Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 39
Found at i:2098969 original size:29 final size:29
Alignment explanation
Indices: 2098820--2099003 Score: 143
Period size: 29 Copynumber: 6.3 Consensus size: 29
2098810 ATTCGGTTTT
* * *** *
2098820 GGTGCTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAATTAATTCGAAATG
* *** *
2098849 GGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAATTAATTCGAAATG
* *** *
2098878 GGTGCTATTCTGGTAAATAATTCGGTTTTT
1 GGTGCTATTCTGGTAATTAATTC-GAAATG
* * *** *
2098908 GGTGCTATCCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAATTAATTCGAAATG
*
2098937 GGTGCTATTCTGGTAATTAATTTGAAATG
1 GGTGCTATTCTGGTAATTAATTCGAAATG
*
2098966 GGTGCTATTTTGGTAATTAATTCGAAATG
1 GGTGCTATTCTGGTAATTAATTCGAAATG
2098995 GGTGCTATT
1 GGTGCTATT
2099004 TTTGTAAAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
29 114 0.81
30 27 0.19
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.44
Consensus pattern (29 bp):
GGTGCTATTCTGGTAATTAATTCGAAATG
Found at i:2098970 original size:88 final size:87
Alignment explanation
Indices: 2098791--2098989 Score: 290
Period size: 88 Copynumber: 2.3 Consensus size: 87
2098781 ACCGTTGACC
* **
2098791 GGTGTTATTTTGGTAAATAATTCGGTTTTGGTGCTATTTTGGTAAATAATTCGGTTTTGGTGCTA
1 GGTGCTATTTTGGTAAATAATTCGGTTTTGGTGCTATCCTGGTAAATAATTCGGTTTTGGTGCTA
*** *
2098856 TTCTGGTAAATAATTCGGTTTT
66 TTCTGGTAAATAATTCGAAATG
*
2098878 GGTGCTATTCTGGTAAATAATTCGGTTTTTGGTGCTATCCTGGTAAATAATTCGGTTTTGGTGCT
1 GGTGCTATTTTGGTAAATAATTCGG-TTTTGGTGCTATCCTGGTAAATAATTCGGTTTTGGTGCT
* *
2098943 ATTCTGGTAATTAATTTGAAATG
65 ATTCTGGTAAATAATTCGAAATG
*
2098966 GGTGCTATTTTGGTAATTAATTCG
1 GGTGCTATTTTGGTAAATAATTCG
2098990 AAATGGGTGC
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 23 0.23
88 76 0.77
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.46
Consensus pattern (87 bp):
GGTGCTATTTTGGTAAATAATTCGGTTTTGGTGCTATCCTGGTAAATAATTCGGTTTTGGTGCTA
TTCTGGTAAATAATTCGAAATG
Found at i:2099010 original size:29 final size:29
Alignment explanation
Indices: 2098791--2099010 Score: 134
Period size: 29 Copynumber: 7.6 Consensus size: 29
2098781 ACCGTTGACC
* * *** *
2098791 GGTGTTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTATTTTGGTAATTAATTCGAAATG
* *** *
2098820 GGTGCTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTATTTTGGTAATTAATTCGAAATG
* * *** *
2098849 GGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTTTGGTAATTAATTCGAAATG
* * *** *
2098878 GGTGCTATTCTGGTAAATAATTCGGTTTTT
1 GGTGCTATTTTGGTAATTAATTC-GAAATG
** * *** *
2098908 GGTGCTATCCTGGTAAATAATTCGGTTTT
1 GGTGCTATTTTGGTAATTAATTCGAAATG
* *
2098937 GGTGCTATTCTGGTAATTAATTTGAAATG
1 GGTGCTATTTTGGTAATTAATTCGAAATG
2098966 GGTGCTATTTTGGTAATTAATTCGAAATG
1 GGTGCTATTTTGGTAATTAATTCGAAATG
*
2098995 GGTGCTATTTTTGTAA
1 GGTGCTATTTTGGTAA
2099011 AATGTTCAAC
Statistics
Matches: 175, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
29 148 0.85
30 27 0.15
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.45
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTCGAAATG
Found at i:2101207 original size:25 final size:25
Alignment explanation
Indices: 2101142--2101207 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
2101132 AAACTTAATT
*
2101142 TAAAAACAAATAATAAAATAAAAACAG
1 TAAAAAC-AA-AATAAAATAAAAACAA
* *
2101169 TAACAACAACATAAAATAATAAA-AA
1 TAAAAACAAAATAAAATAA-AAACAA
*
2101194 TAAAAATAAAATAA
1 TAAAAACAAAATAA
2101208 GTACAATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 21 0.66
26 5 0.16
27 6 0.19
ACGTcount: A:0.74, C:0.08, G:0.02, T:0.17
Consensus pattern (25 bp):
TAAAAACAAAATAAAATAAAAACAA
Found at i:2103912 original size:23 final size:23
Alignment explanation
Indices: 2103877--2103949 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2103867 ATACTTTACA
* *
2103877 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACATATTACATT
*
2103900 ATATAAACGCTACATATTACATT
1 ATATAAGCGCTACATATTACATT
*
2103923 ATATAAGCGCTACATATTACATC
1 ATATAAGCGCTACATATTACATT
2103946 ATAT
1 ATAT
2103950 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACATATTACATT
Found at i:2104299 original size:39 final size:39
Alignment explanation
Indices: 2104256--2104334 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
2104246 AGACGCCTAT
2104256 AATTAATAAATTAATATCTTAAAACTCACTCAAAAGATA
1 AATTAATAAATTAATATCTTAAAACTCACTCAAAAGATA
*
2104295 AATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
1 AATTAATAAATTAATATCTTAAAACTCACTCAAAAGATA
2104334 A
1 A
2104335 CCTTAAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.30
Consensus pattern (39 bp):
AATTAATAAATTAATATCTTAAAACTCACTCAAAAGATA
Found at i:2104439 original size:23 final size:23
Alignment explanation
Indices: 2104412--2104475 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
2104402 AATATGAGCA
*
2104412 CTACCTATTACATTTTATAAACG
1 CTACCTATTACATTATATAAACG
*
2104435 CTACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
*
2104458 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
2104476 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:2104700 original size:526 final size:528
Alignment explanation
Indices: 2103769--2105152 Score: 1966
Period size: 529 Copynumber: 2.7 Consensus size: 528
2103759 AGATACATAT
* *
2103769 AATTACTAAATTGATATCTTAAAACTTACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG
1 AATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG
*
2103834 AAATAAGTATGGACACTTTTATAAAAAAGATAGATACTTTACAATATAAGCACTACCTATTACAT
66 AAAAAAGTATGGACACTTTTAT-AAAAAGATAGATACTTTACAATATAAGCACTACCTATTACAT
* *
2103899 TATATAAACGCTACATATTACATTATATAAGCGCTACATATTACATCATATTTTTACCTATTATA
130 TATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
* *
2103964 TTGAAAGTGTTCATACTTTTTATAAAAAGGATCGGTACTTTTTTTAAAGTTA--TAATTTATGTT
195 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
2104027 TC-ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
260 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
2104091 CAAAAAATTATTTGATTATTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
325 CAAAAAATTATTTGATTATTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
2104156 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
390 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
2104221 ATCGTAACATAAAAAATAAATCATTAGACGCCTATAATTAATAAATTAATATCTTAAAACTCACT
455 ATCGTAACATAAAAAATAAATCATTAGACGCCTATAATTAATAAATTAATATCTTAAAACTCACT
2104286 CAAAAGATA
520 CAAAAGATA
2104295 AATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG
1 AATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG
* *
2104360 AAAAAAGTATGGACACTTTTATTAAAAGGATAGATACTTTACAATATGAGCACTACCTATTACAT
66 AAAAAAGTATGGACACTTTTA-TAAAAAGATAGATACTTTACAATATAAGCACTACCTATTACAT
*
2104425 TTTATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
130 TATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
2104490 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
195 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
2104555 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACA
260 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
2104620 CAAAAAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATAT
325 CAAAAAATTATTTGATTATTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
2104685 TAACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
390 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* * *
2104750 ATTGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
455 ATCGTAACATAAAAAATAAATCATTAGACGCCTATAATTAATAAATTAATATCTTAAAACTCACT
*
2104815 CAAAATATA
520 CAAAAGATA
** * * ** * ** ** *
2104824 ACCT--TAAATTAATGT-TT-----TC-CAC-AGTGA-AA----AAAGT-ATG---GACACTTTT
1 AATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG
* * * * * * *
2104870 ATAAAAAGAATAGATA-TTTTACAATATAAG-CA-CTACCTATTACATTATATAA--AC--GCTA
66 A-AAAAAGTATGGACACTTTTATAA-A-AAGATAGATA-CT-TTACA--ATATAAGCACTACCTA
2104928 -T-C--TATTA----------------CATTATATAAGCGCTACCTATTACATCATATTTTTACC
124 TTACATTA-TATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
2104973 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAAT
188 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAAT
*
2105038 TTATGTTTAAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
253 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
2105103 ATTTACAAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
318 ATTTACACAAAAAATTATTTGATTATTTTGATATTTTATAAAATAATATT
2105153 AATTTGGGTC
Statistics
Matches: 800, Mismatches: 46, Indels: 60
0.88 0.05 0.07
Matches are distributed among these distances:
490 213 0.27
505 1 0.00
506 2 0.00
507 1 0.00
508 1 0.00
509 7 0.01
510 14 0.02
511 20 0.03
513 8 0.01
514 4 0.00
518 2 0.00
519 3 0.00
520 2 0.00
521 2 0.00
526 237 0.30
527 11 0.01
528 13 0.02
529 259 0.32
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (528 bp):
AATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG
AAAAAAGTATGGACACTTTTATAAAAAGATAGATACTTTACAATATAAGCACTACCTATTACATT
ATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATAT
TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
CAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAATTATTTGATTATTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
TCGTAACATAAAAAATAAATCATTAGACGCCTATAATTAATAAATTAATATCTTAAAACTCACTC
AAAAGATA
Found at i:2104919 original size:23 final size:23
Alignment explanation
Indices: 2104893--2104965 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2104883 ATATTTTACA
*
2104893 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
2104916 ATATAAACGCTATCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2104939 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2104962 ATAT
1 ATAT
2104966 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2108068 original size:120 final size:120
Alignment explanation
Indices: 2107855--2108099 Score: 418
Period size: 120 Copynumber: 2.0 Consensus size: 120
2107845 TTTTTCTTCC
*
2107855 ATTCTGGACATAAAGTACTGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
2107920 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* *
2107975 ATTCTGGACATAAAGTACCGATACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * * * *
2108040 CATAAAACCGGTATATTTATATCGGTTATATTACAAACTTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
2108095 ATTCT
1 ATTCT
2108100 CGGTTCCGAT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:2108241 original size:303 final size:303
Alignment explanation
Indices: 2107690--2108587 Score: 1609
Period size: 303 Copynumber: 3.0 Consensus size: 303
2107680 TTAAGATTAG
*
2107690 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
2107755 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTCGGTTCCAATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTCGGTTCCGATGTGTAAATGTCGA
*
2107820 CACTTTTTT-ACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACTGACACAATAT
131 CA-TTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATAT
2107884 TAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTAT
195 TAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTAT
2107949 ATTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
260 ATTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
*
2107993 CGATACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
2108058 ATATCGGTTATATTACAAACTTATCTATTACATTATAATTCTCGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTCGGTTCCGATGTGTAAATGTCGA
2108123 CATTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CATTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
2108188 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
2108253 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
