Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 146 of 167
Found at i:48380025 original size:14 final size:14
Alignment explanation
Indices: 48380006--48380034 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48379996 CATTTTTTTC
48380006 ATTTTTTTATTGTT
1 ATTTTTTTATTGTT
48380020 ATTTTTTTATTGTT
1 ATTTTTTTATTGTT
48380034 A
1 A
48380035 AGTGAGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (14 bp):
ATTTTTTTATTGTT
Found at i:48381832 original size:26 final size:26
Alignment explanation
Indices: 48381801--48381885 Score: 93
Period size: 26 Copynumber: 3.3 Consensus size: 26
48381791 GTCCCGATAT
48381801 ATGGCTCTTCATGAGCTTCCCAATTA
1 ATGGCTCTTCATGAGCTTCCCAATTA
* ** * *
48381827 AAGGCTCTTTGTAAGCTTCCTAATTA
1 ATGGCTCTTCATGAGCTTCCCAATTA
* *
48381853 ATGACTCTCCA-GAGCTTCCC-ATTA
1 ATGGCTCTTCATGAGCTTCCCAATTA
48381877 ATGGCTCTT
1 ATGGCTCTT
48381886 AAGAGCTACT
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
24 11 0.24
25 7 0.16
26 27 0.60
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (26 bp):
ATGGCTCTTCATGAGCTTCCCAATTA
Found at i:48382409 original size:27 final size:28
Alignment explanation
Indices: 48382370--48382429 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 28
48382360 TCATACGAAC
*
48382370 TTATTAAGCATTAAATGCTTACTCTGTT
1 TTATTAAGCATTAAATGCTTACTCTATT
48382398 TTATT-AGCATTAAATGCTTACTCTATT
1 TTATTAAGCATTAAATGCTTACTCTATT
48382425 TTATT
1 TTATT
48382430 TCTTCTGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.50
Consensus pattern (28 bp):
TTATTAAGCATTAAATGCTTACTCTATT
Found at i:48384391 original size:22 final size:22
Alignment explanation
Indices: 48384366--48384409 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48384356 TAGTCATATA
48384366 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
48384388 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
48384410 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:48384469 original size:16 final size:17
Alignment explanation
Indices: 48384433--48384469 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
48384423 AATTTTATTT
48384433 TAATAATAATTTTTAAA
1 TAATAATAATTTTTAAA
48384450 -AATAATAA-TTTTAAA
1 TAATAATAATTTTTAAA
48384465 TAATA
1 TAATA
48384470 TTATTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAATAATTTTTAAA
Found at i:48395201 original size:71 final size:70
Alignment explanation
Indices: 48395079--48395254 Score: 203
Period size: 71 Copynumber: 2.5 Consensus size: 70
48395069 CTTTCCAAGG
** *
48395079 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
*
48395143 TTTTTT
65 TGTTTT
* ** * *
48395149 CAAAATCAACTCATATTGCGAGAAGTGAGTTGTGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
48395214 TGTTTT
65 TGTTTT
** * *
48395220 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
48395255 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 30 0.33
71 58 0.64
72 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:48395375 original size:72 final size:72
Alignment explanation
Indices: 48395254--48395493 Score: 376
Period size: 72 Copynumber: 3.3 Consensus size: 72
48395244 GAGTTAAGCC
** * *
48395254 TTTT-AATTTTTGT-TTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
48395317 CTGAGGTA
65 CTGAGGTA
48395325 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
48395390 TGAGGTA
66 TGAGGTA
* *
48395397 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
48395462 TGAGGTA
66 TGAGGTA
* *
48395469 TTTTCAATTTTCGTTTTTTTAATTT
1 TTTTCAATTTTTG-TGTTTTAATTT
48395494 ATGTTTCAAA
Statistics
Matches: 158, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
71 4 0.03
72 140 0.89
73 14 0.09
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (72 bp):
TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
TGAGGTA
Found at i:48395744 original size:235 final size:233
Alignment explanation
Indices: 48395272--48396082 Score: 945
Period size: 235 Copynumber: 3.5 Consensus size: 233
48395262 TTTGTTTTTC
* * * ** *
48395272 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAAGCACGCTGAGGTAATTTCAATTTTT
* ** * * **
48395337 GTGTT-T-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTT
66 GT-TTGTCAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGGGTTT
* *** * * * *
48395400 TCAATTTTTGTGT-TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACG
130 T-AATTTATGT-TCAAAAAATT-AGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACG
*
48395461 CTGAGGTATTTTCAATTTTCGTTTTTTTAATTTATGTTTCAAAA
191 CTGAGGTATTTTCAATTTTCG-TTTTTCAATTTATGTTTCAAAA
48395505 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AAG-ACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAAGCACGCTGAGGTAATTTCAATTTTT
* *
48395568 GTTTGTCACCA-ATCAACTCATATTGC-ACCAGGTGAGTTGAGCCTCAGGACACGCTGAGGCGGT
66 GTTTGTCA-AAGATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTCAGGACACGCTGAGG-GGT
* *
48395631 TTTAATTTATGTTCCCAAAAAATTAGCTCATATTGCCAGAGGTGAGTTGAGCCTTGGCTCCCACG
128 TTTAATTTATGTT--CAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACG
48395696 CTGAGGTATTTTCAATTTTCGTTTTTCCAATTTATGTTTCAAAA
191 CTGAGGTATTTTCAATTTTCGTTTTT-CAATTTATGTTTCAAAA
* * *
48395740 AAAATCAACTCATATTGCGAGAAGTGAGTTCA-CGCT--AAGGTA-ACTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGC-CTCGAA-GCACGCTGAGGTAATTTCAATTT
* *
48395801 TTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGT
64 TTGTTTGTCAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-GGT
48395866 TTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACG
128 TTTAATTTATGTTC--AAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACG
* * * ***
48395931 CTGAGGTACTTTCAA-TTTCAGGTTTTCAATTTCTGTTT-TTCA
191 CTGAGGTATTTTCAATTTTC-GTTTTTCAATTTATGTTTCAAAA
* * * * *
48395973 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGACACGCTAAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAAG-CACGCTGAGGTAATTTCAATTTT
*
48396037 TGTTTGTCAAAGATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 TGTTTGTCAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
48396083 GGCTCACATG
Statistics
Matches: 505, Mismatches: 48, Indels: 48
0.84 0.08 0.08
Matches are distributed among these distances:
230 2 0.00
231 27 0.05
232 53 0.10
233 101 0.20
234 30 0.06
235 290 0.57
236 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (233 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAAGCACGCTGAGGTAATTTCAATTTTT
GTTTGTCAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGGGTTTT
AATTTATGTTCAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAG
GTATTTTCAATTTTCGTTTTTCAATTTATGTTTCAAAA
Found at i:48395959 original size:14 final size:14
Alignment explanation
Indices: 48395940--48395973 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
48395930 GCTGAGGTAC
48395940 TTTCAATTTCAGGT
1 TTTCAATTTCAGGT
* *
48395954 TTTCAATTTCTGTT
1 TTTCAATTTCAGGT
48395968 TTTCAA
1 TTTCAA
48395974 AAATCGACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCAGGT
Found at i:48395960 original size:162 final size:161
Alignment explanation
Indices: 48395792--48396430 Score: 555
Period size: 162 Copynumber: 3.8 Consensus size: 161
48395782 ACTGAGGTAA
* *
48395792 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* ** * * *
48395857 TGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TAAGGTAATTTCAATTTATGTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
48395922 GCTCACACGCTGAGGTAC-TTTCAATTTCAGGT
131 GCTCACACGCTGAGG-ACTTTTCAATTTC-GGT
* * *
48395954 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* ** * * *
48396019 TAAGGTAATTTCAATTTCTGTTTGTCAAAGATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 TAAGGTAATTTCAATTTATGTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
* * *
48396084 GCTCACATGCTGAGGGCTTTTCAATTTCTGT
131 GCTCACACGCTGAGGACTTTTCAATTTCGGT
* * **
48396115 TCTTCAATTTCTGTTCGTAAAAAAAATCAACTCACCTTGCGAGAGGTGAGTTGAGCCTC-GGCTC
1 T-TTCAATTTCTGTTTGT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
* * * * * **
48396179 ACATGCTGAGGGCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAATCAACTCACCTT
60 ACACGCT-AAGG----T-AA-------T-TTCAATTTATGTTC--ATAAAAAATTAACTCATATT
* * * *
48396244 GCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGGCTTTTCAATTTCTGT
109 GCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGACTTTTCAATTTCGGT
* *
48396297 TCTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTC
1 T-TTCAATTTCTGTTTGT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
* * * * ** * *
