAA
20402182 AATTAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:20413955 original size:15 final size:16
Alignment explanation
Indices: 20413935--20413967 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
20413925 AAACCATGAA
*
20413935 AAAAGAAA-GGAAAAC
1 AAAAGAAATAGAAAAC
20413950 AAAAGAAATAGAAAAC
1 AAAAGAAATAGAAAAC
20413966 AA
1 AA
20413968 CAACAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAATAGAAAAC
Found at i:20414880 original size:41 final size:41
Alignment explanation
Indices: 20414823--20414913 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
20414813 CACCAAGGAA
* * * *
20414823 ATAAGATATGATGTGATCTACTCTACTGCAACTTCAGAGAG
1 ATAAGATCTGATGTGATCTACTCTACTGAAACCTCAAAGAG
20414864 ATAAGATCTGATGTGATCTACTCTACTGAAACCTCAAAGAG
1 ATAAGATCTGATGTGATCTACTCTACTGAAACCTCAAAGAG
20414905 ATAAGATCT
1 ATAAGATCT
20414914 ATTATTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (41 bp):
ATAAGATCTGATGTGATCTACTCTACTGAAACCTCAAAGAG
Found at i:20415235 original size:216 final size:215
Alignment explanation
Indices: 20414847--20415649 Score: 1178
Period size: 216 Copynumber: 3.7 Consensus size: 215
20414837 GATCTACTCT
* * * * *
20414847 ACTGCAACTTCAGAGAGATAAGATCTGATGTGATCTACTCTACTGAAACCTCAAAGAGATAAGAT
1 ACTGCAACCTCAG-GAGATAAGAACTGATGCGATCTACTCTACTGCAACCTCAGAGAGATAAGAT
* * * *
20414912 CTATTATTTTAATTCGCTCCACTGCAACTTCAGGAAGATAGGATTACTGGCTTCAATCAGCTCCG
65 CTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCG
* *
20414977 CTACTGCTTAGGGAGATAAGATCTGCCATTCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
130 CTACGGCTTAGGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
20415042 TCTATTTCTTCAGTCTGCTCC
195 TTTATTTCTTCAGTCTGCTCC
** * * *
20415063 ACTGCATTCTCATGGAGATAAGAACTAATACGATCTACTCTACTGCAACCTCAGAGAGCTAAGAT
1 ACTGCAACCTCA-GGAGATAAGAACTGATGCGATCTACTCTACTGCAACCTCAGAGAGATAAGAT
* *
20415128 CTTTTATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCG
65 CTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCG
* * *
20415193 CTACGGCTTAGGGAGATAAGATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGGTAAGG
130 CTACGGCTTAGGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * *
20415258 TTTGTTTCTTCAGTCTACTCT
195 TTTATTTCTTCAGTCTGCTCC
* *
20415279 ACTGCAACCTCAAGAAGATAAGACCTGATGCGATCTACTCTACTGCAACCTCAGAGAGATAAGAT
1 ACTGCAACCTC-AGGAGATAAGAACTGATGCGATCTACTCTACTGCAACCTCAGAGAGATAAGAT
* * * * *
20415344 CTTTTATTTTAATCTGCTCCACTGTAACTTCAGGGAGATAGGATTAATGGCTTCAATCTACTTCG
65 CTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCG
20415409 CTACGGCTTAGGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
130 CTACGGCTTAGGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
20415474 TTTGA-TTCTTCATTCTGCTCC
195 TTT-ATTTCTTCAGTCTGCTCC
* * *
20415495 GCTGCAACCTCAGAGAGATAA-TACTTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGA
1 ACTGCAACCTCAG-GAGATAAGAAC-TGATGCGATCTACTCTACTGCAACCTCAGAGAGATAAGA
* * *
20415559 TCTTTTATTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTTCTATCTGCTCC
64 TCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCC
*
20415624 TCTACGGCTTAGGGAGATAAGATCTG
129 GCTACGGCTTAGGGAGATAAGATCTG
20415650 TTTCTTTAGT
Statistics
Matches: 524, Mismatches: 58, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
215 3 0.01