* * *
2108296 CGACACAAAATTAAAAAGTGTCTATATAGGTTGTAGACTTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
2108361 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTCGGTTCCGATGTGTAAATGTCGA
* * *
2108426 CACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAAAATT
131 CATTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* * * *
2108491 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGTTATATTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
* *
2108556 TTACAAATTTATCTATTACATTATAATTCTGG
261 TTACAAAATTATCTAGTACATTATAATTCTGG
2108588 GTTCCGATGT
Statistics
Matches: 572, Mismatches: 22, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
302 6 0.01
303 566 0.99
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (303 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTCGGTTCCGATGTGTAAATGTCGA
CATTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:2108371 original size:120 final size:120
Alignment explanation
Indices: 2108158--2108404 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
2108148 TTTTTCTTCC
*
2108158 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
2108223 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* * *
2108278 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCTATATAGGTTGTAGACTTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * *
2108343 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
2108398 ATTCTGG
1 ATTCTGG
2108405 GTTCCGATGT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:2108586 original size:183 final size:183
Alignment explanation
Indices: 2108278--2109047 Score: 1434
Period size: 183 Copynumber: 4.2 Consensus size: 183
2108268 GTACATTATA
* * *
2108278 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCTATATAGGTTGTAGACTTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
2108343 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
2108408 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
2108461 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
2108526 CATAAAACCGTTATATTTATACCGGTTATATTACAAATTTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
2108591 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
2108644 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
2108709 CATAAAACCGGTATATTTATACTGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
2108774 CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCGACA-ATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
2108826 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGATCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
2108891 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
2108956 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
2109009 ATTTTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
2109048 GAAAACTTTG
Statistics
Matches: 572, Mismatches: 14, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
182 179 0.31
183 393 0.69
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:2108980 original size:365 final size:366
Alignment explanation
Indices: 2108278--2109047 Score: 1434
Period size: 365 Copynumber: 2.1 Consensus size: 366
2108268 GTACATTATA
* * *
2108278 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCTATATAGGTTGTAGACTTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
2108343 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
2108408 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACATA
131 CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACATA
*
2108473 AAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGTT
196 AAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
*
2108538 ATATTTATACCGGTTATATTACAAATTTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
261 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
2108603 TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
326 TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
2108644 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
2108709 CATAAAACCGGTATATTTATACTGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
2108774 CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCGACA-ATTTTTCTTCCATTCTGGACATA
131 CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACATA
* *
2108838 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGATCTATTCGCTCATAAAACCGGT
196 AAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
2108903 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
261 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
2108968 TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
326 TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
2109009 ATTTTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
2109048 GAAAACTTTG
Statistics
Matches: 393, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
365 228 0.58
366 165 0.42
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (366 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACATA
AAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAA
TGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:2110264 original size:3 final size:3
Alignment explanation
Indices: 2110256--2110285 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2110246 ACTTGTTTGG
*
2110256 ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
2110286 GTTATCTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:2110292 original size:12 final size:12
Alignment explanation
Indices: 2110257--2110314 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
2110247 CTTGTTTGGA
* *
2110257 TCATCATCATCA
1 TCATCGTCATCT
*
2110269 TCATCATCATCT
1 TCATCGTCATCT
*
2110281 TCATCGTTATCT
1 TCATCGTCATCT
*
2110293 TCATCGTCAGCT
1 TCATCGTCATCT
*
2110305 TCATCTTCAT
1 TCATCGTCAT
2110315 TGACCGCTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.22, C:0.31, G:0.05, T:0.41
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:2110314 original size:6 final size:6
Alignment explanation
Indices: 2110257--2110314 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
2110247 CTTGTTTGGA
* * * * *
2110257 TCATCA TCATCA TCATCA TCATCT TCATCGT T-ATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATC-T TCATCT TCATCT TCATCT
2110305 TCATCT TCAT
1 TCATCT TCAT
2110315 TGACCGCTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
5 2 0.04
6 41 0.91
7 2 0.04
ACGTcount: A:0.22, C:0.31, G:0.05, T:0.41
Consensus pattern (6 bp):
TCATCT
Found at i:2112156 original size:200 final size:200
Alignment explanation
Indices: 2111813--2112976 Score: 2031
Period size: 200 Copynumber: 5.8 Consensus size: 200
2111803 AACATTAAAC
*
2111813 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
2111878 AAAATTACCTAATACATTATACTTATGGGTTTAGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * *
2111943 GATCGACACTTTATGGTTGCACCCTGTTTGTCATTCAATCTGGACCAAAAATATCGATACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2112008 ACAAA
196 ACAAA
* *
2112013 AGTGTCGACACATTATTTAGACCTATTCTATCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
2112078 AAAATTACATATTACATTATACTTATGGGTTTCGATATTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
2112143 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
*
2112208 AAAAA
196 ACAAA
* * *
2112213 AGTGTCGAAACATTATTTAGACCTATTCTCTCATAAAATCGGTATACTTGTACCAGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
2112278 AAAATTATCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
2112343 GATCGACACTTTATTGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2112408 ACAAA
196 ACAAA
2112413 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * *
2112478 AAAATTACCTATTACATAATACTTATGGGTTTCGATGTTTATCGAATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
2112543 GATCGACACTTTATTGTTGCATCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2112608 ACAAA
196 ACAAA
* *
2112613 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
2112678 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTCTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
2112743 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2112808 ACAAA
196 ACAAA
* *
2112813 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGATATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
2112878 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTCTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
2112943 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
2112977 ATTGTAAATT
Statistics
Matches: 922, Mismatches: 42, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 922 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:2113221 original size:18 final size:18
Alignment explanation
Indices: 2113198--2113258 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
2113188 TCTCATTCAT
*
2113198 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
2113216 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
2113235 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
2113254 AATTA
1 AATTA
2113259 ACCATATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:2113234 original size:19 final size:19
Alignment explanation
Indices: 2113210--2113258 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2113200 TTATATTCAC
2113210 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2113229 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2113248 ATACAAAATTA
1 ATACAAAATTA
2113259 ACCATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2115085 original size:33 final size:33
Alignment explanation
Indices: 2115048--2115146 Score: 180
Period size: 33 Copynumber: 3.0 Consensus size: 33
2115038 CATCTTAATA
2115048 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTTAACACCCCAACTTCTTTCACCACT
2115081 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTTAACACCCCAACTTCTTTCACCACT
* *
2115114 TCACCCCTTAACACCTCTACTTCTTTCACCACT
1 TCACCCCTTAACACCCCAACTTCTTTCACCACT
2115147 CCATCTATTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTTAACACCCCAACTTCTTTCACCACT
Found at i:2115205 original size:21 final size:21
Alignment explanation
Indices: 2115180--2115244 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
2115170 CCCCTTATGC
* * *
2115180 CTCTCAAGTGTATCTTTGACT
1 CTCTCAAGTTTCTCTTAGACT
*
2115201 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTAGACT
*
2115222 CTATCAAGTTTCTCTTAGACT
1 CTCTCAAGTTTCTCTTAGACT
2115243 CT
1 CT
2115245 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTAGACT
Found at i:2117702 original size:161 final size:162
Alignment explanation
Indices: 2117429--2117802 Score: 536
Period size: 161 Copynumber: 2.3 Consensus size: 162
2117419 TGTACTTACG
* ** *
2117429 AAAGTATCGACATTTTCAATATATCCGGTATTGTTTTACCGGTTTTATCATATTTTTACCTGTTA
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATATTTTTACCTGGTA
** * *
2117494 TATCGTTGTAAATCGATATTTTTTTTTAAAGTATCGACACATTATAGGCGCTAAAACTGCTTCTC
66 TATCGTTGTAAATCGATACATTTTTTAAAAGTATCGACACATTATAGGAGCTAAAACTGCTTCTC
2117559 TTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 TTTTAAATTCACAAAGTGTCGATCCTTATATT
*
2117590 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACTGGTTTTATCATATTTTTACCTGGTA
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATATTTTTACCTGGTA
* ** * * **
2117655 TATCGTTTTGGATCGATACATTTTTTAAAAGTATTGACACTTTATAGGATTTAAAACTGCTTCTC
66 TATCGTTGTAAATCGATACATTTTTTAAAAGTATCGACACATTATAGGAGCTAAAACTGCTTCTC
*
2117720 TTTTAAATTCACGAAGTGTCGATCCTTATATT
131 TTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * *
2117752 AAAGTA-CAGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCAT
1 AAAGTATC-GACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCAT
2117803 TTCAATACCG