48396361 ACATGCTGAGGTATTTTCAATTTCTGTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGT
60 ACACGCTAAGGTAATTTCAATTTATG---TTCATAAAAAATTAACTCATATTGCAAGAGGTGAGT
48396426 TGAGC
122 TGAGC
48396431 TTCAGATTAC
Statistics
Matches: 404, Mismatches: 47, Indels: 45
0.81 0.09 0.09
Matches are distributed among these distances:
161 4 0.01
162 151 0.37
163 2 0.00
164 35 0.09
166 6 0.01
167 3 0.01
168 11 0.03
169 35 0.09
171 3 0.01
172 2 0.00
176 1 0.00
177 1 0.00
179 1 0.00
180 13 0.03
181 2 0.00
182 134 0.33
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (161 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TAAGGTAATTTCAATTTATGTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
GCTCACACGCTGAGGACTTTTCAATTTCGGT
Found at i:48396122 original size:14 final size:14
Alignment explanation
Indices: 48396103--48396130 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48396093 CTGAGGGCTT
48396103 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
48396117 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
48396131 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:48396181 original size:91 final size:91
Alignment explanation
Indices: 48396060--48396388 Score: 613
Period size: 91 Copynumber: 3.6 Consensus size: 91
48396050 TTAACTCATA
48396060 TTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGGCTTTTCAATTTCTGTTCTTCAATTT
1 TTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGGCTTTTCAATTTCTGTTCTTCAATTT
48396125 CTGTTCGTAAAAAAAATCAACTCACC
66 CTGTTCGTAAAAAAAATCAACTCACC
48396151 TTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGGCTTTTCAATTTCTGTTCTTCAATTT
1 TTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGGCTTTTCAATTTCTGTTCTTCAATTT
48396216 CTGTTCGTAAAAAAAATCAACTCACC
66 CTGTTCGTAAAAAAAATCAACTCACC
48396242 TTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGGCTTTTCAATTTCTGTTCTTCAATTT
1 TTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGGCTTTTCAATTTCTGTTCTTCAATTT
**
48396307 CTGTTCGTAAAAAAAATCAACTCATA
66 CTGTTCGTAAAAAAAATCAACTCACC
* **
48396333 TTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTT
1 TTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGGCTTTTCAATTTCTGTT
48396389 TTTTTTAAAA
Statistics
Matches: 233, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 233 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (91 bp):
TTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGGCTTTTCAATTTCTGTTCTTCAATTT
CTGTTCGTAAAAAAAATCAACTCACC
Found at i:48396213 original size:14 final size:14
Alignment explanation
Indices: 48396194--48396221 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48396184 CTGAGGGCTT
48396194 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
48396208 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
48396222 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:48396304 original size:14 final size:14
Alignment explanation
Indices: 48396285--48396312 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48396275 CTGAGGGCTT
48396285 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
48396299 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
48396313 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:48396768 original size:72 final size:73
Alignment explanation
Indices: 48396674--48396814 Score: 221
Period size: 72 Copynumber: 1.9 Consensus size: 73
48396664 CAAAATCAGC
* * * *
48396674 TCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TGTTTTA
1 TCATATTGCAAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTTA
48396738 ATTTCAAT
66 ATTTCAAT
* *
48396746 TCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTTA
1 TCATATTGCAAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTTA
48396811 ATTT
66 ATTT
48396815 ATGTTTCAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 52 0.84
73 10 0.16
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (73 bp):
TCATATTGCAAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTTA
ATTTCAAT
Found at i:48396972 original size:14 final size:14
Alignment explanation
Indices: 48396953--48396986 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
48396943 GCTGAGGTAC
48396953 TTTCAATTTCTGGT
1 TTTCAATTTCTGGT
*
48396967 TTTCAATTTCTGTT
1 TTTCAATTTCTGGT
48396981 TTTCAA
1 TTTCAA
48396987 AAATCGACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTGGT
Found at i:48397030 original size:89 final size:88
Alignment explanation
Indices: 48396878--48397057 Score: 279
Period size: 89 Copynumber: 2.0 Consensus size: 88
48396868 GCTGAGGTAA
* *
48396878 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACAC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACAC
48396943 GCTGAGGTACTTTCAATTTCTGGT
66 GCTGAGGTACTTTCAATTTCT-GT
* * * * *
48396967 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACAT
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACAC
*
48397032 GCTGAGGTATTTTCAATTTCTGT
66 GCTGAGGTACTTTCAATTTCTGT
48397055 TTT
1 TTT
48397058 AAAAAAAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
88 5 0.06
89 78 0.94
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (88 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACAC
GCTGAGGTACTTTCAATTTCTGT
Found at i:48397092 original size:78 final size:76
Alignment explanation
Indices: 48396966--48397870 Score: 834
Period size: 78 Copynumber: 11.7 Consensus size: 76
48396956 CAATTTCTGG
* *
48396966 TTTTCAATTTCTG-TTTT-TCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCA
1 TTTTCAATTTCTGTTTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCA
48397029 CATGCTGAGGTA
65 CATGCTGAGGTA
* * * *
48397041 TTTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG--
1 TTTTCAATTTCTGTTTT-TATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTC
48397104 AC--GCTGAGGTA
64 ACATGCTGAGGTA
* * * * *
48397115 ATTTCAATTT-T-TGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG--A
1 TTTTCAATTTCTGTTTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
* *
48397176 CACGCTGAGGTGG
65 CATGCTGAGGT-A
* * * * * * *
48397189 TTTT-AATTTATG--TTCATAGAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCA
1 TTTTCAATTTCTGTTTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCA
*
48397251 CACGCTGAGGTA
65 CATGCTGAGGTA
* * * *
48397263 CTTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCT-G---------T-T-TTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
48397328 AGCCTCGGTTCACATGCTGAGGTA
54 AGCCTCGG-TCACATGCTGAGGTA
*
48397352 TTTTCAATTTCTGTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTC
1 TTTTCAATTTCTG-TTTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TC
48397417 ACATGCTGAGGTA
64 ACATGCTGAGGTA
*
48397430 TTTTCAATTTCTGTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTC
1 TTTTCAATTTCTG-TTTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TC
48397495 ACATGCTGAGGTA
64 ACATGCTGAGGTA
*
48397508 TTTTCAATTTCTGTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAATGAGTTGAGC
1 TTTTCAATTTCTG-TTTTTATAAAAAATCAACTCATATTGCGAGA---G-G----TGAGTTGAGC
48397573 CTCAGG--ACATGCTGAGGTA
57 CTC-GGTCACATGCTGAGGTA
* * * * **
48397592 ATTTCAATTTCTG--TTT-TCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGG--A
1 TTTTCAATTTCTGTTTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
*
48397652 CGTGCTGAGGTA
65 CATGCTGAGGTA
* * ** * ** ** *
48397664 ATTTCAATTTCTG--TTT-TCAAACCTCAACTTATATTGCGAGAAATGAGTTGCCCCTCAAG--A
1 TTTTCAATTTCTGTTTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCA
* *
48397724 CACGTTGAGGTA
65 CATGCTGAGGTA
* * *
48397736 TTTTCAATTTCTGTTTTCAAAAACCAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTT
1 TTTTCAATTTCTGTTTTTATAAA--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-T
48397801 CACATGCTGAGGTA
63 CACATGCTGAGGTA
*
48397815 TTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTGTTTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
48397871 TTCAGATTAC
Statistics
Matches: 715, Mismatches: 71, Indels: 86
0.82 0.08 0.10
Matches are distributed among these distances:
71 40 0.06
72 109 0.15
73 51 0.07
74 27 0.04
75 33 0.05
76 7 0.01
77 62 0.09
78 219 0.31
79 35 0.05
80 24 0.03
81 4 0.01
82 1 0.00
84 25 0.03
86 13 0.02
87 2 0.00
88 1 0.00
89 62 0.09
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTTATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
ATGCTGAGGTA
Found at i:48397223 original size:73 final size:71
Alignment explanation
Indices: 48396967--48397272 Score: 254
Period size: 73 Copynumber: 4.1 Consensus size: 71
48396957 AATTTCTGGT