216 519 0.99
217 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (215 bp):
ACTGCAACCTCAGGAGATAAGAACTGATGCGATCTACTCTACTGCAACCTCAGAGAGATAAGATC
TTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGC
TACGGCTTAGGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
TTATTTCTTCAGTCTGCTCC
Found at i:20415473 original size:388 final size:387
Alignment explanation
Indices: 20415076--20415795 Score: 849
Period size: 388 Copynumber: 1.9 Consensus size: 387
20415066 GCATTCTCAT
* * * * **
20415076 GGAGATAAGAACTAATAC-GA-TCTACTCTACTGCAACCTCAGAGAGCTAAGATCTTTTATTTTA
1 GGAGATAAGAACTAATACTCATTCTACTCCACTGCAACCTCAGAGAGATAAGA-C-TTGA-TGCA
* * * * * * * * * **
20415139 ATCCGCTCCATTGTAACTTCAGGGAGATAGGAT-TACTGGCTTCAATCTGCTCCGCTACGGCTT-
63 ATCCACTCCACTGTAACCTCAGAGAGATAAGATCT-CTGACTTCAACCCGCTCCACTACAACTTC
* * * *
20415202 AGGGAGATAAGA-T-CTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGGTAAGGTTTGTTT
127 AGGGAGATAAGATTACTGCC-TCC-T-ATCTGCTCCACTACGGCTTAGGGAGATAAGATCTGTTT
*
20415265 CTTCAGTCTACTCTACTGCAACCTCAAGAAGATAAGACCTGATGCGATCTACTCTACTGCAACCT
189 CTTCAGTCTACTCCACTGCAACCTCAAGAAGATAAGACCTGATGCGATCTACTCTACTGCAACCT
* * * **
20415330 CAGAGAGATAAGATCTTTTATTTTAATCTGCTCCACTGTAACTTCAGGGAGATAGGATTAATGGC
254 CAGAGAGATAAGATCTTTTATTTTAACCCGCTCCACTGCAACTTCAACGAGATAGGATTAATGGC
20415395 TTCAATCTACTTCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGC
319 TTCAATCTACTTCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGC
20415460 TTAG
384 TTAG
** * * * * * *
20415464 GGAGATAAGATTTGATTCTTCATTCTGCTCCGCTGCAACCTCAGAGAGATAATACTTGATGCGAT
1 GGAGATAAGAACTAATAC-TCATTCTACTCCACTGCAACCTCAGAGAGATAAGACTTGATGCAAT
* * * * * *
20415529 CTACTCTACTGTAACCTCAGAGAGATAAGATCTTTTATTTTAACCCGCTCCACTACAACTTCAGG
65 CCACTCCACTGTAACCTCAGAGAGATAAGATCTCTGACTTCAACCCGCTCCACTACAACTTCAGG
* * * * *
20415594 GAGATAGGATTACTGGCTTCTATCTGCTCCTCTACGGCTTAGGGAGATAAGATCTGTTTCTTTAG
130 GAGATAAGATTACTGCCTCCTATCTGCTCCACTACGGCTTAGGGAGATAAGATCTGTTTCTTCAG
* * * * *
20415659 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAATCTCAGAGA
195 TCTACTCCACTGCAACCTCAAGAAGATAAGACCTGATGCGATCTACTCTACTGCAACCTCAGAGA
*
20415724 GATAAGATCTTTTATTTTAACCCGCTCCACTGCAACTTCAACGAGATAGGATTATTGGCTTCAAT
260 GATAAGATCTTTTATTTTAACCCGCTCCACTGCAACTTCAACGAGATAGGATTAATGGCTTCAAT
*
20415789 CTGCTTC
325 CTACTTC
20415796 ATTGCCAACC
Statistics
Matches: 272, Mismatches: 53, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
388 221 0.81
389 16 0.06
390 5 0.02
391 30 0.11
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (387 bp):
GGAGATAAGAACTAATACTCATTCTACTCCACTGCAACCTCAGAGAGATAAGACTTGATGCAATC
CACTCCACTGTAACCTCAGAGAGATAAGATCTCTGACTTCAACCCGCTCCACTACAACTTCAGGG
AGATAAGATTACTGCCTCCTATCTGCTCCACTACGGCTTAGGGAGATAAGATCTGTTTCTTCAGT
CTACTCCACTGCAACCTCAAGAAGATAAGACCTGATGCGATCTACTCTACTGCAACCTCAGAGAG
ATAAGATCTTTTATTTTAACCCGCTCCACTGCAACTTCAACGAGATAGGATTAATGGCTTCAATC
TACTTCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAG
Found at i:20415542 original size:172 final size:172
Alignment explanation
Indices: 20415418--20415793 Score: 432
Period size: 172 Copynumber: 2.2 Consensus size: 172
20415408 GCTACGGCTT
* *
20415418 AGGGAGATAAGA-T-CTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGATT
1 AGGGAGATAAGATTACTGCC-T--TCGATCTGCTCCACTACGGCTTAGGGAGATAAGATCTGATT