Statistics
Matches: 189, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
161 144 0.76
162 45 0.24
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (162 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATATTTTTACCTGGTA
TATCGTTGTAAATCGATACATTTTTTAAAAGTATCGACACATTATAGGAGCTAAAACTGCTTCTC
TTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:2121413 original size:20 final size:20
Alignment explanation
Indices: 2121385--2121425 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2121375 TTTTATCACA
*
2121385 TAAAATTCTCTCAAATTCTC
1 TAAAATTCTCTCAAATACTC
*
2121405 TAAATTTCTCTCAAATACTC
1 TAAAATTCTCTCAAATACTC
2121425 T
1 T
2121426 CTTTTTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATTCTCTCAAATACTC
Found at i:2121427 original size:12 final size:10
Alignment explanation
Indices: 2121387--2121426 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
2121377 TTATCACATA
2121387 AAATTCTCTC
1 AAATTCTCTC
2121397 AAATTCTCT-
1 AAATTCTCTC
2121406 AAATTTCTCTC
1 AAA-TTCTCTC
*
2121417 AAATACTCTC
1 AAATTCTCTC
2121427 TTTTTAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:2121459 original size:16 final size:17
Alignment explanation
Indices: 2121438--2121471 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2121428 TTTTAAGGTA
2121438 TATTTTA-TAATATTTT
1 TATTTTATTAATATTTT
2121454 TATTTTATTTAATATTTT
1 TATTTTA-TTAATATTTT
2121472 ACTAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTATTAATATTTT
Found at i:2121675 original size:110 final size:111
Alignment explanation
Indices: 2121536--2121756 Score: 363
Period size: 110 Copynumber: 2.0 Consensus size: 111
2121526 TGGAAATCAT
* *
2121536 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * * *
2121601 TATTTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
* *
2121646 ATATCTCGATACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
2121711 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
2121757 TTTTTGTAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 69 0.68
111 33 0.32
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:2127521 original size:49 final size:51
Alignment explanation
Indices: 2127403--2127523 Score: 160
Period size: 49 Copynumber: 2.4 Consensus size: 51
2127393 ATACAAAACA
* *
2127403 CGGTACCTGCCCCGTGCTATATAAAATTATGTCAGGAGTAAAGGTATGTCG
1 CGGTACCTGACCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGTCG
*
2127454 CGGTACCT-ACCACACGCTATATAAAATTAT-T-AGGAGTAAAGGTATAG-CG
1 CGGTACCTGACC-CGCGCTATATAAAATTATGTCAGGAGTAAAGGTAT-GTCG
*
2127503 CGGTACCTGATCCGCGCTATA
1 CGGTACCTGACCCGCGCTATA
2127524 CCCCTACGTG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
49 32 0.52
50 6 0.10
51 24 0.39
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (51 bp):
CGGTACCTGACCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGTCG
Found at i:2127612 original size:50 final size:51
Alignment explanation
Indices: 2127535--2127649 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
2127525 CCCTACGTGA
* * * **
2127535 CGTATAGCGCGCTGCAGGGGCCGCGCTATA-CCTACGTGGCGCCAGCTCAC
1 CGTATAGCGCGGTGCAGGGGCCACGCTATACCCCACGTGGCGCCAAATCAC
* *
2127585 CGTATAGCGCGGTGCAGGGGGCACGCTATACCCCACGTGGCGCCAAATCAT
1 CGTATAGCGCGGTGCAGGGGCCACGCTATACCCCACGTGGCGCCAAATCAC
*
2127636 CGTATGGCGCGGTG
1 CGTATAGCGCGGTG
2127650 AAAGGGGCGT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 27 0.48
51 29 0.52
ACGTcount: A:0.17, C:0.32, G:0.34, T:0.17
Consensus pattern (51 bp):
CGTATAGCGCGGTGCAGGGGCCACGCTATACCCCACGTGGCGCCAAATCAC
Found at i:2127941 original size:16 final size:16
Alignment explanation
Indices: 2127916--2127960 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
2127906 ATTACTAATA
2127916 AGTCAGGTAAATATCT
1 AGTCAGGTAAATATCT
*
2127932 AGTCATGTAAATATCAT
1 AGTCAGGTAAATATC-T
*
2127949 A-TCAGTTAAATA
1 AGTCAGGTAAATA
2127961 ACAAGTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 23 0.92
17 2 0.08
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (16 bp):
AGTCAGGTAAATATCT
Found at i:2127982 original size:16 final size:16
Alignment explanation
Indices: 2127961--2127998 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2127951 CAGTTAAATA
*
2127961 ACAAGTT-AGATCATTT
1 ACAAGTTGAG-TCAATT
2127977 ACAAGTTGAGTCAATT
1 ACAAGTTGAGTCAATT
2127993 ACAAGT
1 ACAAGT
2127999 CAGGTTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (16 bp):
ACAAGTTGAGTCAATT
Found at i:2131791 original size:125 final size:122
Alignment explanation
Indices: 2131617--2131844 Score: 309
Period size: 122 Copynumber: 1.8 Consensus size: 122
2131607 AATTTTACAC
* * *
2131617 ATTTAAAATCTTTGGATAATTGCAAATAGATAATTGAGATATAGCAAGAGATGAAAAAGATATTA
1 ATTTAAAATCTTTGGATAATT-CAAATAGATAACTGAGATACAACAAGAGATG-AAAAG--ATTA
2131682 ACTAAA-AATAATAATAAAATAATTTCAGTCGTCTAATTTTAATTTTTTTACATTTACATAT
62 ACTAAAGAA-AATAATAAAATAATTTCAGTCGTCTAATTTTAATTTTTTTACATTTACATAT
* *
2131743 ATTTAAAAT-TGTTGGATGAATT-AAATAGATAACTGAGATACAATAAGAGGTGAAAAGATTAAC
1 ATTTAAAATCT-TTGGAT-AATTCAAATAGATAACTGAGATACAACAAGAGATGAAAAGATTAAC
* *
2131806 TAAAGAAAATAATAAGATAATTTTAGTCGTCTAATTTTA
64 TAAAGAAAATAATAAAATAATTTCAGTCGTCTAATTTTA
2131845 CTCATTCAAT
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
122 40 0.43
123 2 0.02
124 5 0.05
125 26 0.28
126 15 0.16
127 4 0.04
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (122 bp):
ATTTAAAATCTTTGGATAATTCAAATAGATAACTGAGATACAACAAGAGATGAAAAGATTAACTA
AAGAAAATAATAAAATAATTTCAGTCGTCTAATTTTAATTTTTTTACATTTACATAT
Found at i:2131908 original size:2 final size:2
Alignment explanation
Indices: 2131901--2131997 Score: 92
Period size: 2 Copynumber: 49.0 Consensus size: 2
2131891 GTATGATGTA
* * *
2131901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT A- AA ACT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * *
2131943 AT -T TT AC GT AT GAT GT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2131984 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2131998 GTAAAACTCT
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
1 3 0.04
2 72 0.92
3 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2133595 original size:10 final size:10
Alignment explanation
Indices: 2133580--2133607 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2133570 CTGTTCATGC
2133580 GTTGACCATA
1 GTTGACCATA
2133590 GTTGACCATA
1 GTTGACCATA
2133600 GTTGACCA
1 GTTGACCA
2133608 AAACTTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (10 bp):
GTTGACCATA
Found at i:2136102 original size:24 final size:24
Alignment explanation
Indices: 2136070--2136138 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
2136060 ACATTACCTA
* *
2136070 AATTATGTTCTGATTTCTGATCTG
1 AATTCTGTTATGATTTCTGATCTG
* * * *
2136094 GATTCTGTTATGATATATGTTCTG
1 AATTCTGTTATGATTTCTGATCTG
*
2136118 AATTCTGTTTTGATTTCTGAT
1 AATTCTGTTATGATTTCTGAT
2136139 ATCTCCGTTT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.20, C:0.10, G:0.17, T:0.52
Consensus pattern (24 bp):
AATTCTGTTATGATTTCTGATCTG
Found at i:2136303 original size:2 final size:2
Alignment explanation
Indices: 2136296--2136330 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2136286 GGGATAGGGC
2136296 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2136331 GTTTTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2140860 original size:24 final size:24
Alignment explanation
Indices: 2140783--2140891 Score: 78
Period size: 24 Copynumber: 4.5 Consensus size: 24
2140773 AAATATTTTA
*
2140783 TATGATTTCCGA-CTTGAATTCTGT
1 TATGATTTCTGATC-TGAATTCTGT
* * * * *
2140807 TATGATATATTACCTGAATTCTTT
1 TATGATTTCTGATCTGAATTCTGT
* * *
2140831 TCTGATTTCTGATCTGGATTTTGT
1 TATGATTTCTGATCTGAATTCTGT
* *
2140855 TATGATATT-TGTTCTTAATTCTGT
1 TATGAT-TTCTGATCTGAATTCTGT
*
2140879 TTTGATTTCTGAT
1 TATGATTTCTGAT
2140892 ATCTCCGTTT
Statistics
Matches: 62, Mismatches: 20, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
23 2 0.03
24 57 0.92
25 3 0.05
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.53
Consensus pattern (24 bp):
TATGATTTCTGATCTGAATTCTGT
Found at i:2144967 original size:18 final size:18
Alignment explanation
Indices: 2144927--2144968 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2144917 GTTTCCAATC
* *
2144927 TTAAAATTTCTAAATCAG
1 TTAAAATTTATAAAACAG
2144945 TTAAAATTTGATAAAACAG
1 TTAAAATTT-ATAAAACAG
2144964 -TAAAA
1 TTAAAA
2144969 AAATTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (18 bp):
TTAAAATTTATAAAACAG
Found at i:2145115 original size:14 final size:15
Alignment explanation
Indices: 2145069--2145115 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
2145059 ATGTATCGAC
2145069 ACATAAAGTTTCCAA
1 ACATAAAGTTTCCAA
2145084 ACATAAAGTTTCCAA
1 ACATAAAGTTTCCAA
2145099 ACATAAAGTTT-CAA
1 ACATAAAGTTTCCAA
2145113 ACA
1 ACA
2145116 AAGTGTCGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 6 0.19
15 26 0.81
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (15 bp):
ACATAAAGTTTCCAA
Found at i:2145631 original size:200 final size:199
Alignment explanation
Indices: 2145211--2145866 Score: 1044
Period size: 199 Copynumber: 3.3 Consensus size: 199
2145201 CAAGTAAACA
* *
2145211 AAAGTATCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAGATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* * * *
2145276 ATAGGTAAATTTCCAATATAACTGGTAGAAATATATCGGTTAATTAGAAAACATGTCTACATAAT
66 ATAGGTAAATTTCCAATGTAACTGGTAAAAATATACCGGTTAATTAGAAAACAGGTCTACATAAT
* * *
2145341 GTATCGACACTTATGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA-AGGGTGCA
131 GTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAACGGGGTGCA
*
2145405 CGCAT
195 CGCGT
* *
2145410 AAAGTGTCGATACATTTATTAAAAGTATCGATCCTAAAAACATCGAAACAAAAAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* * * * * * *
2145475 ATAGGTAAATTTCCAATGTAACCGGTAAAAATATACCAGTTTTATGAGAGAATAGGTCTACAAAA
66 ATAGGTAAATTTCCAATGTAACTGGTAAAAATATACC-GGTTAATTAGAAAACAGGTCTACATAA
* *
2145540 TGTATCGACAGTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGGGGTGTA
130 TGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGGGGTGCA
2145605 CGCGT
195 CGCGT
* *
2145610 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAATATCGAAACATATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* *
2145675 ATAGGTAAATTTCCAATGTAACTGGTATAAATATACCGGTTAATTAGAAAACAGATCTACATAAT
66 ATAGGTAAATTTCCAATGTAACTGGTAAAAATATACCGGTTAATTAGAAAACAGGTCTACATAAT
* *
2145740 GTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCTATAATGAATGCCAAACGGGGTGCAC
131 GTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGGGGTGCAC
2145805 GCGT
196 GCGT
2145809 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTA
2145867 CATCACCGAA
Statistics
Matches: 415, Mismatches: 40, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
199 241 0.58
200 174 0.42
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (199 bp):
AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
ATAGGTAAATTTCCAATGTAACTGGTAAAAATATACCGGTTAATTAGAAAACAGGTCTACATAAT
GTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGGGGTGCAC
GCGT
Found at i:2146967 original size:21 final size:21
Alignment explanation
Indices: 2146937--2147006 Score: 131
Period size: 21 Copynumber: 3.3 Consensus size: 21
2146927 CAAAACAGTG
*
2146937 TCGATACATTTATTGTAAGTA
1 TCGATCCATTTATTGTAAGTA
2146958 TCGATCCATTTATTGTAAGTA
1 TCGATCCATTTATTGTAAGTA
2146979 TCGATCCATTTATTGTAAGTA
1 TCGATCCATTTATTGTAAGTA
2147000 TCGATCC
1 TCGATCC
2147007 TCAAAACATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (21 bp):
TCGATCCATTTATTGTAAGTA
Found at i:2147509 original size:200 final size:200
Alignment explanation
Indices: 2147084--2147805 Score: 971
Period size: 200 Copynumber: 3.6 Consensus size: 200