* ** * * * *
48396967 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACAT
1 TTTCAATTTATGTTCATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC----AACAC
*
48397032 GCTGAGGTAT
62 GCTGAGGTAA
* * ** * * *
48397042 TTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACG
1 TTTCAATTTATG--TT-CATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAACACG
48397107 CTGAGGTAA
63 CTGAGGTAA
* **
48397116 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTATGTTCATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCA--ACACGC
**
48397181 TGAGGTGG
64 TGAGGTAA
* * * *
48397189 TTTTAATTTATGTTCAT-AGAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACA
1 TTTCAATTTATGTTCATCA-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC-T--C-AACA
*
48397253 CGCTGAGGTAC
61 CGCTGAGGTAA
48397264 TTTCAATTT
1 TTTCAATTT
48397273 CTGGTTTTCA
Statistics
Matches: 191, Mismatches: 30, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
71 37 0.19
72 3 0.02
73 57 0.30
74 23 0.12
75 32 0.17
76 1 0.01
77 2 0.01
78 36 0.19
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (71 bp):
TTTCAATTTATGTTCATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAACACGCTG
AGGTAA
Found at i:48397246 original size:311 final size:313
Alignment explanation
Indices: 48396647--48397870 Score: 1066
Period size: 311 Copynumber: 3.9 Consensus size: 313
48396637 GAGTTAAGCC
* * **
48396647 TTTT-AATTTTTGTTTTTC-AAAATC-AGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTCTGTTTTTCAAAAATCGA-CTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCAC
* * ** *
48396709 --GCTGAGGTATTTTCAATTTTTGTGTTT-----TAATTTCAATTCATATTGCGAG-AGATGAGT
65 ATGCTGAGGTATTTTCAATTTCTGT-TTTAAAAAAAAAATCAACTCATATTGCGAGAAG-TGAGT
* * * *
48396766 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTTAATTTATGTTTCAAAAAGAAT
128 TGAGCCTCAGTACA-GCTGAGGTAATTTCAA-TTTC----TGTT--GTT-TG--T--AAAA-AAT
* * * **
48396831 CAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTC
179 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTAATTTCAATTTATGTTCATC
48396896 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTACTTTCAATT
244 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTACTTTCAATT
48396961 TCTGG
309 TCTGG
48396966 TTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA
1 TTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA
48397031 TGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
66 TGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
* *
48397096 GCCTCAAG-AC-GCTGAGGTAATTTCAA-TT-T-TTGTTTGTCAAAAATCAACTCATATTGCAAG
131 GCCTC-AGTACAGCTGAGGTAATTTCAATTTCTGTTGTTTGTAAAAAATCAACTCATATTGCGAG
** * * *
48397156 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTATGTTCAT-AGAAAATTAGCTCA
195 AGGTGAGTTGAGCCTCA--ACACGCTGAGGTAATTTCAATTTATGTTCATCA-AAAATCAACTCA
48397220 TATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTACTTTCAATTTCTGG
257 TATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTACTTTCAATTTCTGG
48397277 TTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA
1 TTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA
**** *
48397342 TGCTGAGGTATTTTCAATTTCTGTTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 TGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
* * * *
48397407 GCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTTTTAAAAAATCAACTCATATTGCG
131 GCCTCAG-T-ACA-GCTGAGGTAATTTCAATTTCTGTTGTTTGTAAAAAATCAACTCATATTGCG
* * * * ** *
48397472 AGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTTTTAAAAAATC
193 AGAGGTGAGTTGAGCCTC----AACACGCTGAGGTAATTTCAATTTATG---TTCATCAAAAATC
* * * * * * * * **
48397537 AACTCATATTGCGAGAGGTGAGTT-A---ATGAGTTGA-GC-CTCAGG-ACATGC----TGAGG
251 AACTCATATTGCAAGAGGTGAGTTGAGCCTTG-GCTCACACGCTGAGGTACTTTCAATTTCTGG
* * * **
48397590 TAATTTCAATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGG---
1 T--TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTC
* * * ** * *
48397651 ACGTGCTGAGGTAATTTCAATTTCTGTTTT----CAAACCTCAACTTATATTGCGAGAAATGAGT
63 ACATGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAAGTGAGT
** * * *** *
48397712 TGCCCCTCAAG-ACACGTTGAGGTATTTTCAATTTCTGTT-TTCAAAAACCAAATCAACTTATAT
128 TGAGCCTC-AGTACA-GCTGAGGTAATTTCAATTTCTGTTGTTTGTAAA--AAATCAACTCATAT
* * * * * **
48397775 TGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAAA
189 TGCGAGAGGTGAGTTGAGCCTC----AACACGCTGAGGTAATTTCAATTTATG--TTCATCAAAA
*
48397840 ATCAACTCATATTGCGAGAGGTGAGTTGAGC
248 ATCAACTCATATTGCAAGAGGTGAGTTGAGC
48397871 TTCAGATTAC
Statistics
Matches: 786, Mismatches: 78, Indels: 92
0.82 0.08 0.10
Matches are distributed among these distances:
305 5 0.01
306 63 0.08
307 67 0.09
308 31 0.04
309 35 0.04
310 5 0.01
311 221 0.28
312 29 0.04
313 6 0.01
314 40 0.05
315 31 0.04
316 2 0.00
317 7 0.01
318 49 0.06
319 7 0.01
320 37 0.05
321 39 0.05
322 5 0.01
323 54 0.07
324 1 0.00
325 15 0.02
327 33 0.04
328 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (313 bp):
TTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA
TGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
GCCTCAGTACAGCTGAGGTAATTTCAATTTCTGTTGTTTGTAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTCAACACGCTGAGGTAATTTCAATTTATGTTCATCAAAAATCAACTCATATT
GCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTACTTTCAATTTCTGG
Found at i:48397283 original size:14 final size:14
Alignment explanation
Indices: 48397264--48397297 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
48397254 GCTGAGGTAC
48397264 TTTCAATTTCTGGT
1 TTTCAATTTCTGGT
*
48397278 TTTCAATTTCTGTT
1 TTTCAATTTCTGGT
48397292 TTTCAA
1 TTTCAA
48397298 AAATCGACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTGGT
Found at i:48398039 original size:76 final size:75
Alignment explanation
Indices: 48397898--48398323 Score: 527
Period size: 76 Copynumber: 5.7 Consensus size: 75
48397888 GGTATTTTTT
* * *
48397898 TCAATTCATTTTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
48397963 GTAAAAAAAAA
65 GTAAAAAAAAA
*
48397974 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGGAATTTCAATTTCTGTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
**
48398039 GTAAAATCAAA
65 GTAAAAAAAAA
* *
48398050 TCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGACACGCTGAGGGAATTTCAATTTCTGTT-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
** *
48398114 T--TCAAAAT
66 TAAAAAAAAA
* ** * * * *
48398122 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
48398187 TCAAAAAAAAA
66 T-AAAAAAAAA
* * *
48398198 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTG
* *
48398262 TTTTTAAAAAAAA
63 TTGTAAAAAAAAA
* * * *
48398275 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTA
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
48398324 TTTTTAGTTT
Statistics
Matches: 308, Mismatches: 34, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
72 58 0.19
73 1 0.00
74 1 0.00
75 11 0.04
76 168 0.55
77 39 0.13
78 30 0.10
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (75 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
TAAAAAAAAA
Found at i:48398185 original size:148 final size:148
Alignment explanation
Indices: 48397898--48398307 Score: 518
Period size: 148 Copynumber: 2.7 Consensus size: 148
48397888 GGTATTTTTT
* * *
48397898 TCAATTCATTTTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
* * *
48397963 GTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGGAATTTC
65 -T--TAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGGAATTTC
**
48398028 AATTTCTGTTCGT-AAAATCAAA
127 AATTTCTGTT-GTCAAAAAAAAA
* *
48398050 TCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGACACGCTGAGGGAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* * * * * * *
48398115 TCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
66 TAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGGAATTTCAATT
*
48398180 TCTGTTTTCAAAAAAAAA
131 TCTGTTGTCAAAAAAAAA
* * *
48398198 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTG
48398262 TTTTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
63 -TTTT--AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
48398308 GGGGCACGCC
Statistics
Matches: 224, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
147 3 0.01
148 99 0.44
150 24 0.11
151 4 0.02
152 59 0.26
153 35 0.16
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (148 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGGAATTTCAATT
TCTGTTGTCAAAAAAAAA
Found at i:48398367 original size:69 final size:72