* * *
20415481 CTTCATTCTGCTCCGCTGCAACCTCAGAGAGATAATACTTGATGCGATCTACTCTACTGTAACCT
63 CTTCAGTCTGCTCCGCTGCAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACCT
* * * * *
20415546 CAGAGAGATAAGATCTTTTATTTTAACCCGCTCCACTACAACTTC
128 CAGAGAGATAAGATCTATGACTTCAACCCACTCCACTACAACTTC
* * * * *
20415591 AGGGAGATAGGATTACTGGCTTCTATCTGCTCCTCTACGGCTTAGGGAGATAAGATCTGTTTCTT
1 AGGGAGATAAGATTACTGCCTTCGATCTGCTCCACTACGGCTTAGGGAGATAAGATCTGATTCTT
* * * *
20415656 TAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAATCTCAG
66 CAGTCTGCTCCGCTGCAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAG
* * * * * *
20415721 AGAGATAAGATCTTTTATTTTAACCCGCTCCACTGCAACTTC
131 AGAGATAAGATCTATGACTTCAACCCACTCCACTACAACTTC
** * * * *
20415763 AACGAGATAGGATTATTGGCTTCAATCTGCT
1 AGGGAGATAAGATTACTGCCTTCGATCTGCT
20415794 TCATTGCCAA
Statistics
Matches: 182, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
172 165 0.91
173 11 0.06
174 2 0.01
175 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (172 bp):
AGGGAGATAAGATTACTGCCTTCGATCTGCTCCACTACGGCTTAGGGAGATAAGATCTGATTCTT
CAGTCTGCTCCGCTGCAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAG
AGAGATAAGATCTATGACTTCAACCCACTCCACTACAACTTC
Found at i:20415598 original size:85 final size:85
Alignment explanation
Indices: 20415490--20415759 Score: 269
Period size: 85 Copynumber: 3.2 Consensus size: 85
20415480 TCTTCATTCT
* *
20415490 GCTCCGCTGCAACCTCAGAGAGATAATACTTGATGCGATCTACTCTACTGTAACCTCAGAGAGAT
1 GCTCCACTGCAACCTCAGGGAGATAATACTTGATGCGATCTACTCTACTGTAACCTCAGAGAGAT
20415555 AAGATCTTTTATTTTAACCC
66 AAGATCTTTTATTTTAACCC
* * * * * * * * * *
20415575 GCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTTCTATCTGCTC--CTCT-ACGGCTTAGG
1 GCTCCACTGCAACCTCAGGGAGATA--A-TACTTGATGCGATCTACTCTACTGTAAC--CTCAGA
* ** *
20415637 GAGATAAGATCTGTTT-CTTTAGTCT
61 GAGATAAGATCT-TTTATTTTAACCC
* * * * *
20415662 GCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAATCTCAGAGAGAT
1 GCTCCACTGCAACCTCAGGGAGATAATACTTGATGCGATCTACTCTACTGTAACCTCAGAGAGAT
20415727 AAGATCTTTTATTTTAACCC
66 AAGATCTTTTATTTTAACCC
20415747 GCTCCACTGCAAC
1 GCTCCACTGCAAC
20415760 TTCAACGAGA
Statistics
Matches: 139, Mismatches: 36, Indels: 20
0.71 0.18 0.10
Matches are distributed among these distances:
84 15 0.11
85 57 0.41
86 5 0.04
87 45 0.32
88 17 0.12
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (85 bp):
GCTCCACTGCAACCTCAGGGAGATAATACTTGATGCGATCTACTCTACTGTAACCTCAGAGAGAT
AAGATCTTTTATTTTAACCC
Found at i:20415759 original size:432 final size:428
Alignment explanation
Indices: 20414797--20415733 Score: 1242
Period size: 432 Copynumber: 2.2 Consensus size: 428
20414787 TGTAGCTTCA
* * * * ** *
20414797 ATCTGTTCCACTACACCACCAAGGAAATAAGATATGATGTGATCTACTCTACTGCAACTTCAGAG
1 ATCTGCTCCACTACACC-TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAAC-TCAGAG
*
20414862 AGATAAGATCTGATGTGATCTACTCTACTGAAACCTCAAAGAGATAAGATCTATTATTTTAATTC
64 AGATAAGATCTGATGTGATCTACTCTACTGCAACCTCAAAGAGATAAGATCTATTATTTTAATTC
* *
20414927 GCTCCACTGCAACTTCAGGAAGATAGGATTACTGGCTTCAATCAGCTCCGCTACTGCTTAGGGAG
129 GCTCCACTGCAACTTCAGGAAGATAGGATTAATGGCTTCAATCAGCTCCGCTACGGCTTAGGGAG
*
20414992 ATAAGATCTGCCATTCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATTTCTTCAGTC
194 ATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATTTCTTCAGTC
** *
20415057 TGCTCCACTGCATTCTCATGGAGATAAGAACTAATACGATCTACTCTACTGCAACCTCAGAGAGC
259 TGCTCCACTGCAACCTCATGGAGATAAGAACTAATACGATCTACTCTACTGCAACCTCAGAGAGA
* * **
20415122 TAAGATCTTTTATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTACTGGCTTCAATCT
324 TAAGATCTTTTATTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTTCAATCT
20415187 GCTCCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTTG
389 GCTCCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTTG
** * * *** * * *
20415227 ATCTGCTCCACTACTGCTTAGGGAGGTAAGGTTTGTTTCTTCAGTCTACTCTACTGCAACCTCA-
1 ATCTGCTCCACTACACCTCAGGGAGATAAGACCTGATGC--GA-TCTACTCTACTGCAA-CTCAG
* * * *
20415291 AGAAGATAAGACCTGATGCGATCTACTCTACTGCAACCTCAGAGAGATAAGATCTTTTATTTTAA
62 AG-AGATAAGATCTGATGTGATCTACTCTACTGCAACCTCAAAGAGATAAGATCTATTATTTTAA
* * *
20415356 -TCTGCTCCACTGTAACTTCAGGGAGATAGGATTAATGGCTTCAATCTA-CTTCGCTACGGCTTA
126 TTC-GCTCCACTGCAACTTCAGGAAGATAGGATTAATGGCTTCAATC-AGCTCCGCTACGGCTTA
*
20415419 GGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGA-TTCT
189 GGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATTTCT
* * * * * *
20415483 TCATTCTGCTCCGCTGCAACCTCA-GAGAGATAA-TACTTGATGCGATCTACTCTACTGTAACCT
253 TCAGTCTGCTCCACTGCAACCTCATG-GAGATAAGAAC-TAATACGATCTACTCTACTGCAACCT
20415546 CAGAGAGATAAGATCTTTTATTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGC
316 CAGAGAGATAAGATCTTTTATTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGC
* * * * *
20415611 TTCTATCTGCTCCTCTACGGCTTAGGGAGATAAGATCTG--TTTCTTT
381 TTCAATCTGCTCCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTTG
* *
20415657 AGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAATCTCAGA
1 A-TCTGCTCCACTAC-ACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAA-CTCAGA
20415722 GAGATAAGATCT
63 GAGATAAGATCT
20415734 TTTATTTTAA
Statistics
Matches: 436, Mismatches: 58, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
429 41 0.09
430 22 0.05
431 19 0.04
432 351 0.81
433 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (428 bp):
ATCTGCTCCACTACACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTCAGAGAG
ATAAGATCTGATGTGATCTACTCTACTGCAACCTCAAAGAGATAAGATCTATTATTTTAATTCGC
TCCACTGCAACTTCAGGAAGATAGGATTAATGGCTTCAATCAGCTCCGCTACGGCTTAGGGAGAT
AAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATTTCTTCAGTCTG
CTCCACTGCAACCTCATGGAGATAAGAACTAATACGATCTACTCTACTGCAACCTCAGAGAGATA
AGATCTTTTATTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGC
TCCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTTG
Found at i:20416028 original size:88 final size:88
Alignment explanation
Indices: 20415873--20416040 Score: 219
Period size: 88 Copynumber: 1.9 Consensus size: 88
20415863 CTAATGTCTT
* ** * * ** * * *
20415873 CGATCTACTTCGCTGCCAGTACAGGAAGGTAAGATCTACCATTTTCAACCTGTTTCGCTGCTGCT
1 CGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTACT
20415938 CAGGGAGATAAGGCTGGTGCTTC
66 CAGGGAGATAAGGCTGGTGCTTC
* *
20415961 CGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAGCCTACTCCACTGTTACT
1 CGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTACT
*
20416026 CAGGGAGGTAAGGCT
66 CAGGGAGATAAGGCT
20416041 TAAATCTTCT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (88 bp):
CGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTACT
CAGGGAGATAAGGCTGGTGCTTC
Found at i:20418359 original size:5 final size:6
Alignment explanation
Indices: 20418345--20418378 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
20418335 TGACCTCTCC
* *
20418345 TTTTCT TTTTCT TTTTCT TTTTCC TGTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
20418379 TATTATTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTCT
Found at i:20418362 original size:12 final size:12
Alignment explanation
Indices: 20418342--20418378 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
20418332 GCTTGACCTC
20418342 TCCTTTTCTTTT
1 TCCTTTTCTTTT
*
20418354 TCTTTTTCTTTT
1 TCCTTTTCTTTT
*
20418366 TCCTGTTCTTTT
1 TCCTTTTCTTTT
20418378 T
1 T
20418379 TATTATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.76
Consensus pattern (12 bp):
TCCTTTTCTTTT
Found at i:20424808 original size:16 final size:15
Alignment explanation
Indices: 20424780--20424813 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
20424770 AAACCATGAA
*
20424780 AAAAGAAAGGAAAAC
1 AAAAGAAAAGAAAAC
20424795 AAAAGAAAAAGAAAAC
1 AAAAG-AAAAGAAAAC
20424811 AAA
1 AAA
20424814 TAAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAC
Found at i:20427683 original size:79 final size:80
Alignment explanation
Indices: 20427560--20427731 Score: 226
Period size: 79 Copynumber: 2.2 Consensus size: 80
20427550 GGACTAAGAT
*
20427560 CCGAAGGCATTTGTGTGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGA-TACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGA-ATTACT
*
20427624 A-ATTCCGGGCTAAG-C
65 ATA-ACCGGGCTAAGTC
* ** *
20427639 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAATTACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTACGAATTACT
*
20427703 ATAACCGGGCTATGTC
65 ATAACCGGGCTAAGTC
20427719 CCGAAGGCATTTG
1 CCGAAGGCATTTG
20427732 AACGAGGAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.79
80 15 0.18
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAATTACTA
TAACCGGGCTAAGTC
Found at i:20427694 original size:40 final size:40
Alignment explanation
Indices: 20427507--20427731 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
20427497 TTGAATGATG
* * * *
20427507 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20427547 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
20427587 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
20427627 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20427666 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20427707 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20427732 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 9 0.06
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20427750 original size:119 final size:120
Alignment explanation
Indices: 20427507--20427737 Score: 285
Period size: 119 Copynumber: 1.9 Consensus size: 120
20427497 TTGAATGATG
*
20427507 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
20427572 GTGTGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
* * * **
20427627 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
20427689 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAG
20427738 GAGCTATATC
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
118 3 0.03
119 73 0.76
120 20 0.21