2147074 AAACAAAAAT
2147084 GTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAGG
1 GTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAGG
* * * *
2147149 TAAATTTTCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAA-AAGATCTACATAATGTAT
66 TAAATTTACAATGTAACCGGTAGAAATATACCGGTTTATGAGAAAATAAGATCAACATAATGTAT
* * *
2147213 CGACACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAATGCCAAACGGGGTGCACACAT
131 CGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACACAT
2147278 AAAGTC
196 AAAG-C
**
2147284 -TAAATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAGG
1 GTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAGG
* * * *
2147348 TAAATTTCCAATGTAACAGGTAGAAATATATCGGTTTTATGAGAGAATAAG-TCAACATAATGTA
66 TAAATTTACAATGTAACCGGTAGAAATATACCGG-TTTATGAGAAAATAAGATCAACATAATGTA
* * *
2147412 TCGATACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGCGGTGCACGCA
130 TCGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACACA
2147477 TAAAGC
195 TAAAGC
* ** * *
2147483 GTCGATACATTTATTAACAA-TATCGATTCCAAAAACATCGAAACCGATAATTACAATATAATAG
1 GTCGATACATTTATTAA-AAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAG
* * *
2147547 GTAAATTTACAATGT-ACTCGGTAGAATTATACCGATTTTATGAGAAAAT-AGATCTACATAATG
65 GTAAATTTACAATGTAAC-CGGTAGAAATATACCG-GTTTATGAGAAAATAAGATCAACATAATG
* *
2147610 TATCGACACTTTTT-AATATTGTGTCGATACATTTT-TCCAGAATTAATGCCCAACGAGGTGCAC
128 TATCGACACTTTTTAAAT-TTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCAC
*
2147673 ACATAAAGT
192 ACATAAAGC
* * **
2147682 GTCGATACATTTA--AAATTGTATAGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
1 GTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAG
* * * * *
2147745 GTAAATTTGCAATGTTACCGGTATAAATATACCGGTTTAGTTAGAAAAT-AGGTCAACATAA
65 GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTTA-TGAGAAAATAAGATCAACATAA
2147806 GCGTTACCTA
Statistics
Matches: 464, Mismatches: 46, Indels: 26
0.87 0.09 0.05
Matches are distributed among these distances:
196 1 0.00
197 6 0.01
198 86 0.19
199 148 0.32
200 218 0.47
201 5 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (200 bp):
GTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGGTAGAAATATACCGGTTTATGAGAAAATAAGATCAACATAATGTAT
CGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACACAT
AAAGC
Found at i:2147911 original size:23 final size:23
Alignment explanation
Indices: 2147861--2147905 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2147851 TGCCTATTTT
*
2147861 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
*
2147884 ATTATATAAGCGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
2147906 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:2150182 original size:2 final size:2
Alignment explanation
Indices: 2150175--2150224 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2150165 GTTTGATGTA
2150175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2150217 AT AT AT AT
1 AT AT AT AT
2150225 GTAAAATTCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2155958 original size:14 final size:14
Alignment explanation
Indices: 2155936--2155973 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
2155926 AAAAAAAATT
*
2155936 AATTCATTTTCTAA
1 AATTTATTTTCTAA
2155950 AATTTATTTTTCTAA
1 AATTTA-TTTTCTAA
2155965 AA-TTATTTT
1 AATTTATTTT
2155974 TGGTGAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 10 0.45
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTATTTTCTAA
Found at i:2155974 original size:14 final size:15
Alignment explanation
Indices: 2155942--2155974 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2155932 AATTAATTCA
2155942 TTTTCTAAAATTTAT
1 TTTTCTAAAATTTAT
2155957 TTTTCTAAAA-TTAT
1 TTTTCTAAAATTTAT
2155971 TTTT
1 TTTT
2155975 GGTGAACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTCTAAAATTTAT
Found at i:2156270 original size:2 final size:2
Alignment explanation
Indices: 2156204--2156258 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
2156194 GTTACATTTA
*
2156204 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2156246 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
2156259 ATAAGCATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2157928 original size:14 final size:13
Alignment explanation
Indices: 2157911--2157946 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
2157901 CGTTATTTAC
2157911 TTATTTTCTCTTCT
1 TTATTTTCT-TTCT
2157925 TTATTTTGCTTTCT
1 TTATTTT-CTTTCT
2157939 TTATTTTC
1 TTATTTTC
2157947 ACTTTATCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.86
15 2 0.10
ACGTcount: A:0.08, C:0.17, G:0.03, T:0.72
Consensus pattern (13 bp):
TTATTTTCTTTCT
Found at i:2160241 original size:16 final size:16
Alignment explanation
Indices: 2160220--2160264 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
2160210 AAGACGGAAG
2160220 AGAAGATCAAGATGTT
1 AGAAGATCAAGATGTT
2160236 AGAAGATCAAGATGTT
1 AGAAGATCAAGATGTT
2160252 AGAAGATC-AGATG
1 AGAAGATCAAGATG
2160265 AAGATGGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 5 0.17
16 24 0.83
ACGTcount: A:0.44, C:0.07, G:0.27, T:0.22
Consensus pattern (16 bp):
AGAAGATCAAGATGTT
Found at i:2163358 original size:36 final size:35
Alignment explanation
Indices: 2163313--2163556 Score: 134
Period size: 36 Copynumber: 6.8 Consensus size: 35
2163303 ACGGACTTTG
2163313 TCTCACTTGAGACTGTTTTACTCGAAATAAGATTTA
1 TCTCACTTGAGACTGTTTTACTCGAAA-AAGATTTA
* * * * *
2163349 TCTCACTTGATATTGTTTTTCT-TAAAACAGACTTTG
1 TCTCACTTGAGACTGTTTTACTCGAAAA-AGA-TTTA
* * *
2163385 CCTCACTTGAGAGTGTTTTACTCAAAAGAAGATTTA
1 TCTCACTTGAGACTGTTTTACTCGAAA-AAGATTTA
* * * *
2163421 TCTCACTTGAGATTGGTTTT-CT-TAAAACATACTTTG
1 TCTCACTTGAGACT-GTTTTACTCGAAAA-AGA-TTTA
* * * * *
2163457 TCTCACTTGAAACTATTTTAGTTGAAAAAATATTTA
1 TCTCACTTGAGACTGTTTTACTCG-AAAAAGATTTA
* ** * * ** *
2163493 TTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTT
1 TCTCACTTGAGACTGTTTTACTCGAAA-AAGATTTA
* *
2163529 TCTCGCTTGAGACCGTTTTCACTCGAAA
1 TCTCACTTGAGACTGTTTT-ACTCGAAA
2163557 GAAGGCATTT
Statistics
Matches: 154, Mismatches: 42, Indels: 23
0.70 0.19 0.11
Matches are distributed among these distances:
34 2 0.01
35 18 0.12
36 110 0.71
37 19 0.12
38 5 0.03
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (35 bp):
TCTCACTTGAGACTGTTTTACTCGAAAAAGATTTA
Found at i:2163374 original size:72 final size:72
Alignment explanation
Indices: 2163274--2163556 Score: 331
Period size: 72 Copynumber: 3.9 Consensus size: 72
2163264 AATACAGATA
* * *
2163274 ATTTATCTCATTTGAGAATG-TTTT-TTAAAACGGACTTTGTCTCACTTGAGACTGTTTTACTCG
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCG
*
2163337 AAATAAG
66 AAAAAAG
* * *
2163344 ATTTATCTCACTTGATATTGTTTTTCTTAAAACAGACTTTGCCTCACTTGAGAGTGTTTTACTC-
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCG
2163408 AAAAGAAG
66 AAAA-AAG
* * * * * *
2163416 ATTTATCTCACTTGAGATTGGTTTTCTTAAAACATACTTTGTCTCACTTGAAACTATTTTAGTTG
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCG
*
2163481 AAAAAAT
66 AAAAAAG
* ** * * *
2163488 ATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGA-TTTTTCTCGCTTGAGACCGTTTTCACT
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AGACTTTGTCTCACTTGAGACTGTTTT-ACT
2163552 CGAAA
64 CGAAA
2163557 GAAGGCATTT
Statistics
Matches: 178, Mismatches: 29, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
70 17 0.10
71 7 0.04
72 142 0.80
73 12 0.07
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (72 bp):
ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCG
AAAAAAG
Found at i:2163687 original size:37 final size:38
Alignment explanation
Indices: 2163593--2163706 Score: 158
Period size: 39 Copynumber: 3.0 Consensus size: 38
2163583 GTTTTTACAG
* *
2163593 AAGATTTTGTCTCGCTTGAGATGGTTTCCCTCGAAACAA
1 AAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAAC-A
*
2163632 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACA
1 AAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
* * *
2163670 AA-ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
2163707 TAAACATTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 31 0.46
38 3 0.04
39 34 0.50
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (38 bp):
AAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
Found at i:2163863 original size:37 final size:37
Alignment explanation
Indices: 2163796--2163910 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 37
2163786 GGTTTACATA
* * *
2163796 AAAC-AAATTTCGCCTCCCTTGAGACAGTTTCT-TTT
1 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* * * *
2163831 AGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 A-AACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
*
2163869 AAACAAAATTTTGTCTCCCTTGAGACGGTTTCTCTTG
1 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
2163906 AAACA
1 AAACA
2163911 CCAACCTTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
35 1 0.02
36 3 0.05
37 59 0.89
38 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (37 bp):
AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
Found at i:2166266 original size:14 final size:14
Alignment explanation
Indices: 2166249--2166284 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2166239 CGTTATTTAC
2166249 TTATTTTCCCTTCT
1 TTATTTTCCCTTCT
* *
2166263 TTATTTTGCTTTCT
1 TTATTTTCCCTTCT
2166277 TTATTTTC
1 TTATTTTC
2166285 ACTTTATCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.69
Consensus pattern (14 bp):
TTATTTTCCCTTCT
Found at i:2167076 original size:15 final size:16
Alignment explanation
Indices: 2167058--2167091 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2167048 ATTTTTTATT
2167058 GAAAATAA-TTATATA
1 GAAAATAACTTATATA
*
2167073 GAAATTAACTTATATA
1 GAAAATAACTTATATA
2167089 GAA
1 GAA
2167092 TAATCACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (16 bp):
GAAAATAACTTATATA
Found at i:2171930 original size:14 final size:14
Alignment explanation
Indices: 2171911--2171940 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2171901 AGAAGAACGG
2171911 CAACGGGGAAGTTC
1 CAACGGGGAAGTTC
2171925 CAACGGGGAAGTTC
1 CAACGGGGAAGTTC
2171939 CA
1 CA
2171941 CTGTGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.13
Consensus pattern (14 bp):
CAACGGGGAAGTTC
Found at i:2172590 original size:20 final size:20
Alignment explanation
Indices: 2172565--2172622 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
2172555 ATCTTATTTC
2172565 CTGGTAATCTTGCATTCCCA
1 CTGGTAATCTTGCATTCCCA
2172585 CTGGTAATCTTGCATTCCCA
1 CTGGTAATCTTGCATTCCCA
*
2172605 CTGGTAATCTTACATTCC
1 CTGGTAATCTTGCATTCC
2172623 ATAAATCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (20 bp):
CTGGTAATCTTGCATTCCCA
Found at i:2173746 original size:17 final size:17
Alignment explanation
Indices: 2173726--2173779 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
2173716 TATTATATTA
2173726 TATTATTATTTATTTAT
1 TATTATTATTTATTTAT
*
2173743 TATTATTATTTAATTA-
1 TATTATTATTTATTTAT
*
2173759 T-TTAAT-TTTATTT-T
1 TATTATTATTTATTTAT
2173773 TATTATT
1 TATTATT
2173780 TTTTTACAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 7 0.23
15 8 0.26
16 1 0.03
17 15 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTATTATTTATTTAT
Found at i:2173768 original size:27 final size:27
Alignment explanation
Indices: 2173716--2173780 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
2173706 TCTACAAAAA
2173716 TATTA-TATTATATTATTATTT-A-T-T
1 TATTATTATTAT-TTATTATTTAATTAT
2173740 TATTATTATTATTTAATTATTTAATT-T
1 TATTATTATTATTT-ATTATTTAATTAT
*
2173767 TATTTTTATTATTT
1 TATTATTATTATTT
2173781 TTTTACAGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 7 0.19
25 13 0.36
26 1 0.03
27 15 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