Alignment explanation
Indices: 48397898--48398375 Score: 295
Period size: 76 Copynumber: 6.4 Consensus size: 72
48397888 GGTATTTTTT
* * * * * * * *
48397898 TCAATTCATTTTGCTAGAGGTGAGTTGAGCCTCAGGACAC-GCTGAGGTAATTTCAATTTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTATTTTCAATTTATGTT
**
48397962 CGTAAAAAAAAA
66 --T---TTAAAA
* * * * * *
48397974 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC-GCTGAGGGAATTTCAATTTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTATTTTCAATTTATGTT
* *
48398038 CGTAAAATCAAA
66 --T---TTAAAA
* * * * * * *
48398050 TCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGACAC-GCTGAGGGAATTTCAATTTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTATTTTCAATTTATGTT
*
48398114 TTCAAAA
66 TTTAAAA
* ** ** * ** *
48398121 TTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-GTTGAGGTATTTTCAATTTCTGT
1 -TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTATTTTCAATTTATGT
*
48398185 TTTCAAAAAAAAA
65 TTT-----TAAAA
* ** * *
48398198 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACA-GCCGAGGTATTTTCAATTTATGT
48398263 TTTTAAAAAAAA
65 TTTT----AAAA
* * *
48398275 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAC-GCCGAGGTATTTTTAGTTTATG-T
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTATTTTCAATTTATGTT
48398338 TTT-AAA
66 TTTAAAA
** *
48398344 TTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
48398376 TTTAATTTTT
Statistics
Matches: 351, Mismatches: 39, Indels: 31
0.83 0.09 0.07
Matches are distributed among these distances:
69 31 0.09
71 3 0.01
72 58 0.17
74 5 0.01
75 18 0.05
76 167 0.48
77 44 0.13
78 25 0.07
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTATTTTCAATTTATGTT
TTTAAAA
Found at i:48402641 original size:14 final size:14
Alignment explanation
Indices: 48402622--48402649 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48402612 CTGAGGTCTT
48402622 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
48402636 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
48402650 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:48402754 original size:71 final size:72
Alignment explanation
Indices: 48402636--48402825 Score: 274
Period size: 73 Copynumber: 2.6 Consensus size: 72
48402626 ATTTCTGTTC
* * * * *
48402636 TTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-AGACGC
1 TTCAATTTCTGTTTGT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGA
48402700 TGAGGTAAT
64 TGAGGTAAT
*
48402709 TTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGAT
*
48402774 GATGTAAT
65 GAGGTAAT
*
48402782 TTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTG
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTG
48402826 GTTTGAACCT
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
71 38 0.36
73 68 0.64
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (72 bp):
TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGATG
AGGTAAT
Found at i:48402878 original size:127 final size:126
Alignment explanation
Indices: 48402727--48403213 Score: 536
Period size: 127 Copynumber: 3.8 Consensus size: 126
48402717 TTGTTTGTCA
*
48402727 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGATGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
48402792 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGTTTGAACCTTTTAATTTCTACTTTTTC
66 GTTT-TCAAGAATCAACTCATATTGCGAGAGGTGGTTTGAACCTTTTAATTTCTACTTTTTC
* * * *
48402854 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGATGAGGTAATTTCAATT
* * * * * *
48402918 TCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAG-TTG-AGC-TTCAGATTACACAC
63 TCTGTTTT----CAAGAATCAACTCATATTGCGAGAGGTG-GTTTGAACCTTTTA-ATTTC-TAC
48402980 TGTGGTATT-
121 T-T--T-TTC
**** * *
48402989 TTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGATGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
48403054 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGTTTGAACCTTTTAATTTCTACTTTTTC
66 GTTT-TCAAGAATCAACTCATATTGCGAGAGGTGGTTTGAACCTTTTAATTTCTACTTTTTC
* * * * * * *
48403116 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
* **
48403181 GTGTTTTAA-TTTCAACTCATATTGCGAGAGGTG
66 GT-TTTCAAGAATCAACTCATATTGCGAGAGGTG
48403214 AGTCGAGCCT
Statistics
Matches: 296, Mismatches: 43, Indels: 43
0.77 0.11 0.11
Matches are distributed among these distances:
126 26 0.09
127 94 0.32
128 3 0.01
129 27 0.09
130 35 0.12
131 12 0.04
132 35 0.12
133 27 0.09
134 1 0.00
135 32 0.11
136 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (126 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
GTTTTCAAGAATCAACTCATATTGCGAGAGGTGGTTTGAACCTTTTAATTTCTACTTTTTC
Found at i:48403444 original size:73 final size:71
Alignment explanation
Indices: 48403257--48403456 Score: 238
Period size: 73 Copynumber: 2.8 Consensus size: 71
48403247 ATTTTCATTT
** * * * *
48403257 TTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGATGCT
1 TTTTAATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGAT
48403322 GAGGTAA
65 GAGGTAA
* * **
48403329 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGA
**
48403394 TGAGGTGG
64 TGAGGTAA
* * *
48403402 TTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
48403457 TGGCTCACAC
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
71 40 0.37
72 10 0.09
73 57 0.53
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (71 bp):
TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGATG
AGGTAA
Found at i:48403495 original size:14 final size:14
Alignment explanation
Indices: 48403476--48403510 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
48403466 CGCTGAGGTA
48403476 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
48403490 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
48403504 TTTTCAA
1 TTTTCAA
48403511 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:48403536 original size:162 final size:162
Alignment explanation
Indices: 48403329--48404172 Score: 975
Period size: 177 Copynumber: 5.1 Consensus size: 162
48403319 GCTGAGGTAA
* * * *
48403329 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGACACGC
** * * ** * * * *
48403394 TGAGGTGGTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
65 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
* *
48403459 GCTCACACGCTGAGGTA-TTTTCAATTTCTGGT
130 GCTCACATGCTGAGGTATTTTTCAATTTCTGTT
* * *
48403491 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGACACGC
*
48403556 TGAGGTAATTTCAATTTCTGTTTATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
65 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
48403621 GCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTTT
130 GCTCACATGCTGAGG------T-A----T--TTTTCAATTTCTG-TT
* *
48403668 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGATTTGAGCCTCGAGACACGC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCG-GACACGC
48403733 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
65 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
48403798 GCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTTT
130 GCTCACATGCTGAGG------T-A----T--TTTTCAATTTCTG-TT
* *
48403845 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGATTTGAGCCTCGAGACACGC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCG-GACACGC
*
48403910 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
65 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC-
* *
48403975 GG---ACACGCTGAGGTATTTTTAAATTTCTGTT
129 GGCTCACATGCTGAGGTATTTTTCAATTTCTGTT
*
48404006 TTTC-A---A--------AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACATGC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGACACGC
*
48404059 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTCCGAGAGGTGAGTTGAGTCTCG
65 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
* *
48404124 GCTCACATGCTGAGGTCTTTTT-AATTTCTGCT
130 GCTCACATGCTGAGGTATTTTTCAATTTCTGTT
*
48404156 TTTCAATTTCTGTTTTT
1 TTTCAATTTATGTTTTT
48404173 TCAATTTATA
Statistics
Matches: 617, Mismatches: 33, Indels: 65
0.86 0.05 0.09
Matches are distributed among these distances:
148 2 0.00
149 105 0.17
150 14 0.02
151 17 0.03
157 1 0.00
160 1 0.00
161 6 0.01
162 142 0.23
164 1 0.00
168 2 0.00
169 2 0.00
175 10 0.02
176 14 0.02
177 298 0.48
178 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (162 bp):
TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCT
GAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
CTCACATGCTGAGGTATTTTTCAATTTCTGTT
Found at i:48403660 original size:14 final size:15