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
Found at i:20427753 original size:79 final size:79
Alignment explanation
Indices: 20427581--20427764 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 79
20427571 TGTGTGAGAT
** *
20427581 ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAG
1 ACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAG
** *
20427645 GCATTTGTGCGAGTT
65 GCATTTGAACGAGTG
* * *
20427660 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGA
1 ACTAAATCCGGGTTAAATCCCGAAGGCATTTGTACGAGA-TACTAAT-ACCGGGCTAAG-CCCGA
20427723 AGGCATTTGAACGAG-G
63 AGGCATTTGAACGAGTG
* *
20427739 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAATCCCGAAGG
20427765 TACGTGATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 4 0.05
79 59 0.67
80 25 0.28
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAATCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGG
CATTTGAACGAGTG
Found at i:20430347 original size:26 final size:26
Alignment explanation
Indices: 20430307--20430359 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
20430297 ACTGGGAAAC
*
20430307 CCCCAGTTCGCAACTTACCTGGCGAA
1 CCCCAGTTCGCAACTTAACTGGCGAA
* * *
20430333 CCCCAGTTTGTAACTTAACTGGTGAA
1 CCCCAGTTCGCAACTTAACTGGCGAA
20430359 C
1 C
20430360 ACTAGCTCGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (26 bp):
CCCCAGTTCGCAACTTAACTGGCGAA
Found at i:20430737 original size:41 final size:41
Alignment explanation
Indices: 20430692--20430775 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
20430682 TACATCAAAG
20430692 TATACGAGTAGCGCATACACAATTCATCATGTAATGAAGAT
1 TATACGAGTAGCGCATACACAATTCATCATGTAATGAAGAT
20430733 TATACGAGTAGCGCATACACAATTCATCATGTAATGAAGAT
1 TATACGAGTAGCGCATACACAATTCATCATGTAATGAAGAT
20430774 TA
1 TA
20430776 AAGTATGTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (41 bp):
TATACGAGTAGCGCATACACAATTCATCATGTAATGAAGAT
Found at i:20433038 original size:40 final size:40
Alignment explanation
Indices: 20432984--20433101 Score: 123
Period size: 40 Copynumber: 3.0 Consensus size: 40
20432974 GTAAATTATA
* *
20432984 CCCTGATTGCACTTACGTGCCCTTGTTTGTACTTCAGTAC
1 CCCTAATTGCACTTACGTGCCCCTGTTTGTACTTCAGTAC
* * * * *
20433024 CCCTAATTGTACTTATGTGCCCCTGATTGTATTTCGGTAC
1 CCCTAATTGCACTTACGTGCCCCTGTTTGTACTTCAGTAC
* *
20433064 CCCTGAA-TGCACAT-CAGTGCCCCTGTTTGCACTTCAGT
1 CCCT-AATTGCACTTAC-GTGCCCCTGTTTGTACTTCAGT
20433102 TTCCCTGATC
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
40 60 0.97
41 2 0.03
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.36
Consensus pattern (40 bp):
CCCTAATTGCACTTACGTGCCCCTGTTTGTACTTCAGTAC
Found at i:20433068 original size:20 final size:20
Alignment explanation
Indices: 20433010--20433101 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 20
20433000 GTGCCCTTGT
*
20433010 TTGTACTTCAGTACCCCTAA
1 TTGTACTTCAGTACCCCTGA
*
20433030 TTGTACTT-ATGTGCCCCTGA
1 TTGTACTTCA-GTACCCCTGA
* *
20433050 TTGTATTTCGGTACCCCTGA
1 TTGTACTTCAGTACCCCTGA
* * * * *
20433070 ATGCACATCAGTGCCCCTGT
1 TTGTACTTCAGTACCCCTGA
*
20433090 TTGCACTTCAGT
1 TTGTACTTCAGT
20433102 TTCCCTGATC
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
19 1 0.02
20 55 0.98
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGTACTTCAGTACCCCTGA
Found at i:20439152 original size:13 final size:13