TATTATTATTATTTATTATTTAATTAT
Found at i:2173957 original size:22 final size:22
Alignment explanation
Indices: 2173912--2173978 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
2173902 ACTCTCTGCT
*
2173912 CCCACTTTCATGACTTTTTATAA
1 CCCACTTTCATCACTTTTT-TAA
2173935 CCCACTTTCATCACTTTTTTAA
1 CCCACTTTCATCACTTTTTTAA
2173957 CCCACTTTCATCACTTTTTTAA
1 CCCACTTTCATCACTTTTTTAA
2173979 AGGGGGGCAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 25 0.58
23 18 0.42
ACGTcount: A:0.24, C:0.30, G:0.01, T:0.45
Consensus pattern (22 bp):
CCCACTTTCATCACTTTTTTAA
Found at i:2180878 original size:107 final size:107
Alignment explanation
Indices: 2180692--2180908 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 107
2180682 AGGGAAAATT
* *
2180692 TTCGTGTATTACTCTGAAAAAGTTTTGTAAACTTTAGGTAACTCCTCTGCAGTCTAATTGTTCAG
1 TTCGTGCATTACTCTGAAAAAGTTTTGTAAACTTTAGGTAACTCCTCTGCAGTCCAATTGTTCAG
2180757 CACAAAGCCTAACAGTGCAGGATAGATGCCTACAACTCTTCC
66 CACAAAGCCTAACAGTGCAGGATAGATGCCTACAACTCTTCC
2180799 TTCGTGCATTACTCTGAAAAAGTTTTGTAAACTTTAGGTAACTCCTCTGCAGTCCAATTGTTCAG
1 TTCGTGCATTACTCTGAAAAAGTTTTGTAAACTTTAGGTAACTCCTCTGCAGTCCAATTGTTCAG
* *
2180864 CACGAATCCTAACAGTGCAGGATAGATGCCTACAACTCTTCC
66 CACAAAGCCTAACAGTGCAGGATAGATGCCTACAACTCTTCC
2180906 TTC
1 TTC
2180909 CTCAACCTCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (107 bp):
TTCGTGCATTACTCTGAAAAAGTTTTGTAAACTTTAGGTAACTCCTCTGCAGTCCAATTGTTCAG
CACAAAGCCTAACAGTGCAGGATAGATGCCTACAACTCTTCC
Found at i:2190433 original size:23 final size:23
Alignment explanation
Indices: 2190407--2190454 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2190397 GGCATGTTTA
*
2190407 TCTCTGCCTTTATGACACATTTT
1 TCTCTACCTTTATGACACATTTT
* * *
2190430 TCTCTACTTTTGTGGCACATTTT
1 TCTCTACCTTTATGACACATTTT
2190453 TC
1 TC
2190455 ATCTTATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.15, C:0.25, G:0.10, T:0.50
Consensus pattern (23 bp):
TCTCTACCTTTATGACACATTTT
Found at i:2191370 original size:2 final size:2
Alignment explanation
Indices: 2191363--2191395 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2191353 GTTCATTCTT
2191363 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2191396 TAGAATCCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2193863 original size:60 final size:62
Alignment explanation
Indices: 2193784--2193928 Score: 172
Period size: 60 Copynumber: 2.4 Consensus size: 62
2193774 AAATTATAGC
* * * *
2193784 ACTCGTTTTAATTTGGTCCTTAAACCTTTT-AATATTCTAATTTCATCCTCAAACTATGA-T
1 ACTCATTTTAAATTGGTCCTTAAACCTTTTGAACATTCCAATTTCATCCTCAAACTATGACT
* * *
2193844 ACTCATTTTAAATTAGTCCTTAAA-GTTTTGAACATTCCAATTTCATTCTCAAACTATGACT
1 ACTCATTTTAAATTGGTCCTTAAACCTTTTGAACATTCCAATTTCATCCTCAAACTATGACT
* * *
2193905 -TTCATTCTAAATTGGTCCCTAAAC
1 ACTCATTTTAAATTGGTCCTTAAAC
2193929 TTATAAATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
59 4 0.06
60 66 0.93
61 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (62 bp):
ACTCATTTTAAATTGGTCCTTAAACCTTTTGAACATTCCAATTTCATCCTCAAACTATGACT
Found at i:2193948 original size:60 final size:60
Alignment explanation
Indices: 2193817--2193956 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 60
2193807 ACCTTTTAAT
* * * * * *
2193817 ATTCTAATTTCATCCTCAAACTATGATACTCATTTTAAATTAGTCCTTAAAGTTTTGAAC
1 ATTCCAATTTCATCCTCAAACTATGATACTCATTCTAAATTAGTCCCTAAACTTATAAAC
* * * *
2193877 ATTCCAATTTCATTCTCAAACTATGACT-TTCATTCTAAATTGGTCCCTAAACTTATAAAT
1 ATTCCAATTTCATCCTCAAACTATGA-TACTCATTCTAAATTAGTCCCTAAACTTATAAAC
* * *
2193937 ATTTCATTTTCATCCCCAAA
1 ATTCCAATTTCATCCTCAAA
2193957 TTCATCTAAA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
60 64 0.98
61 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (60 bp):
ATTCCAATTTCATCCTCAAACTATGATACTCATTCTAAATTAGTCCCTAAACTTATAAAC
Found at i:2194495 original size:14 final size:14
Alignment explanation
Indices: 2194478--2194522 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
2194468 TAATATATAA
2194478 AAATATAAAAAATT
1 AAATATAAAAAATT
* *
2194492 AAATATAAAATACT
1 AAATATAAAAAATT
*
2194506 AAAAAT-AAAAATT
1 AAATATAAAAAATT
2194519 AAAT
1 AAAT
2194523 TACTAATATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATATAAAAAATT
Found at i:2194497 original size:22 final size:23
Alignment explanation
Indices: 2194467--2194510 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2194457 AAATTAAATT
2194467 TTAATATATAAAAATA-TAAAAAA
1 TTAATATAT-AAAATACTAAAAAA
2194490 TTAA-ATATAAAATACTAAAAA
1 TTAATATATAAAATACTAAAAA
2194511 TAAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
TTAATATATAAAATACTAAAAAA
Found at i:2194511 original size:21 final size:21
Alignment explanation
Indices: 2194467--2194528 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
2194457 AAATTAAATT
2194467 TTAATATATAAAAATA-TAAAAAA
1 TTAA-ATAT-AAAATACT-AAAAA
2194490 TTAAATATAAAATACTAAAAA
1 TTAAATATAAAATACTAAAAA
* *
2194511 -TAAAAATTAAATTACTAA
1 TTAAATA-TAAAATACTAA
2194529 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 5 0.14
21 21 0.60
22 5 0.14
23 4 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
TTAAATATAAAATACTAAAAA
Found at i:2195262 original size:27 final size:26
Alignment explanation
Indices: 2195222--2195275 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2195212 AATAATTTCA
2195222 TTTTTAAATATTTTAAATTTAAAATT
1 TTTTTAAATATTTTAAATTTAAAATT
* * *
2195248 TTTTTGAATATTTTTATATTTTAAATT
1 TTTTTAAATA-TTTTAAATTTAAAATT
2195275 T
1 T
2195276 AAAATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTTAAATATTTTAAATTTAAAATT
Found at i:2195269 original size:34 final size:32
Alignment explanation
Indices: 2195229--2195294 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 32
2195219 TCATTTTTAA
*
2195229 ATATTTTAAATTTAAAATTTTTTTGAATATTTTT
1 ATATTTTAAATTTAAAATATTTTT--ATATTTTT
2195263 ATATTTTAAATTTAAAATATTTTTATATTTTT
1 ATATTTTAAATTTAAAATATTTTTATATTTTT
2195295 CTGAAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 8 0.26
34 23 0.74
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (32 bp):
ATATTTTAAATTTAAAATATTTTTATATTTTT
Found at i:2196784 original size:183 final size:183
Alignment explanation
Indices: 2196323--2196979 Score: 890
Period size: 183 Copynumber: 3.6 Consensus size: 183
2196313 GTCGATACAA
*
2196323 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACTA-GTTTCGTTATG
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC-AGGTTTCATTATG
* ** * * * * *
2196387 ACTAAACCGGTAAAGCGCTACCAGATATGTTGAAAGTATCGATTA-GATTGTAATTAGTATCGAC
65 ACAAAACTAGTAAAGCGCTACCGGATATGTTGAAAGTGTCGA-TACCATTGAAATAAGTATCGAC
* * * **
2196451 ACTTTTGGAATTTAAAAGAGAAGCAGTAATAGTGCCAATAAAGTGTCGATAC-AA
129 ACTTTTGGAATTTAAAAGAGAAGTAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * * *
2196505 ATAAAAATGTATCGATCCATAACAGTATAACAGATAAAAATATGACAAAACCGGTTTCACTATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTTTCATTATGA
* * *
2196570 CAAAACTAGTAAATCGCTACCGGATATGTTGAATGTGTCGATACCATTGAAATAAGTATCGACAT
66 CAAAACTAGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACCATTGAAATAAGTATCGACAC
2196635 TTTTGGAATTTAAAAGAGAAGTAGTAATAGCGCCTATAAAGTGTCGATACTTT
131 TTTTGGAATTTAAAAGAGAAGTAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * * * *
2196688 ATAAAAATATATCGATCCATAACAATATAATAGGTAAAAATATGATAAAACATGTATCATTATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTTTCATTATGA
* * * * * *
2196753 CAAAACTGGTAAAACACTATCGGATATGTTGAAAGTGTTGATTCCATTGAAATAAGTATCGACAC
66 CAAAACTAGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACCATTGAAATAAGTATCGACAC
* * *
2196818 TTTTGGAATTTAAAAGAGAAGTAGTAACATCGCCTATAAAGTGTCGGTACTTT
131 TTTTGGAATTTAAAAGAGAAGTAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * * *
2196871 ATAAAAATGTATCGACCCATAACAATATAATAGGTAAAACTATGACAAAACAGGTTTTATTATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTTTCATTATGA
* *
2196936 TAAAA-TCAGTAAAGCGCTACTGGATATGTTGAAAGTGTCGATAC
66 CAAAACT-AGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAC
2196980 TTTAATAAGT
Statistics
Matches: 415, Mismatches: 56, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
181 2 0.00
182 158 0.38
183 255 0.61
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (183 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTTTCATTATGA
CAAAACTAGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACCATTGAAATAAGTATCGACAC
TTTTGGAATTTAAAAGAGAAGTAGTAATAGCGCCTATAAAGTGTCGATACTTT
Found at i:2199539 original size:66 final size:66
Alignment explanation
Indices: 2199429--2199559 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 66
2199419 AGGGGGAAGT
* ** * *
2199429 GGGTGGAAAAATATATGGAGTGGTGAAAAAAGTTGAGGTGTTGAGGGGTGAACTTAAGATGGTGA
1 GGGTGGAAAAATATATGGAGTGGTGAAAAAAGCTGAGGAATTGAGGAGTGAACTTAAGAGGGTGA
2199494 C
66 C
** * *
2199495 GGGTGGAAAAAT-TGATGGAGTGGTGAAGGAAGCTGTGGAATTGAGGAGTGAACTTACGAGGGTG
1 GGGTGGAAAAATAT-ATGGAGTGGTGAAAAAAGCTGAGGAATTGAGGAGTGAACTTAAGAGGGTG
2199559 A
65 A
2199560 AGGGGGTGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 1 0.02
66 54 0.98
ACGTcount: A:0.32, C:0.04, G:0.41, T:0.23
Consensus pattern (66 bp):
GGGTGGAAAAATATATGGAGTGGTGAAAAAAGCTGAGGAATTGAGGAGTGAACTTAAGAGGGTGA
C
Found at i:2199693 original size:11 final size:11
Alignment explanation
Indices: 2199677--2199702 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2199667 AACAAAAGAT
2199677 GGAGGAAGTGA
1 GGAGGAAGTGA
2199688 GGAGGAAGTGA
1 GGAGGAAGTGA
2199699 GGAG
1 GGAG
2199703 AAAGGATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.58, T:0.08
Consensus pattern (11 bp):
GGAGGAAGTGA
Found at i:2210159 original size:24 final size:24
Alignment explanation
Indices: 2210118--2210189 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
2210108 TTTCATTTGA
* *
2210118 ATATTATTTAT-ATTATTATTATT
1 ATATTATTAATAATAATTATTATT
2210141 ATAATTA-TAATAATAATTATTATT
1 AT-ATTATTAATAATAATTATTATT
* * *
2210165 ATTTTATTATTAATAAATATTATT
1 ATATTATTAATAATAATTATTATT
2210189 A
1 A
2210190 CAGGCCCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 8 0.20
24 33 0.80
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATATTATTAATAATAATTATTATT
Found at i:2210189 original size:3 final size:3
Alignment explanation
Indices: 2210119--2210176 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
2210109 TTCATTTGAA
* * * *
2210119 TAT TAT T-T ATAT TAT TAT TAT TAT AAT TAT AAT AAT AAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2210164 TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TA
2210177 ATAAATATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 3 0.06
3 44 0.92
4 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2211792 original size:20 final size:19
Alignment explanation
Indices: 2211759--2211808 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
2211749 TAAATATCCT
2211759 ATTTTTTAAATTATATATTA
1 ATTTTTT-AATTATATATTA
* *
2211779 ATTATTTTAATTATTTATTT
1 ATT-TTTTAATTATATATTA
2211799 ATTTTTTAAT
1 ATTTTTTAAT
2211809 ATCGAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 7 0.26
20 16 0.59
21 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTTAATTATATATTA
Found at i:2212421 original size:26 final size:24
Alignment explanation
Indices: 2212390--2212443 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
2212380 TAATTCTTTC
*
2212390 TTTTCAAAATTTTTATATACTTATTA
1 TTTTCAAAATATTTATATA--TATTA
* *
2212416 TTTTCATAGTATTTATATATATTA
1 TTTTCAAAATATTTATATATATTA
2212440 TTTT
1 TTTT
2212444 ATTATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
26 16 0.64
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTCAAAATATTTATATATATTA
Found at i:2215762 original size:15 final size:15
Alignment explanation
Indices: 2215742--2215773 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2215732 GATCAATACC