Alignment explanation
Indices: 48403635--48403676 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
48403625 ACATGCTGAG
*
48403635 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
48403650 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
48403664 GTTTTTTCAATTT
1 GTCTTTTCAATTT
48403677 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:48403672 original size:15 final size:14
Alignment explanation
Indices: 48403638--48403687 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
48403628 TGCTGAGGTC
48403638 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
48403651 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
48403665 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
48403680 TTTTTCAA
1 TTTTTCAA
48403688 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:48403837 original size:14 final size:15
Alignment explanation
Indices: 48403812--48403853 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
48403802 ACATGCTGAG
*
48403812 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
48403827 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
48403841 GTTTTTTCAATTT
1 GTCTTTTCAATTT
48403854 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:48403849 original size:15 final size:14
Alignment explanation
Indices: 48403815--48403864 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
48403805 TGCTGAGGTC
48403815 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
48403828 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
48403842 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
48403857 TTTTTCAA
1 TTTTTCAA
48403865 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:48404124 original size:73 final size:73
Alignment explanation
Indices: 48403845--48404124 Score: 389
Period size: 73 Copynumber: 3.8 Consensus size: 73
48403835 ATTTCTGTTT
* * * * *
48403845 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGATTTGAGCCTCGAGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGC
48403910 TGAGGTAA
66 TGAGGTAA
* * *
48403918 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGC
*
48403983 TGAGGTATT
66 TGAGGTA-A
* * *
48403992 TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACAT
1 TTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACAC
48404057 GCTGAGGTAA
64 GCTGAGGTAA
* * * *
48404067 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTCCGAGAGGTGAGTTGAGTCTCGG
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG
48404125 CTCACATGCT
Statistics
Matches: 182, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
73 100 0.55
74 16 0.09
75 16 0.09
76 50 0.27
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTAA
Found at i:48404163 original size:14 final size:15
Alignment explanation
Indices: 48404138--48404179 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
48404128 ACATGCTGAG
*
48404138 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
48404153 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
48404167 GTTTTTTCAATTT
1 GTCTTTTCAATTT
48404180 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:48404175 original size:15 final size:14
Alignment explanation
Indices: 48404141--48404190 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
48404131 TGCTGAGGTC
48404141 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
48404154 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
48404168 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
48404183 TTTTTCAA
1 TTTTTCAA
48404191 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:48405943 original size:102 final size:102
Alignment explanation
Indices: 48405767--48406060 Score: 588
Period size: 102 Copynumber: 2.9 Consensus size: 102
48405757 ATTTTCACTC
48405767 GATAGTGGGTAAGAATTAATTTTTCCTCTCACCTATTTTGTATTCCAGCAATGTTTGCTTTCTTT
1 GATAGTGGGTAAGAATTAATTTTTCCTCTCACCTATTTTGTATTCCAGCAATGTTTGCTTTCTTT
48405832 CATTAATCCATTCTTTTAAGATTTTATATGCAAAGAT
66 CATTAATCCATTCTTTTAAGATTTTATATGCAAAGAT
48405869 GATAGTGGGTAAGAATTAATTTTTCCTCTCACCTATTTTGTATTCCAGCAATGTTTGCTTTCTTT
1 GATAGTGGGTAAGAATTAATTTTTCCTCTCACCTATTTTGTATTCCAGCAATGTTTGCTTTCTTT
48405934 CATTAATCCATTCTTTTAAGATTTTATATGCAAAGAT
66 CATTAATCCATTCTTTTAAGATTTTATATGCAAAGAT
48405971 GATAGTGGGTAAGAATTAATTTTTCCTCTCACCTATTTTGTATTCCAGCAATGTTTGCTTTCTTT
1 GATAGTGGGTAAGAATTAATTTTTCCTCTCACCTATTTTGTATTCCAGCAATGTTTGCTTTCTTT
48406036 CATTAATCCATTCTTTTAAGATTTT
66 CATTAATCCATTCTTTTAAGATTTT
48406061 GTTCCTAATA
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 192 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.46
Consensus pattern (102 bp):
GATAGTGGGTAAGAATTAATTTTTCCTCTCACCTATTTTGTATTCCAGCAATGTTTGCTTTCTTT
CATTAATCCATTCTTTTAAGATTTTATATGCAAAGAT
Found at i:48406737 original size:44 final size:44
Alignment explanation
Indices: 48406611--48407156 Score: 236
Period size: 45 Copynumber: 11.6 Consensus size: 44
48406601 GAAGTTGTCG
* * * ***
48406611 ATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATCGAAGATGGCGA
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAG-CCACGA
* * * * *
48406656 ATATTTTTTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACCA
1 AT-CTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAGCCACGA
* * * * *
48406700 ACCTTATCTCCTTGAAGTTGTAGCGGAGCAAACTGAAGACAACGA
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAG-CCACGA
* * * * * *
48406745 ATCTTATTTCCCTGACGTTGCAGTGGAACATATTAAAGCTACAAATTATGGCGA
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAGC--C-----A---CGA
* *
48406799 ATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACCA
1 ATCTTATC-TCCTTGAAGTTGCAGTGGAGCAAATTGAAGCCACGA
* * * * *
48406843 ACCTTATCTCCTTGAAGTTGTAGCGGAGCAAACTGAAGACAACGA
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAG-CCACGA
* * * * * *
48406888 ATCTTATTTCCCTGACGTTGCAGTGGAACATATTAAAGCTACAAATTATGGCGA
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAGC--C-----A---CGA
* *
48406942 ATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACCA
1 ATCTTATC-TCCTTGAAGTTGCAGTGGAGCAAATTGAAGCCACGA
* * * * *
48406986 ACCTTATCTCCTTGAAGTTGTAGCGGAGCAAACTGAAGACAACGA
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAG-CCACGA
* * * * * *
48407031 ATCTTATTTCCCTGACGTTGCAGTGGAACATATTAAAGCTACAAATTATGGCGA
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAGC--C-----A---CGA
* *
48407085 ATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACCA
1 ATCTTATC-TCCTTGAAGTTGCAGTGGAGCAAATTGAAGCCACGA
** * *
48407129 GCCTTATCTCCCTGAAGTTGCAGCGGAG
1 ATCTTATCTCCTTGAAGTTGCAGTGGAG
48407157 TAGCCTGAAG
Statistics
Matches: 373, Mismatches: 87, Indels: 83
0.69 0.16 0.15
Matches are distributed among these distances:
43 15 0.04
44 113 0.30
45 122 0.33
46 6 0.02
47 3 0.01
51 3 0.01
52 3 0.01
54 99 0.27
55 9 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAGCCACGA
Found at i:48406907 original size:143 final size:143
Alignment explanation
Indices: 48406649--48407400 Score: 1188
Period size: 143 Copynumber: 5.3 Consensus size: 143
48406639 TAGATCGAAG
* * *
48406649 ATGGCGAATATTTTTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
48406714 AAGTTGTAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACATATT
66 AAGTTGTAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACATATT
48406779 AAAGCTACAAATT
131 AAAGCTACAAATT
48406792 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
48406857 AAGTTGTAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACATATT
66 AAGTTGTAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACATATT
48406922 AAAGCTACAAATT
131 AAAGCTACAAATT
48406935 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
48407000 AAGTTGTAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACATATT
66 AAGTTGTAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACATATT
48407065 AAAGCTACAAATT
131 AAAGCTACAAATT
* *
48407078 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
* * ** ** * * **
48407143 AAGTTGCAGCGGAGTAGCCTGAAGACAGTGAATCTTATTTCCCTGATGTTGCAGTGGAATAGGTT
66 AAGTTGTAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACATATT
*
48407208 AAAGCTACAAGTT
131 AAAGCTACAAATT
* * * *
48407221 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCAACCAGCCTTATCTCCCTG
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
* * * * * * *
48407286 AAGTTGTAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATT
66 AAGTTGTAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACATATT
48407351 AAAGCTA-AAAGTT
131 AAAGCTACAAA-TT
* * *