Alignment explanation
Indices: 20439134--20439202 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
20439124 GTATCAACAC
20439134 TTCATATAACCAT
1 TTCATATAACCAT
***
20439147 TTCATATATTTAT
1 TTCATATAACCAT
* *
20439160 TTCCGTATAAACAT
1 TT-CATATAACCAT
* *
20439174 TTCGTATATCCAT
1 TTCATATAACCAT
*
20439187 TTCATATTACCAT
1 TTCATATAACCAT
20439200 TTC
1 TTC
20439203 CATTTACTCA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
13 34 0.79
14 9 0.21
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.46
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:20439156 original size:53 final size:53
Alignment explanation
Indices: 20439093--20439202 Score: 134
Period size: 53 Copynumber: 2.1 Consensus size: 53
20439083 AAATGTCCCT
*
20439093 TTTCACATATTTATATT-CATATAAATATTTCGTATCA-ACACTTCATATAACCA
1 TTTCACATATTTAT-TTCCATATAAACATTTCGTAT-ATACACTTCATATAACCA
* * * * *
20439146 TTTCATATATTTATTTCCGTATAAACATTTCGTATATCCATTTCATATTACCA
1 TTTCACATATTTATTTCCATATAAACATTTCGTATATACACTTCATATAACCA
20439199 TTTC
1 TTTC
20439203 CATTTACTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.06
53 46 0.94
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.45
Consensus pattern (53 bp):
TTTCACATATTTATTTCCATATAAACATTTCGTATATACACTTCATATAACCA
Found at i:20439187 original size:40 final size:39
Alignment explanation
Indices: 20439108--20439193 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
20439098 CATATTTATA
*
20439108 TTCATATAAATATTTCGTATCAACACTTCATATAACCAT
1 TTCATATAAATATTTCGTATAAACACTTCATATAACCAT
** * * *
20439147 TTCATATATTTATTTCCGTATAAACATTTCGTATATCCAT
1 TTCATATAAATATTT-CGTATAAACACTTCATATAACCAT
20439187 TTCATAT
1 TTCATAT
20439194 TACCATTTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 13 0.32
40 27 0.68
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (39 bp):
TTCATATAAATATTTCGTATAAACACTTCATATAACCAT
Found at i:20439188 original size:27 final size:27
Alignment explanation
Indices: 20439138--20439189 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
20439128 CAACACTTCA
* **
20439138 TATAACCATTTCATATATTTATTTCCG
1 TATAAACATTTCATATATCCATTTCCG
*
20439165 TATAAACATTTCGTATATCCATTTC
1 TATAAACATTTCATATATCCATTTC
20439190 ATATTACCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (27 bp):
TATAAACATTTCATATATCCATTTCCG
Found at i:20439202 original size:40 final size:40
Alignment explanation
Indices: 20439119--20439203 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
20439109 TCATATAAAT
* **
20439119 ATTT-CGTATCAACACTTCATATAACCATTTCATATATTT
1 ATTTCCGTATAAACACTTCATATAACCATTTCATATATCC
* * *
20439158 ATTTCCGTATAAACATTTCGTATATCCATTTCATAT-TACC
1 ATTTCCGTATAAACACTTCATATAACCATTTCATATAT-CC
20439198 ATTTCC
1 ATTTCC
20439204 ATTTACTCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 5 0.13
40 33 0.87
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.44
Consensus pattern (40 bp):
ATTTCCGTATAAACACTTCATATAACCATTTCATATATCC
Found at i:20450361 original size:2 final size:2
Alignment explanation
Indices: 20450354--20450387 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
20450344 GTTTCAACTT
*
20450354 CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
20450388 ACCATTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Done.