2215742 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
2215757 TTTTGCATACATTCA
1 TTTTGCATACATGCA
2215772 TT
1 TT
2215774 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:2219555 original size:9 final size:9
Alignment explanation
Indices: 2219538--2219569 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2219528 AAATGACAAT
2219538 CATTCTTTA
1 CATTCTTTA
*
2219547 CATTATTTA
1 CATTCTTTA
2219556 CATTCTTTA
1 CATTCTTTA
2219565 CATTC
1 CATTC
2219570 ATTATTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (9 bp):
CATTCTTTA
Found at i:2223116 original size:1 final size:1
Alignment explanation
Indices: 2223112--2223168 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
2223102 AAATGAAATG
* * * * * * *
2223112 AAAAAAAAGAAAAAAAAAAGAAAAAAAAGAAAAAGAAGAAAAAGAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2223169 GGAGGGTCAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:2223124 original size:20 final size:20
Alignment explanation
Indices: 2223096--2223168 Score: 85
Period size: 22 Copynumber: 3.5 Consensus size: 20
2223086 ATTATGCTTG
*
2223096 AAGAAAAAATGAAATGAAAAAA
1 AAGAAAAAA--AAAAGAAAAAA
2223118 AAGAAAAAAAAAAGAAAAAA
1 AAGAAAAAAAAAAGAAAAAA
2223138 AAGAAAAAGAAGAAA-AAGAAAA
1 AAGAAAAA-AA-AAAGAA-AAAA
2223160 AAGAAAAAA
1 AAGAAAAAA
2223169 GGAGGGTCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
20 18 0.38
21 5 0.11
22 24 0.51
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.03
Consensus pattern (20 bp):
AAGAAAAAAAAAAGAAAAAA
Found at i:2223125 original size:9 final size:9
Alignment explanation
Indices: 2223111--2223169 Score: 64
Period size: 9 Copynumber: 6.1 Consensus size: 9
2223101 AAAATGAAAT
2223111 GAAAAAAAA
1 GAAAAAAAA
2223120 GAAAAAAAAAA
1 G--AAAAAAAA
2223131 GAAAAAAAA
1 GAAAAAAAA
*
2223140 GAAAAAGAA
1 GAAAAAAAA
2223149 GAAAAAGAAA
1 GAAAAA-AAA
*
2223159 AAAGAAAAAA
1 GAA-AAAAAA
2223169 G
1 G
2223170 GAGGGTCAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 23 0.55
10 7 0.17
11 12 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:2223130 original size:15 final size:15
Alignment explanation
Indices: 2223112--2223168 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
2223102 AAATGAAATG
*
2223112 AAAAA-AAAGAAAAA
1 AAAAAGAAAAAAAAA
*
2223126 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAA
*
2223141 AAAAAGAAGAAAAAGA
1 AAAAAGAA-AAAAAAA
2223157 AAAAAGAAAAAA
1 AAAAAGAAAAAA
2223169 GGAGGGTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
14 5 0.14
15 19 0.51
16 13 0.35
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAA
Found at i:2223153 original size:29 final size:31
Alignment explanation
Indices: 2223111--2223168 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
2223101 AAAATGAAAT
2223111 GAAAAAAAAG-AAAA-AAAAAAGAAAAAAAA
1 GAAAAAAAAGAAAAAGAAAAAAGAAAAAAAA
*
2223140 GAAAAAGAAGAAAAAGAAAAAAGAAAAAA
1 GAAAAAAAAGAAAAAGAAAAAAGAAAAAA
2223169 GGAGGGTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.35
30 4 0.15
31 13 0.50
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (31 bp):
GAAAAAAAAGAAAAAGAAAAAAGAAAAAAAA
Found at i:2223564 original size:19 final size:17
Alignment explanation
Indices: 2223522--2223570 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
2223512 TATTTTCTCT
2223522 AAATTCAATTTA-TTTG
1 AAATTCAATTTATTTTG
*
2223538 AGATTCAATTTATTTTCG
1 AAATTCAATTTATTTT-G
2223556 AAAATTCAATTTATT
1 -AAATTCAATTTATT
2223571 CTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 11 0.39
17 3 0.11
18 1 0.04
19 13 0.46
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:2225134 original size:226 final size:226
Alignment explanation
Indices: 2224740--2225379 Score: 1100
Period size: 226 Copynumber: 2.8 Consensus size: 226
2224730 TTCTAGAGAA
* * **
2224740 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
2224805 AACCTTTTACTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
2224870 ACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATT
131 ACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATT
2224935 CATCACTCGGTGGATCAACAATGCCAGTTAG
196 CATCACTCGGTGGATCAACAATGCCAGTTAG
*
2224966 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAATAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTC
2225031 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
2225096 ACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATT
131 ACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATT
*
2225161 CATCACTCGGTGGATCAGCAATGCCAGTTAG
196 CATCACTCGGTGGATCAACAATGCCAGTTAG
* *
2225192 AGTTCATAATGAGAAGAACTCATCTAAAGAAGAAAGAATAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * * * *
2225257 AACCTTTTGCTTAAATTCATCACTTAATGGATCAACTTTTCCAAAGAAAGTTTATAATGAGAAGA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
* * * * *
2225322 ATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTGC
131 ACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
2225380 ATGACTCTAT
Statistics
Matches: 393, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
226 393 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (226 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATT
CATCACTCGGTGGATCAACAATGCCAGTTAG
Found at i:2225359 original size:24 final size:23
Alignment explanation
Indices: 2225316--2225360 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2225306 GTTTATAATG
*
2225316 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
2225339 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
2225361 AGCTTGTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:2225392 original size:113 final size:113
Alignment explanation
Indices: 2224718--2225379 Score: 937
Period size: 113 Copynumber: 5.9 Consensus size: 113
2224708 ATCCATCACA
* * *
2224718 ATGGATTAGCTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
* * * *
2224783 TCATAATGAGAAGAGCTTGTTCAACCTTTTACTCAAATCCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTG
2224831 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
* *
2224896 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTG
* * ** * ** * * *
2224944 GTGGATCAACAATGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAATAAGAAAT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
* * *
2225009 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTG
2225057 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
* *
2225122 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTG
* ** * ** * * * *
2225170 GTGGATCAGCAATGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAGAAAGAATAAAT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
* *
2225235 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTA
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTG
* * * * *
2225283 ATGGATCAACTTTTCCAAAGAAAGTTTATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
* *
2225348 TCATAATGAGAAGAGCTTGTTCGACCTTTTGC
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGC
2225380 ATGACTCTAT
Statistics
Matches: 478, Mismatches: 71, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
113 478 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTG
Found at i:2225754 original size:24 final size:24
Alignment explanation
Indices: 2225719--2225785 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
2225709 TCATTTGAAT
*
2225719 ATTATTTA-TATTATTATTATTATA
1 ATTATTAATTATTATTATTATT-TA
*
2225743 ATTA-TAATTATTATTATTATTTT
1 ATTATTAATTATTATTATTATTTA
* *
2225766 ATTATTAATAAATATTATTA
1 ATTATTAATTATTATTATTA
2225786 CAGGCCCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.19
24 30 0.81
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTATTAATTATTATTATTATTTA
Found at i:2225785 original size:3 final size:3
Alignment explanation
Indices: 2225718--2225772 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
2225708 TTCATTTGAA
* *
2225718 TAT TAT T-T ATAT TAT TAT TAT TAT AAT TAT AAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2225763 T-T TAT TAT TA
1 TAT TAT TAT TA
2225773 ATAAATATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 3 0.07
3 41 0.91
4 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2227387 original size:20 final size:19
Alignment explanation
Indices: 2227354--2227403 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
2227344 TAAATATCCT
2227354 ATTTTTTAAATTATATATTA
1 ATTTTTT-AATTATATATTA
* *
2227374 ATTGTTTTAATTATTTATTT
1 ATT-TTTTAATTATATATTA
2227394 ATTTTTTAAT
1 ATTTTTTAAT
2227404 ATCGAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 7 0.26
20 16 0.59
21 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTTTAATTATATATTA
Found at i:2227492 original size:29 final size:30
Alignment explanation
Indices: 2227459--2227516 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
2227449 ATATTTCTAA
2227459 ATAAATAAATATTTTATTT-ATAAATATAT
1 ATAAATAAATATTTTATTTCATAAATATAT
* * *
2227488 ATAAATTAATATTTTTTTTCATAATTATA
1 ATAAATAAATATTTTATTTCATAAATATA
2227517 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
ATAAATAAATATTTTATTTCATAAATATAT
Found at i:2228607 original size:12 final size:12
Alignment explanation
Indices: 2228592--2228626 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2228582 GAACTCAATA
2228592 AAGATGATGATG
1 AAGATGATGATG
*
2228604 AAGAAGATGATG
1 AAGATGATGATG
*
2228616 ATGATGATGAT
1 AAGATGATGAT
2228627 CCAAACAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (12 bp):
AAGATGATGATG
Found at i:2231871 original size:199 final size:198
Alignment explanation
Indices: 2231525--2232482 Score: 1363
Period size: 199 Copynumber: 4.8 Consensus size: 198
2231515 GTAAACATAA
* * *
2231525 TGTCGATA-ATTT-TTAAAATGGTATCGATCCCGAAAA-ATCGAATCCGATAATTATAATGTAGT
1 TGTCGATACATTTATTAAAA--GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* **
2231587 AGGTAAATTTATAATGTAACCGGTAGAAATATACCATTTTAATTAGAAAATAGGTCAACATAATG
64 AGGTAAATTTACAATGTAACCGGTAGAAATATACC-GGTTAATTAGAAAATAGGTCAACATAATG
*
2231652 TATCGATACCTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGCGCACA
128 TATCGATA-CTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGTGCACA
*
2231717 TATAAAG
192 CATAAAG
* *
2231724 TGTCGATACATTTATTAAAAATATTGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * *
2231789 ATAAATTTACAATGTAACCGGTAGAAATATACCGGCTAATTAGAAAATAAGTCAACATAATGTAT
66 GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGTAT
* * * *
2231854 CTATACATTTTTAAATTGTGTTGATACTTTTTGTCCAGAATGAATGCAAAACAAGGTGCACACAT
131 CGATAC-TTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGTGCACACAT
*
2231919 AAAA
195 AAAG
* * * *
2231923 TGTCAATACATTTATTAAAAGTATCCACCCCAAAAATATCGAAACCGATAATTATAATGTAATAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
*
2231988 GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTTGAAAATAGGTCAACATAATGTAT
66 GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGTAT
* *
2232053 CGATACTTTTTAAATTGCGTCGATACTTTTTGTCCATAATGAATGCCAAACGAGGTGCACACATA
131 CGATACTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGTGCACACATA
2232118 AAG
196 AAG
* * * *
2232121 TGTCGATACATTTATTAAATGTATCGA-CCCAAAGACATTGAAACCGATAATTATAAAGTAATAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * *
2232185 GTAAATTTACAATGTAACCGGTA-AGAATATACCAGTT--TTATGACAGAATAGGTGAACATATT
66 GTAAATTTACAATGTAACCGGTAGA-AATATACCGGTTAATTA-GA-A-AATAGGTCAACATAAT
* *
2232247 GTGTCGATACTTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAGGAGGTGCAC
127 GTATCGATAC-TTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGTGCAC
*
2232312 GCATAAAG
191 ACATAAAG
* *
2232320 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATTGAAACCGATAATTACAATGTAATAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * *
2232385 GTAAATTTACAATGTAACTGGTAGAAATATACATGTTTAATTATAAAATAGGTCAACATAATGTA
66 GTAAATTTACAATGTAACCGGTAGAAATATAC-CGGTTAATTAGAAAATAGGTCAACATAATGTA
* * *
2232450 TCGACACTTTTTAAATTTGTATCGATATTTTTT
130 TCGATACTTTTTAAA-TTGTGTCGATACTTTTT
2232483 AATTACGCGC
Statistics
Matches: 678, Mismatches: 66, Indels: 29
0.88 0.09 0.04
Matches are distributed among these distances:
195 2 0.00
196 3 0.00
197 68 0.10
198 104 0.15
199 326 0.48
200 161 0.24
201 10 0.01
202 1 0.00
203 3 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (198 bp):
TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGTAT
CGATACTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGTGCACACATA
AAG
Found at i:2232121 original size:397 final size:396
Alignment explanation
Indices: 2231523--2232466 Score: 1371
Period size: 397 Copynumber: 2.4 Consensus size: 396
2231513 AGGTAAACAT
* * *
2231523 AATGTCGATA-ATTT-TTAAAATGGTATCGATCCCGAAAAATCGAATCCGATAATTATAATGTAG
1 AATGTCGATACATTTATTAAAA--GTATCGATCCCAAAAAATCGAAACCGATAATTATAATGTAA
* * *
2231586 TAGGTAAATTTATAATGTAACCGGTAGAAATATACCATTTTAATTAGAAAATAGGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGGTAGAAATATACC-GTTTAATTTGAAAATAGGTCAACATAAT
*
2231651 GTATCGATACCTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGCGCAC
128 GTATCGATA-CTTTTTAAATTGCGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGCGCAC
* *
2231716 ATATAAAGTGTCGATACATTTATTAAAAATATTGATCCCAAAAACATCGAAACCGATAATTATAA
192 ACATAAAGTGTCGATACATTTATTAAAAATATCGA-CCCAAAAACATCGAAACCGATAATTATAA
* *
2231781 TGTAATAGATAAATTTACAATGTAACCGGT-AGAAATATACCGGCTAATTA-GA-A-AATAAGTC
256 AGTAATAGATAAATTTACAATGTAACCGGTAAG-AATATACCAG-T-ATTATGACAGAATAAGTC
* *
2231842 AACATAATGTATCTATACATTTTTAAATTGTGTTGATACTTTTTGTCCAGAATGAATGCAAAACA
318 AACATAATGTATCGATACATTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCAAAACA
2231907 AGGTGCACACATAA
383 AGGTGCACACATAA
* * *
2231921 AATGTCAATACATTTATTAAAAGTATCCACCCCAAAAATATCGAAACCGATAATTATAATGTAAT
1 AATGTCGATACATTTATTAAAAGTATCGATCCCAAAAA-ATCGAAACCGATAATTATAATGTAAT
*
2231986 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTTGAAAATAGGTCAACATAATGT
65 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGTTTAATTTGAAAATAGGTCAACATAATGT
* *
2232051 ATCGATACTTTTTAAATTGCGTCGATACTTTTTGTCCATAATGAATGCCAAACGAGGTGCACACA
130 ATCGATACTTTTTAAATTGCGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGCGCACACA
** * *
2232116 TAAAGTGTCGATACATTTATTAAATGTATCGACCCAAAGACATTGAAACCGATAATTATAAAGTA
195 TAAAGTGTCGATACATTTATTAAAAATATCGACCCAAAAACATCGAAACCGATAATTATAAAGTA
* * * * *
2232181 ATAGGTAAATTTACAATGTAACCGGTAAGAATATACCAGTTTTATGACAGAATAGGTGAACATAT
260 ATAGATAAATTTACAATGTAACCGGTAAGAATATACCAGTATTATGACAGAATAAGTCAACATAA
* * * **
2232246 TGTGTCGATACTTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAGGAGGTGCA
325 TGTATCGATACATTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCAAAACAAGGTGCA
*
2232311 CGCATAA
390 CACATAA
* * *
2232318 AGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATTGAAACCGATAATTACAATGTAAT
1 AATGTCGATACATTTATTAAAAGTATCGATCCCAAAAA-ATCGAAACCGATAATTATAATGTAAT
* *
2232383 AGGTAAATTTACAATGTAACTGGTAGAAATATACATGTTTAATTAT-AAAATAGGTCAACATAAT
65 AGGTAAATTTACAATGTAACCGGTAGAAATATAC-CGTTTAATT-TGAAAATAGGTCAACATAAT
*
2232447 GTATCGACACTTTTTAAATT
128 GTATCGATACTTTTTAAATT
2232467 TGTATCGATA
Statistics
Matches: 492, Mismatches: 45, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
394 3 0.01
395 3 0.01
396 65 0.13
397 252 0.51
398 100 0.20
399 63 0.13
400 6 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (396 bp):
AATGTCGATACATTTATTAAAAGTATCGATCCCAAAAAATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTAGAAATATACCGTTTAATTTGAAAATAGGTCAACATAATGTA
TCGATACTTTTTAAATTGCGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGCGCACACAT
AAAGTGTCGATACATTTATTAAAAATATCGACCCAAAAACATCGAAACCGATAATTATAAAGTAA
TAGATAAATTTACAATGTAACCGGTAAGAATATACCAGTATTATGACAGAATAAGTCAACATAAT
GTATCGATACATTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCAAAACAAGGTGCAC
ACATAA
Found at i:2234322 original size:2 final size:2
Alignment explanation
Indices: 2234317--2234352 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2234307 AAATATATCG
2234317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2234353 TTCATACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2234504 original size:2 final size:2
Alignment explanation
Indices: 2234499--2234573 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
2234489 ACACACACAT
2234499 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2234541 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2234574 CTTATAATTT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 71 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2235040 original size:21 final size:23
Alignment explanation
Indices: 2235013--2235062 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
2235003 ACCTATTTTA
*
2235013 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
2235036 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
2235059 TTAT
1 TTAT
2235063 TGTGCTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:2235086 original size:158 final size:158
Alignment explanation
Indices: 2234868--2235392 Score: 867
Period size: 158 Copynumber: 3.3 Consensus size: 158
2234858 ATAATGTGCA
* *
2234868 ACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAAT-GTTTCTAGTAATTA
1 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATATTTTC-AGTAATTA
* *
2234932 ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAGATTAAA
65 ACCGGTAATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAGATTAAG
2234997 TAATTAACCTATTTTATTATATAAGCGCT
130 TAATTAACCTATTTTATTATATAAGCGCT
*
2235026 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTTTCAGTAATTAA
1 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATATTTTCAGTAATTAA
*
2235091 CCGGTAATGTTATCCTTGGTAACATTTTAGGTGTTTACCTAATATGTTGTAATAACAGATTAAGT
66 CCGGTAATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAGATTAAGT
*
2235156 AATTAACCTATTTTATTATATAAACGCT
131 AATTAACCTATTTTATTATATAAGCGCT
** *
2235184 ACCTATTACGTTATATAAGCGCTACCTAATATGTTACAATGCTTGATAATATTTCCAGTAATTAA
1 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATATTTTCAGTAATTAA
* ** *
2235249 CCGGTAATGTTATCTTTGGTAACATTTTAGGCGTTTACCTAATACATTGT-A-AACAAATTAAGT
66 CCGGTAATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAGATTAAGT
*
2235312 AATTAACATATTTTATTATATAAGCGCT
131 AATTAACCTATTTTATTATATAAGCGCT
* *
2235340 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTTCTTGATAATATT
1 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATATT
2235393 AACGATAATT
Statistics
Matches: 344, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
156 86 0.25
157 1 0.00
158 253 0.74
159 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (158 bp):
ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATATTTTCAGTAATTAA
CCGGTAATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAGATTAAGT
AATTAACCTATTTTATTATATAAGCGCT
Found at i:2235187 original size:23 final size:23
Alignment explanation
Indices: 2235161--2235211 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2235151 TAAGTAATTA
**
2235161 ACCTATTTTATTATATAAACGCT
1 ACCTATTACATTATATAAACGCT
* *
2235184 ACCTATTACGTTATATAAGCGCT
1 ACCTATTACATTATATAAACGCT
2235207 ACCTA
1 ACCTA
2235212 ATATGTTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGCT
Found at i:2235219 original size:23 final size:23
Alignment explanation
Indices: 2235171--2235219 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2235161 ACCTATTTTA
*
2235171 TTATATAAACGCTACCTATTACG
1 TTATATAAACGCTACCTAATACG
* *
2235194 TTATATAAGCGCTACCTAATATG
1 TTATATAAACGCTACCTAATACG
2235217 TTA
1 TTA
2235220 CAATGCTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (23 bp):
TTATATAAACGCTACCTAATACG
Found at i:2235375 original size:23 final size:23
Alignment explanation
Indices: 2235327--2235376 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
2235317 ACATATTTTA
*
2235327 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
2235350 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
2235373 TTAT
1 TTAT
2235377 TGTTCTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:2235572 original size:31 final size:31
Alignment explanation
Indices: 2235537--2235595 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
2235527 GTCTCGATTT
2235537 TAACTGGTCACTTATTTAACCAATCACAACA
1 TAACTGGTCACTTATTTAACCAATCACAACA
2235568 TAACTGGTCACTTATTTAACCAATCACA
1 TAACTGGTCACTTATTTAACCAATCACA
2235596 TAATTTCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (31 bp):
TAACTGGTCACTTATTTAACCAATCACAACA
Found at i:2245471 original size:18 final size:18
Alignment explanation
Indices: 2245448--2245493 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
2245438 GTTGACTACT
*
2245448 TCATCTTCATTATTGGAG
1 TCATCTTCATTACTGGAG
2245466 TCATCTTCATTACTGGAG
1 TCATCTTCATTACTGGAG
2245484 TCATCTTCAT
1 TCATCTTCAT
2245494 CACTCCATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (18 bp):
TCATCTTCATTACTGGAG
Found at i:2255950 original size:26 final size:26
Alignment explanation
Indices: 2255904--2255955 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
2255894 TTTTTAAAAG
*
2255904 AAAATTAATTCTTTATTTGATAATTT
1 AAAATTAATTCTTTATATGATAATTT
* *
2255930 AAAATTCAATTTTTTA-ATGATTATTT
1 AAAATT-AATTCTTTATATGATAATTT
2255956 TTCAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (26 bp):
AAAATTAATTCTTTATATGATAATTT
Found at i:2256141 original size:80 final size:81
Alignment explanation
Indices: 2256026--2256174 Score: 237
Period size: 80 Copynumber: 1.9 Consensus size: 81
2256016 TCAACAATTT
* * *
2256026 TATTTTATTTTTGTTTTTTTAATTATATAATCTATTTAATTATATTTAGTATTTAAGTTTAAATA
1 TATTTTATTTTTGTTCTTTTAATCATATAATCTATTTAATTATATTCAGTATTTAAGTTTAAATA
2256091 AAAAAATTATAATAAG
66 AAAAAATTATAATAAG
* * *
2256107 TATTTTATTTTTG-TCTTTTAATCATATTATCTATTTTATTATATTCAGTATTTAATTTTAAATA
1 TATTTTATTTTTGTTCTTTTAATCATATAATCTATTTAATTATATTCAGTATTTAAGTTTAAATA
2256171 AAAA
66 AAAA
2256175 TTTAAAAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 49 0.79
81 13 0.21
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (81 bp):
TATTTTATTTTTGTTCTTTTAATCATATAATCTATTTAATTATATTCAGTATTTAAGTTTAAATA
AAAAAATTATAATAAG
Found at i:2276745 original size:18 final size:18
Alignment explanation
Indices: 2276722--2276757 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2276712 GAGTCCCCAA
2276722 CCTGCTGAAC-CTGAAGAG
1 CCTGCTG-ACGCTGAAGAG
2276740 CCTGCTGACGCTGAAGAG
1 CCTGCTGACGCTGAAGAG
2276758 ACCGATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.17
Consensus pattern (18 bp):
CCTGCTGACGCTGAAGAG
Found at i:2282058 original size:131 final size:132
Alignment explanation
Indices: 2281811--2282167 Score: 319
Period size: 131 Copynumber: 2.7 Consensus size: 132
2281801 CGATCTTGAG
* * * * * * * * *
2281811 AATAATAATATCTTTTCATTTCGGTTAGAGTGATAAATGATTGCTTTATGGTATGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGATATGAGAGATCATT
* * * * * *
2281876 TATTCTAAATTGGAAATAATTTGATATTGCCACTTTCTCTCGAATTAATA-TT-GATTCTTAAGA
66 TATTCTAAATTAGAAATAATTAGATATTACCACTTTCACTCGAATCAATATTTAAATT-TTAAGA
*
2281939 TGA
130 CGA
* *
2281942 AATAGTGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGATATGAGAGATCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGATATGAGAGATCATT
* ** * **** *
2282007 TATTTTTGATTAGAAATTATTAGATATTATTTTTTTCACTCGAATCGATATTTAAATTTTAAGAC
66 TATTCTAAATTAGAAATAATTAGATATTACCACTTTCACTCGAATCAATATTTAAATTTTAAGAC
2282072 GA
131 GA
* * * * * * *
2282074 AGTAGTAATATCTCTTTATTTCAATTAGG-GTAATAAATGACTGTTTTAATG-CACGAAAGATCA