48407364 A---CGAGTCTTATCTCCCTGAAGTTGTAGTAGGAGCAGA
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGT-GGAGCAGA
48407401 CTAAAGATAG
Statistics
Matches: 573, Mismatches: 34, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
140 24 0.04
141 7 0.01
142 2 0.00
143 540 0.94
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (143 bp):
ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
AAGTTGTAGCGGAGCAAACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACATATT
AAAGCTACAAATT
Found at i:48407335 original size:45 final size:45
Alignment explanation
Indices: 48407224--48407636 Score: 269
Period size: 45 Copynumber: 8.9 Consensus size: 45
48407214 ACAAGTTATG
* *
48407224 GCGAATCTTATCTT-CCTGAAGTTGCAGTGAAGCAGATTGAAGCA-A
1 GCGAATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATA
* ** * * *
48407269 -CCAGCCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTGAAGATA
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * *
48407313 GCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAAAA
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAG---ATA
* * * *
48407361 GTTACGAGTCTTATCTCCCTGAAGTTGTAGTAGGAGCAGACTAAAGATA
1 G---CGAATCTTATTTCCCTGAAGTTGCAGT-GGAGCAGACTGAAGATA
* * * * * * **
48407410 GCGAATCTTATTTCTCTAAAGTTACAGTGAAGTAGA-AGAAGCCA
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
* ** * * * * *
48407454 -CCAGCCTTATCTCTCTAAAGTTGCAGCGGAGTAGACTGAAGATA
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * *
48407498 GTGAATCTCATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTAAAAGTT
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-----A-TA
* *
48407549 GCGAGTCTTATCTCCCTGAAGTTGCAGTAGGAGCAGACTGAAGATA
1 GCGAATCTTATTTCCCTGAAGTTGCAGT-GGAGCAGACTGAAGATA
* *
48407595 GCGAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAG
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
48407637 TTACAAGTTA
Statistics
Matches: 279, Mismatches: 70, Indels: 38
0.72 0.18 0.10
Matches are distributed among these distances:
43 30 0.11
44 41 0.15
45 81 0.29
46 47 0.17
47 1 0.00
48 3 0.01
49 3 0.01
50 1 0.00
51 48 0.17
52 24 0.09
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (45 bp):
GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
Found at i:48407484 original size:185 final size:185
Alignment explanation
Indices: 48407224--48407636 Score: 630
Period size: 185 Copynumber: 2.2 Consensus size: 185
48407214 ACAAGTTATG
* * *
48407224 GCGAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCAACCAGCCTTATCTCCCTGAAG
1 GCGAATCTTAT-TTCCTGAAGTTACAGTGAAGCAGATAGAAGCAACCAGCCTTATCTCCCTAAAG
*
48407289 TTGTAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAA
65 TTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAA
*
48407354 GCTAAAAGTTACGAGTCTTATCTCCCTGAAGTTGTAGTAGGAGCAGACTAAAGATA
130 GCTAAAAGTTACGAGTCTTATCTCCCTGAAGTTGCAGTAGGAGCAGACTAAAGATA
* * * *
48407410 GCGAATCTTATTTCTCTAAAGTTACAGTGAAGTAGA-AGAAGCCACCAGCCTTATCTCTCTAAAG
1 GCGAATCTTATTTC-CTGAAGTTACAGTGAAGCAGATAGAAGCAACCAGCCTTATCTCCCTAAAG
* * * * *
48407474 TTGCAGCGGAGTAGACTGAAGATAGTGAATCTCATTTCCCTGAAGTTGCAGTGGAGTAGATTGAA
65 TTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAA
* *
48407539 GCTAAAAGTTGCGAGTCTTATCTCCCTGAAGTTGCAGTAGGAGCAGACTGAAGATA
130 GCTAAAAGTTACGAGTCTTATCTCCCTGAAGTTGCAGTAGGAGCAGACTAAAGATA
* *
48407595 GCGAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAG
1 GCGAATCTTATTT-CCTGAAGTTACAGTGAAGCAGATAGAAG
48407637 TTACAAGTTA
Statistics
Matches: 204, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
185 170 0.83
186 34 0.17
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (185 bp):
GCGAATCTTATTTCCTGAAGTTACAGTGAAGCAGATAGAAGCAACCAGCCTTATCTCCCTAAAGT
TGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAAG
CTAAAAGTTACGAGTCTTATCTCCCTGAAGTTGCAGTAGGAGCAGACTAAAGATA
Found at i:48407520 original size:88 final size:92
Alignment explanation
Indices: 48407224--48407623 Score: 377
Period size: 97 Copynumber: 4.3 Consensus size: 92
48407214 ACAAGTTATG
* * *
48407224 GCGAATCTTATCTT-CCTGAAGTTGCAGTGAAGCAGATTGAAGC-AA-CCAGCCTTATCTCCCTG
1 GCGAATCTTAT-TTCCCTGAAGTTACAGTGAAGTAGATAGAAGCAAAGCCAGCCTTATCTCCCTG
* *
48407286 AAGTTGTAG-CGGAGCAGACTGAAGATA
65 AAGTTGCAGTAGGAGCAGACTGAAGATA
* * * * * * *
48407313 GCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTA-AAGCTAAAAGTTACGAGTCTTATCT
1 GCGAATCTTATTTCCCTGAAGTTACAGTGAAGTAGA-TAGAAGC--AAAG---CCAGCCTTATCT
* *
48407377 CCCTGAAGTTGTAGTAGGAGCAGACTAAAGATA
60 CCCTGAAGTTGCAGTAGGAGCAGACTGAAGATA
* * * * *
48407410 GCGAATCTTATTTCTCTAAAGTTACAGTGAAGTAGA-AGAAGC-CA-CCAGCCTTATCTCTCTAA
1 GCGAATCTTATTTCCCTGAAGTTACAGTGAAGTAGATAGAAGCAAAGCCAGCCTTATCTCCCTGA
* *
48407472 AGTTGCAG-CGGAGTAGACTGAAGATA
66 AGTTGCAGTAGGAGCAGACTGAAGATA
* * * * * * *
48407498 GTGAATCTCATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTAAAAGTTGCGAGTCTTATCTC
1 GCGAATCTTATTTCCCTGAAGTTACAGTGAAGTAGATAGAAGC--AAA---GCCAGCCTTATCTC
48407563 CCTGAAGTTGCAGTAGGAGCAGACTGAAGATA
61 CCTGAAGTTGCAGTAGGAGCAGACTGAAGATA
48407595 GCGAATCTTATTTCCCTGAAGTTACAGTG
1 GCGAATCTTATTTCCCTGAAGTTACAGTG
48407624 GAGCAGATTG
Statistics
Matches: 250, Mismatches: 41, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
88 47 0.19
89 60 0.24
90 1 0.00
92 3 0.01
93 1 0.00
95 1 0.00
96 50 0.20
97 87 0.35
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (92 bp):
GCGAATCTTATTTCCCTGAAGTTACAGTGAAGTAGATAGAAGCAAAGCCAGCCTTATCTCCCTGA
AGTTGCAGTAGGAGCAGACTGAAGATA
Found at i:48407673 original size:97 final size:97
Alignment explanation
Indices: 48407459--48407674 Score: 292
Period size: 97 Copynumber: 2.2 Consensus size: 97
48407449 AGCCACCAGC
* * * *
48407459 CTTATCTCTCTAAAGTTGCAG-CGGAGTAGACTGAAGATAGTGAATCTCATTTCCCTGAAGTTGC
1 CTTATCTCTCTAAAGTTGCAGTAGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTAC
* *
48407523 AGTGGAGTAGATTGAAGCTAAAAGTTGCGAGT
66 AGTGGAGCAGATTGAAGCTAAAAGTTACGAGT
* * *
48407555 CTTATCTCCCTGAAGTTGCAGTAGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTAC
1 CTTATCTCTCTAAAGTTGCAGTAGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTAC
* *
48407620 AGTGGAGCAGATTGAAGTTACAAGTTACG-GAT
66 AGTGGAGCAGATTGAAGCTAAAAGTTACGAG-T
* *
48407652 CTTATATCTCTAAAGTAGCAGTA
1 CTTATCTCTCTAAAGTTGCAGTA
48407675 AAGCAGGTCA
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
96 20 0.19
97 83 0.81
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (97 bp):
CTTATCTCTCTAAAGTTGCAGTAGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTAC
AGTGGAGCAGATTGAAGCTAAAAGTTACGAGT
Found at i:48410573 original size:14 final size:14
Alignment explanation
Indices: 48410554--48410592 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
48410544 CCAGAAAAGT
48410554 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
48410568 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
48410582 AAGTCATTTTC
1 AAATCATTTTC
48410593 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:48413652 original size:27 final size:26
Alignment explanation
Indices: 48413610--48413707 Score: 94
Period size: 25 Copynumber: 3.8 Consensus size: 26
48413600 TAGTACACAC
*
48413610 GAGCACATA-AACGGGAAGCTCTCTCT
1 GAGC-CATATAACGGGAAGCTCTATCT
* * *
48413636 CAAGCCATATAACGGGAAGCTC-GTGT
1 -GAGCCATATAACGGGAAGCTCTATCT
*
48413662 GAGCCATGTAACGGGAAGCT-TATCT
1 GAGCCATATAACGGGAAGCTCTATCT
**
48413687 GAGCTGTATAACGGGAAGCTC
1 GAGCCATATAACGGGAAGCTC
48413708 ATAAGAAACA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
25 37 0.64
26 6 0.10
27 15 0.26
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (26 bp):
GAGCCATATAACGGGAAGCTCTATCT
Found at i:48415257 original size:4 final size:4
Alignment explanation
Indices: 48415232--48415277 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
48415222 ATACAAAAAG
* * * *
48415232 AATA AATG AATC AATG AATA AATA AATA CATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
48415278 AACTTTCATG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:48420153 original size:14 final size:14
Alignment explanation
Indices: 48420134--48420169 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
48420124 CCCTTCCCCT
*
48420134 TTTCCCCCAATTCA
1 TTTCCCCCAAATCA
48420148 TTTCCCCCAAATCA
1 TTTCCCCCAAATCA
*
48420162 ATTCCCCC
1 TTTCCCCC
48420170 TCCCCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.47, G:0.00, T:0.31
Consensus pattern (14 bp):
TTTCCCCCAAATCA
Found at i:48420387 original size:25 final size:25
Alignment explanation
Indices: 48420359--48420427 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