1 AATAGTAATATCTCTTCATTTCGATT-GGAGTAATAAATGACTGCTTTAA-GATATGAGAGATCA
* *
2282137 TTTATTCTAGATT-GAAAATAATTATATATTA
64 TTTATTCTAAATTAG-AAATAATTAGATATTA
2282168 TCGTTTTCAC
Statistics
Matches: 181, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
131 91 0.50
132 84 0.46
133 6 0.03
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (132 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGATATGAGAGATCATT
TATTCTAAATTAGAAATAATTAGATATTACCACTTTCACTCGAATCAATATTTAAATTTTAAGAC
GA
Found at i:2282135 original size:132 final size:132
Alignment explanation
Indices: 2281871--2282178 Score: 302
Period size: 132 Copynumber: 2.3 Consensus size: 132
2281861 GTATGAGAGG
* * * ** ** * ** *
2281871 TCATTTATTCTAAATTGGAAATAATTTGATATTGCCACTTTCTCTCGAATTAATA-TT-GATTCT
1 TCATTTATTCTAGATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATATTTAAATT-T
* * * * * *
2281934 TAAGATGAAATAGTGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGATATGAG
65 TAAGACGAAATAGTAATATCTCTTCATTTCAATTGGAGCAATAAATGACTGCTTTAAGACACGAA
2281999 AGA
130 AGA
* * * **
2282002 TCATTTATTTTTGATT-AGAAATTATTAGATATTATTTTTTTCACTCGAATCGATATTTAAATTT
1 TCATTTATTCTAGATTGA-AAATAATTAGATATTATCGTTTTCACTCGAATCGATATTTAAATTT
* * * *
2282066 TAAGACGAAGTAGTAATATCTCTTTATTTCAATTAGG-GTAATAAATGACTGTTTTAATG-CACG
65 TAAGACGAAATAGTAATATCTCTTCATTTCAATT-GGAGCAATAAATGACTGCTTTAA-GACACG
2282129 AAAGA
128 AAAGA
*
2282134 TCATTTATTCTAGATTGAAAATAATTATATATTATCGTTTTCACT
1 TCATTTATTCTAGATTGAAAATAATTAGATATTATCGTTTTCACT
2282179 TTTAAAATTA
Statistics
Matches: 140, Mismatches: 31, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
131 40 0.29
132 93 0.66
133 7 0.05
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (132 bp):
TCATTTATTCTAGATTGAAAATAATTAGATATTATCGTTTTCACTCGAATCGATATTTAAATTTT
AAGACGAAATAGTAATATCTCTTCATTTCAATTGGAGCAATAAATGACTGCTTTAAGACACGAAA
GA
Found at i:2287123 original size:26 final size:26
Alignment explanation
Indices: 2287100--2287231 Score: 110
Period size: 26 Copynumber: 5.5 Consensus size: 26
2287090 ACGTATTAAC
2287100 ACATCCTTTCATGCATTTTAATTATG
1 ACATCCTTTCATGCATTTTAATTATG
* *
2287126 GCATCCTTTCATGC--CTT-A--ATG
1 ACATCCTTTCATGCATTTTAATTATG
*
2287147 -CATCTTTTCATGCATTTTAATTATG
1 ACATCCTTTCATGCATTTTAATTATG
*
2287172 ACATCCTTTCATGC--CTT-A--ATG
1 ACATCCTTTCATGCATTTTAATTATG
*
2287193 -CATCATTTCATGCATTTTAATTATGG
1 ACATCCTTTCATGCATTTTAATTAT-G
*
2287219 A-ATCCGTTCATGC
1 ACATCCTTTCATGC
2287232 CTTAATGCAT
Statistics
Matches: 83, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
20 24 0.29
21 6 0.07
22 4 0.05
23 4 0.05
24 4 0.05
25 5 0.06
26 36 0.43
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (26 bp):
ACATCCTTTCATGCATTTTAATTATG
Found at i:2287155 original size:20 final size:20
Alignment explanation
Indices: 2287126--2287271 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
2287116 TTTAATTATG
*
2287126 GCATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCCTTAAT
* *
2287146 GCATCTTTTCATGCATTTTAATTAT
1 GCATCATTTCATGC--CTT-A--AT
*
2287171 GACATCCTTTCATGCCTTAAT
1 G-CATCATTTCATGCCTTAAT
*
2287192 GCATCATTTCATGCATTTTAATTAT
1 GCATCATTTCATGC--CTT-A--AT
* **
2287217 GGAATCCGTTCATGCCTTAAT
1 -GCATCATTTCATGCCTTAAT
*
2287238 GCATCATTTCATACCTTAAT
1 GCATCATTTCATGCCTTAAT
2287258 GCATCATTTCATGC
1 GCATCATTTCATGC
2287272 ATTTTAATTA
Statistics
Matches: 99, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
20 54 0.55
21 5 0.05
22 4 0.04
23 4 0.04
24 4 0.04
25 5 0.05
26 23 0.23
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (20 bp):
GCATCATTTCATGCCTTAAT
Found at i:2287156 original size:46 final size:46
Alignment explanation
Indices: 2287101--2287249 Score: 253
Period size: 46 Copynumber: 3.2 Consensus size: 46
2287091 CGTATTAACA
*
2287101 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATG
1 CATCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATG
* *
2287147 CATCTTTTCATGCATTTTAATTATGACATCCTTTCATGCCTTAATG
1 CATCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATG
* *
2287193 CATCATTTCATGCATTTTAATTATGGAATCCGTTCATGCCTTAATG
1 CATCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATG
2287239 CATCATTTCAT
1 CATCATTTCAT
2287250 ACCTTAATGC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 97 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (46 bp):
CATCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATG
Found at i:2287248 original size:66 final size:66
Alignment explanation
Indices: 2287173--2287317 Score: 236
Period size: 66 Copynumber: 2.2 Consensus size: 66
2287163 TTAATTATGA
*
2287173 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGAATCCGTTCATGCCTTAAT
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGAAATCCGTTCATGCCTTAAT
2287238 G
66 G
* * * *
2287239 CATCATTTCATACCTTAATGCATCATTTCATGCATTTTAATTATGAAATCCTTTTATGCCTTAAT
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGAAATCCGTTCATGCCTTAAT
2287304 G
66 G
*
2287305 TATCCTTTCATGC
1 CATCCTTTCATGC
2287318 ATTTTAATTA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 71 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.43
Consensus pattern (66 bp):
CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGAAATCCGTTCATGCCTTAAT
G
Found at i:2287268 original size:112 final size:112
Alignment explanation
Indices: 2287126--2287361 Score: 382
Period size: 112 Copynumber: 2.1 Consensus size: 112
2287116 TTTAATTATG
* * * *
2287126 GCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAATTATGACATCCTTTCATGCCTTAA
1 GCATCATTTCATACCTTAATGCATCATTTCATGCATTTTAATTATGAAATCCTTTCATGCCTTAA
2287191 TGCATCATTTCATGCATTTTAATTATGGAATCCGTTCATGCCTTAAT
66 TGCATCATTTCATGCATTTTAATTATGGAATCCGTTCATGCCTTAAT
*
2287238 GCATCATTTCATACCTTAATGCATCATTTCATGCATTTTAATTATGAAATCCTTTTATGCCTTAA
1 GCATCATTTCATACCTTAATGCATCATTTCATGCATTTTAATTATGAAATCCTTTCATGCCTTAA
* * * *
2287303 TGTATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
66 TGCATCATTTCATGCATTTTAATTATGGAATCCGTTCATGCCTTAAT
*
2287350 ACATCATTTCAT
1 GCATCATTTCAT
2287362 GCATTTTACA
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (112 bp):
GCATCATTTCATACCTTAATGCATCATTTCATGCATTTTAATTATGAAATCCTTTCATGCCTTAA
TGCATCATTTCATGCATTTTAATTATGGAATCCGTTCATGCCTTAAT
Found at i:2287304 original size:46 final size:46
Alignment explanation
Indices: 2287244--2287369 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
2287234 TAATGCATCA
*
2287244 TTTCATACCTTAATGCATCATTTCATGCATTTTAATTATGAAATCC
1 TTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGAAATCC
* * * **
2287290 TTTTATGCCTTAATGTATCCTTTCATGCATTTTAATTATGGCATCC
1 TTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGAAATCC
*
2287336 TTTCATGCCTTAATACATCATTTCATGCATTTTA
1 TTTCATGCCTTAATGCATCATTTCATGCATTTTA
2287370 CATACTCTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.08, T:0.46
Consensus pattern (46 bp):
TTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGAAATCC
Found at i:2291735 original size:26 final size:26
Alignment explanation
Indices: 2291699--2291755 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
2291689 GAGTGAGTCT
*
2291699 CATGACTTGGAGTGTCATGGGCATAC
1 CATGACTTGGAGTGTCATGGGAATAC
2291725 CATGACTTGGAGTGTCATGGGAATAC
1 CATGACTTGGAGTGTCATGGGAATAC
2291751 CATGA
1 CATGA
2291756 TTTAGAGCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (26 bp):
CATGACTTGGAGTGTCATGGGAATAC
Found at i:2293070 original size:134 final size:132
Alignment explanation
Indices: 2292909--2293538 Score: 600
Period size: 134 Copynumber: 4.6 Consensus size: 132
2292899 GCGAATCGAA
* *
2292909 CTCGATTCAATCTTCCCTAAGTGACAGTGGAATGAATAAACATCCCCAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* ** * *
2292974 ACAAGAAGC-GAAACAGATCATTCTATCTT-AATATTTGATATTCACTAAGTAACAGTGGAACAA
66 AGAAGAAGCAG-AACA-ATCCCTCTCT-TTCAAGATTTGATATTC-CTAAGTAACAGTGGAACAA
*
2293037 ATCTGC
127 GTCTGC
* * *
2293043 CTCAATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* * * * * **
2293108 AGAAAAAGCAGAACAAACCTCTCTCTTTAAATATTTGATATTCCCTGAGTAACAACGGAACAAGT
66 AGAAGAAGCAGAACAATCC-CTCTCTTTCAAGATTTGATATT-CCTAAGTAACAGTGGAACAAGT
2293173 CTGC
129 CTGC
* * * * * * *
2293177 CTCGATTTAATCTTTCCTGGGTGATAGTGGAATGAATCAATACCCCCAGATCTAATTTTTCCCTC
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGA-TTTTCCCTC
** * **
2293242 AAGAAGAAGTGGAACAAATCCCTCTCTTTCAAGATTTGATATTCTCTAAGTAATAGAAGAACAAG
65 AAGAAGAAGCAGAAC-AATCCCTCTCTTTCAAGATTTGATATTC-CTAAGTAACAGTGGAACAAG
*
2293307 TCTAC
128 TCTGC
** * * *
2293312 CTCGATTTTATCTTCTCTGAGT-AGCAGTTGAATGAATCAGCGTCCCCAATCAGCATCCCCGGAT
1 CTCGATTCAATCTTCCCTGAGTGA-CAG-TG---GAAT----G-----AATCAACATCCCCAGAT
* *
2293376 CTGATTTTCCCTCAAGAAGAAGCATAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTA
52 CTGATTTTCCCTCAAGAAGAAGCAGAACA-ATCCCTCTCTTTCAAGATTTGATATTCC-TAAGTA
*
2293441 ACAGTGGAACAAGTCTGT
115 ACAGTGGAACAAGTCTGC
* * * * *
2293459 CTCGATTCAATCTTTCTTGAGTGACAGTGGAATAAATCAACATCCCCAAATTTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* *
2293524 ATAAGAAGAAGAACA
66 AGAAGAAGCAGAACA
2293539 GATCTCTCAT
Statistics
Matches: 403, Mismatches: 69, Indels: 48
0.77 0.13 0.09
Matches are distributed among these distances:
133 4 0.01
134 195 0.48
135 82 0.20
136 6 0.01
139 4 0.01
143 5 0.01
146 4 0.01
147 86 0.21
148 17 0.04
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (132 bp):
CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
AGAAGAAGCAGAACAATCCCTCTCTTTCAAGATTTGATATTCCTAAGTAACAGTGGAACAAGTCT
GC
Found at i:2293505 original size:147 final size:147
Alignment explanation
Indices: 2293233--2293507 Score: 358
Period size: 147 Copynumber: 1.9 Consensus size: 147
2293223 CAGATCTAAT
** *
2293233 TTTTCCCTCAAGAAGAAGTGGAACAAATCCCTCTCTTTCAAGATTTGATATTCTCTAAGTAATAG
1 TTTTCCCTCAAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCTCTAAGTAACAG
** * * * *
2293298 AAGAACAAGTCTACCTCGATTTTATCTTCTCTGAGTAGCAGTTGAATGAATCAGCGTCCCCAATC
66 AAGAACAAGTCTACCTCGATTCAATCTTCTCTGAGTAGCAGTGGAATAAATCAACATCCCCAATC
2293363 AGCATCCCCGGATCTGA
131 AGCATCCCCGGATCTGA
* * *
2293380 TTTTCCCTCAAGAAGAAGCATAACATATCCCTCTCTTTCAAGATTTGATATTC-CTTGAGTAACA
1 TTTTCCCTCAAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCTC-TAAGTAACA
** **
2293444 GTGGAACAAGTCTGTCTCGATTCAATCTT-TCTTGAGT-GACAGTGGAATAAATCAACATCCCCA
65 GAAGAACAAGTCTACCTCGATTCAATCTTCTC-TGAGTAG-CAGTGGAATAAATCAACATCCCCA
2293507 A
128 A
2293508 ATTTGATTTT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
146 4 0.04
147 105 0.96
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (147 bp):
TTTTCCCTCAAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCTCTAAGTAACAG
AAGAACAAGTCTACCTCGATTCAATCTTCTCTGAGTAGCAGTGGAATAAATCAACATCCCCAATC
AGCATCCCCGGATCTGA
Found at i:2293695 original size:21 final size:22
Alignment explanation
Indices: 2293669--2293721 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
2293659 TTCGTCTCAC
*
2293669 TATTATTATATTATTATT-TAA
1 TATTATTATATTATTATTACAA
*
2293690 TATTATCATATTATTATTAACAA
1 TATTATTATATTATTATT-ACAA
2293713 TATTATTAT
1 TATTATTAT
2293722 TCATATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 17 0.63
23 10 0.37
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTATTATATTATTATTACAA
Found at i:2293722 original size:21 final size:21
Alignment explanation
Indices: 2293669--2293730 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
2293659 TTCGTCTCAC
**
2293669 TATTATTA-TATTATTATTTAA
1 TATTATTATTATTATTA-ACAA
2293690 TATTATCATATTATTATTAACAA
1 TATTAT--TATTATTATTAACAA
2293713 TATTATTATTCA-TATTAA
1 TATTATTATT-ATTATTAA
2293731 TACACTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 16 0.46
22 1 0.03
23 10 0.29
24 8 0.23
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTATTATTATTAACAA
Done.