48420349 AGTTGCATCG
48420359 CCGTTAGCAACCCTCTGCTACACCT
1 CCGTTAGCAACCCTCTGCTACACCT
48420384 CCGTTAGCAACCCTCTGCTACACCT
1 CCGTTAGCAACCCTCTGCTACACCT
**
48420409 CCGTTAGCAGTCCTCTGCT
1 CCGTTAGCAACCCTCTGCT
48420428 GCTTTGCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.17, C:0.42, G:0.14, T:0.26
Consensus pattern (25 bp):
CCGTTAGCAACCCTCTGCTACACCT
Found at i:48422248 original size:26 final size:26
Alignment explanation
Indices: 48422206--48422304 Score: 91
Period size: 26 Copynumber: 3.9 Consensus size: 26
48422196 ACACACCACA
* *
48422206 GCTCTT-ATGAACGTCCCGATATAAG
1 GCTCTTCATGAGCTTCCCGATATAAG
48422231 GCTCTTCATGAGCTTCCCGAT-TAAAG
1 GCTCTTCATGAGCTTCCCGATAT-AAG
** * *
48422257 GCTCTTTGTGAGCTTCCTGATATTA-
1 GCTCTTCATGAGCTTCCCGATATAAG
48422282 GCTC-TC-TAGAGCTTCCCGATATA
1 GCTCTTCAT-GAGCTTCCCGATATA
48422305 GCTTGCTTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 14 0.23
25 11 0.18
26 34 0.56
27 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.33
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGATATAAG
Found at i:48422822 original size:15 final size:15
Alignment explanation
Indices: 48422802--48422831 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48422792 AATGTAAATG
48422802 AATGGTAAGTTTATT
1 AATGGTAAGTTTATT
48422817 AATGGTAAGTTTATT
1 AATGGTAAGTTTATT
48422832 TCCTGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (15 bp):
AATGGTAAGTTTATT
Found at i:48424765 original size:21 final size:21
Alignment explanation
Indices: 48424741--48424782 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
48424731 AAGTTAATTC
48424741 ACTC-ATAATTTTTCTATTTAT
1 ACTCTATAATTTTTC-ATTTAT
* *
48424762 ACTCTTTTATTTTTCATTTAT
1 ACTCTATAATTTTTCATTTAT
48424783 TTTATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (21 bp):
ACTCTATAATTTTTCATTTAT
Found at i:48425507 original size:55 final size:58
Alignment explanation
Indices: 48425392--48425508 Score: 177
Period size: 55 Copynumber: 2.1 Consensus size: 58
48425382 ATGGAATGAA
**
48425392 GTAAACAATTTGTATTACTCTTCTTCTTCCAATGTATATACATTAAACTTCCTAGAGTT
1 GTAAACAATTTGTATTAC-CTTCTTCTTCCAACCTATATACATTAAACTTCCTAGAGTT
*
48425451 GTAAACAATTTGTATTA-C-TCTTCTTCC-ACCTATATACATTAAACTTTCTAGAGTT
1 GTAAACAATTTGTATTACCTTCTTCTTCCAACCTATATACATTAAACTTCCTAGAGTT
48425506 GTA
1 GTA
48425509 CATATATAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
55 28 0.51
56 9 0.16
57 1 0.02
59 17 0.31
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.42
Consensus pattern (58 bp):
GTAAACAATTTGTATTACCTTCTTCTTCCAACCTATATACATTAAACTTCCTAGAGTT
Found at i:48427108 original size:41 final size:41
Alignment explanation
Indices: 48427061--48427173 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 41
48427051 CATAGGATTT
48427061 TCGATATGTATTCATGTAAGACCATGTCTAGGACATTAG-CA
1 TCGATATGTATTCATGTAAGACCATGTCTAGGACA-TAGACA
* * * * *
48427102 TTGATATGCAATTACGTGTAAGACCATGTCTGGGACATCGACA
1 TCGATATG-TATT-CATGTAAGACCATGTCTAGGACATAGACA
* *
48427145 TCG-TATTTAATTCATGTAAGACCCTGTCT
1 TCGATATGT-ATTCATGTAAGACCATGTCT
48427174 GTGACAGTGG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
41 22 0.38
42 11 0.19
43 25 0.43
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
TCGATATGTATTCATGTAAGACCATGTCTAGGACATAGACA
Found at i:48430560 original size:25 final size:24
Alignment explanation
Indices: 48430505--48430591 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 24
48430495 GTAGCTCCGA
48430505 AGAGCCAT-TAATCGGGAAGCTTCAG
1 AGAGCCATAT-ATCGGGAAG-TTCAG
* *
48430530 ATAGCCATATATCGGGAAGTTTAAG
1 AGAGCCATATATCGGGAAG-TTCAG
* *
48430555 AGAGCCA-ATATCGAGAAGTTCCG
1 AGAGCCATATATCGGGAAGTTCAG
48430578 AAGAGCCATATATC
1 -AGAGCCATATATC
48430592 AGAACGTTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
23 3 0.06
24 17 0.33
25 31 0.60
26 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (24 bp):
AGAGCCATATATCGGGAAGTTCAG
Found at i:48430606 original size:25 final size:24
Alignment explanation
Indices: 48430503--48430608 Score: 74
Period size: 25 Copynumber: 4.3 Consensus size: 24
48430493 ATGTAGCTCC
* *
48430503 GAAGAGCCATTAATCGGGAAGCTTCA
1 GAAGAGCCAAT-ATCGAGAAG-TTCA
* * *
48430529 G-ATAGCCATATATCGGGAAGTTTA
1 GAAGAGCCA-ATATCGAGAAGTTCA
*
48430553 -AGAGAGCCAATATCGAGAAGTTCC
1 GA-AGAGCCAATATCGAGAAGTTCA
48430577 GAAGAGCCATATATC-AGAACGTTCA
1 GAAGAGCCA-ATATCGAGAA-GTTCA
*
48430602 TAAGAGC
1 GAAGAGC
48430609 TGCGGTGTGT
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
24 26 0.40
25 37 0.57
26 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (24 bp):
GAAGAGCCAATATCGAGAAGTTCA
Found at i:48436777 original size:20 final size:20
Alignment explanation
Indices: 48436752--48436807 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
48436742 ATTTTAAATG
48436752 ATTTTTAGAATTAAATTTTT
1 ATTTTTAGAATTAAATTTTT
48436772 ATTTTT---A--AAATTTTT
1 ATTTTTAGAATTAAATTTTT
* *
48436787 AATTTTAGAGTTAAATTTTT
1 ATTTTTAGAATTAAATTTTT
48436807 A
1 A
48436808 AATAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 13 0.45
17 1 0.03
20 15 0.52
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTTAGAATTAAATTTTT
Found at i:48436782 original size:15 final size:15
Alignment explanation
Indices: 48436730--48436793 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 15
48436720 TTTTAAAATA
*
48436730 TTTAAAA-TTTCAAT
1 TTTAAAATTTTTAAT
48436744 TTTAAATGATTTTTAGA-
1 TTTAAA--ATTTTTA-AT
* *
48436761 ATT-AAATTTTTATT
1 TTTAAAATTTTTAAT
48436775 TTTAAAATTTTTAAT
1 TTTAAAATTTTTAAT
48436790 TTTA
1 TTTA
48436794 GAGTTAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 15 0.38
15 14 0.36
16 3 0.08
17 6 0.15
18 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTAAAATTTTTAAT
Found at i:48439231 original size:19 final size:19
Alignment explanation
Indices: 48439190--48439230 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
48439180 AAACTTTCTA
* *
48439190 TTTTGTTGACATGTTGTTG
1 TTTTGTTGACATCTCGTTG
48439209 TTTTGTTGACATCTCGTT-
1 TTTTGTTGACATCTCGTTG
48439227 TTTT
1 TTTT
48439231 TTTTGTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.61
Consensus pattern (19 bp):
TTTTGTTGACATCTCGTTG
Found at i:48442821 original size:25 final size:26
Alignment explanation
Indices: 48442776--48442825 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
48442766 GGTTGATCTT
*
48442776 GATTTTTTCTTATTTGTTTTCTATTC
1 GATTTTTTCTTATTTGCTTTCTATTC
48442802 GATTTTTT-TTAGTTT-CTTTCTATT
1 GATTTTTTCTTA-TTTGCTTTCTATT
48442826 TTTTACTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.12, C:0.10, G:0.08, T:0.70
Consensus pattern (26 bp):
GATTTTTTCTTATTTGCTTTCTATTC
Found at i:48444110 original size:27 final size:27
Alignment explanation
Indices: 48444063--48444116 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
48444053 TTTATGTACA
* *
48444063 TATATGTATATTATTTGTTCTAAAATT
1 TATATATATATCATTTGTTCTAAAATT
*
48444090 TATATATATATCATCTT-TTCTTAAATT
1 TATATATATATCAT-TTGTTCTAAAATT
48444117 GTTTTATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
TATATATATATCATTTGTTCTAAAATT
Found at i:48447893 original size:41 final size:41
Alignment explanation
Indices: 48447797--48447893 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
48447787 TGTTTTGACA
*
48447797 AAAACGCCGCTAAA-AACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAGAACAGAGCATTAGCGCCGCTTTTGGT
* * *
48447837 GAAACGCCGCGAAAGACCAGAGCATTAGCGCCGCTTTTGGT
1 AAAACGCCGCTAAAGAACAGAGCATTAGCGCCGCTTTTGGT
48447878 AAAACGCCGCTAAAGA
1 AAAACGCCGCTAAAGA
48447894 TACCAACTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 12 0.24
41 38 0.76
ACGTcount: A:0.33, C:0.25, G:0.26, T:0.16
Consensus pattern (41 bp):
AAAACGCCGCTAAAGAACAGAGCATTAGCGCCGCTTTTGGT
Found at i:48448011 original size:7 final size:7
Alignment explanation
Indices: 48448001--48448043 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
48447991 AGATTTATGT
48448001 GTTAGGG
1 GTTAGGG
48448008 GTTAGGG
1 GTTAGGG
*
48448015 GTTAAGG
1 GTTAGGG
*
48448022 GTAAGGG
1 GTTAGGG
48448029 GTTCAGGG
1 GTT-AGGG
*
48448037 TTTAGGG
1 GTTAGGG
48448044 TTTATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.19, C:0.02, G:0.51, T:0.28
Consensus pattern (7 bp):
GTTAGGG
Found at i:48448023 original size:14 final size:14
Alignment explanation
Indices: 48447974--48448043 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
48447964 TAAAGGTAGT
48447974 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
** * *
48447987 TTTAAGATTTATGTG
1 -TTAAGGGTTAGGGG
*
48448002 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
48448016 TTAAGGGTAAGGGG
1 TTAAGGGTTAGGGG
*
48448030 TTCAGGGTTTAGGG
1 TTAAGGG-TTAGGG
48448044 TTTATATTTT
Statistics
Matches: 41, Mismatches: 13, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
14 34 0.83
15 7 0.17
ACGTcount: A:0.20, C:0.01, G:0.44, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:48448030 original size:21 final size:21
Alignment explanation
Indices: 48448004--48448044 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48447994 TTTATGTGTT
48448004 AGGGGTT-AGGGGTTAAGGGTA
1 AGGGGTTCA-GGGTTAAGGGTA
*
48448025 AGGGGTTCAGGGTTTAGGGT
1 AGGGGTTCAGGGTTAAGGGT
48448045 TTATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (21 bp):
AGGGGTTCAGGGTTAAGGGTA
Found at i:48448054 original size:14 final size:14
Alignment explanation
Indices: 48448036--48448071 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48448026 GGGGTTCAGG
48448036 GTTTAGGGTTTATAT
1 GTTTAGGGTTTA-AT
48448051 -TTTAGGGTTTAAT
1 GTTTAGGGTTTAAT
48448064 GTTTAGGG
1 GTTTAGGG
48448072 ATTAGGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (14 bp):
GTTTAGGGTTTAAT
Found at i:48448727 original size:16 final size:16
Alignment explanation
Indices: 48448706--48448749 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
48448696 AAAAATCTTC
48448706 ATAAAAAATTTAAAAA
1 ATAAAAAATTTAAAAA
48448722 ATAAAAAA--TAAAAA
1 ATAAAAAATTTAAAAA
*
48448736 ACTTAAAAATTTAA
1 A-TAAAAAATTTAA
48448750 TATTTTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 7 0.29
15 6 0.25
16 8 0.33
17 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
ATAAAAAATTTAAAAA
Found at i:48454790 original size:14 final size:15
Alignment explanation
Indices: 48454748--48454782 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
48454738 GTGTTATTAA
* *
48454748 TTTATTATTTTAAAT
1 TTTAATATTTAAAAT
48454763 TTTAATATTTAAAAT
1 TTTAATATTTAAAAT
48454778 TTTAA
1 TTTAA
48454783 CTTTAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAATATTTAAAAT
Found at i:48454921 original size:12 final size:11
Alignment explanation
Indices: 48454889--48454922 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
48454879 TTTAATTTGA
48454889 TAAT-GAATTT
1 TAATAGAATTT
48454899 TAATAGAATTT
1 TAATAGAATTT
48454910 TAATAGGAATTT
1 TAATA-GAATTT
48454922 T
1 T
48454923 TTATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 11 0.50
12 7 0.32
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (11 bp):
TAATAGAATTT
Found at i:48455001 original size:27 final size:27
Alignment explanation
Indices: 48454966--48455018 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
48454956 TATTTTGATA
48454966 ATGAATTTTA-AACT-TTTTATATTTTTC
1 ATGAATTTTATAA-TATTTTAT-TTTTTC
*
48454993 ATGACTTTTATAATATTTTATTTTTT
1 ATGAATTTTATAATATTTTATTTTTT
48455019 AAAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (27 bp):
ATGAATTTTATAATATTTTATTTTTTC
Found at i:48455097 original size:43 final size:43
Alignment explanation
Indices: 48455032--48455163 Score: 176
Period size: 43 Copynumber: 3.1 Consensus size: 43
48455022 AATTTATGAC
* ** * *
48455032 CTTTAGCGGCGTTTGTGGGAAAAGCGCAGCGAAAAGTCCTGGT
1 CTTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAAGTCCTGGT
* *
48455075 CTTTAGTGGCGTTTTTTAGAAAAGCGCCGCTAAAAGCCCTGGT
1 CTTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAAGTCCTGGT
* *
48455118 TTTTAACGGCGTTTTTTA-AAAAGCGCCGCTAAAAGTCCTGGT
1 CTTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAAGTCCTGGT
48455160 CTTT
1 CTTT
48455164 TGCGTCTTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 26 0.34
43 51 0.66
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAAGTCCTGGT
Found at i:48457639 original size:29 final size:29
Alignment explanation
Indices: 48457573--48457641 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
48457563 TGAGGATTGG
* *
48457573 AATATTTTAATATTTGTAAATCTTGATCTT
1 AATATTTTAA-ATTTGTAAATATTGATATT
*
48457603 AGTA-TTTATAATTTGT-AATATTGATATT
1 AATATTTTA-AATTTGTAAATATTGATATT
48457631 AATATTTTAAA
1 AATATTTTAAA
48457642 ATTTAGACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 15 0.45
29 14 0.42
30 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (29 bp):
AATATTTTAAATTTGTAAATATTGATATT
Found at i:48457644 original size:29 final size:30
Alignment explanation
Indices: 48457573--48457645 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
48457563 TGAGGATTGG
* * *
48457573 AATATTTTAATATTTGTAAATCTTGATCTT
1 AATATTTTAAAATTTGTAAATATTGATATT
* *
48457603 AGTA-TTTATAATTTGT-AATATTGATATT
1 AATATTTTAAAATTTGTAAATATTGATATT
48457631 AATATTTTAAAATTT
1 AATATTTTAAAATTT
48457646 AGACTAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 13 0.37
29 19 0.54
30 3 0.09
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (30 bp):
AATATTTTAAAATTTGTAAATATTGATATT
Found at i:48458221 original size:8 final size:8
Alignment explanation
Indices: 48458208--48458268 Score: 50
Period size: 9 Copynumber: 6.9 Consensus size: 8
48458198 GATTTTTGTG
48458208 AAATTTTT
1 AAATTTTT
48458216 AAATTTTTT
1 AAA-TTTTT
*
48458225 ATTATTTTT
1 A-AATTTTT
*
48458234 AAAATTTTA
1 -AAATTTTT
48458243 AAATTTTT
1 AAATTTTT
48458251 AAATGTTTCAT
1 AAAT-TTT--T
48458262 AAATTTT
1 AAATTTT
48458269 AGATGATATC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 14 0.33
9 19 0.44
10 5 0.12
11 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (8 bp):
AAATTTTT
Found at i:48458241 original size:17 final size:18
Alignment explanation
Indices: 48458208--48458268 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 18
48458198 GATTTTTGTG
*
48458208 AAATTTTTAAATTTTTTA
1 AAATTTTTAAATATTTTA
**
48458226 TTATTTTTAAA-ATTTTA
1 AAATTTTTAAATATTTTA
* *
48458243 AAATTTTTAAATGTTTCA
1 AAATTTTTAAATATTTTA
48458261 TAAATTTT
1 -AAATTTT
48458269 AGATGATATC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 14 0.41
18 13 0.38
19 7 0.21
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
AAATTTTTAAATATTTTA
Found at i:48463375 original size:25 final size:26
Alignment explanation
Indices: 48463347--48463395 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
48463337 TATTTGGTTA
48463347 AAATTTACTATTAT-TTGT-AAATTAT
1 AAATTTACT-TTATGTTGTCAAATTAT
*
48463372 AAATTTAGTTTATGTTGTCAAATT
1 AAATTTACTTTATGTTGTCAAATT
48463396 TGATCAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 12 0.57
26 5 0.24
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (26 bp):
AAATTTACTTTATGTTGTCAAATTAT
Found at i:48464105 original size:3 final size:3
Alignment explanation
Indices: 48464097--48464142 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
48464087 GGCTCATCAC
48464097 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
48464143 TGCCATCTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:48480074 original size:25 final size:26
Alignment explanation
Indices: 48480031--48480085 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
48480021 GTTTTCTTTT
* * *
48480031 TTTTTTCTTTTCATTTTTAGATTAGA
1 TTTTCTCTTTTCACTTTTAGATTAAA
*
48480057 TTTTCTCTTTTC-CTTTTAGGTTAAA
1 TTTTCTCTTTTCACTTTTAGATTAAA
48480082 TTTT
1 TTTT
48480086 ATTTTTGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.16, C:0.11, G:0.07, T:0.65
Consensus pattern (26 bp):
TTTTCTCTTTTCACTTTTAGATTAAA
Found at i:48480714 original size:46 final size:47
Alignment explanation
Indices: 48480646--48480742 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 47
48480636 TTGTCCAAAG
* * *
48480646 CAATAAGGAAGAAAGTTGGATTAGTTAGTTTAATTTTAGTTTAT-AA
1 CAATAAGGAAGAAAGCTAGATTAGTTAGTTTAAATTTAGTTTATAAA
48480692 CAATAAGGAAGAAAGCTAGATTAGTTAGTTTAAATTTAGTTTATAAA
1 CAATAAGGAAGAAAGCTAGATTAGTTAGTTTAAATTTAGTTTATAAA
48480739 CAAT
1 CAAT
48480743 TCATTTTGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 41 0.87
47 6 0.13
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (47 bp):
CAATAAGGAAGAAAGCTAGATTAGTTAGTTTAAATTTAGTTTATAAA
Found at i:48482290 original size:23 final size:23
Alignment explanation
Indices: 48482264--48482361 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
48482254 ATAAGTGCCA
48482264 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48482287 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
48482310 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
48482332 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48482355 CACTGAT
1 CACTGAT
48482362 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:48482329 original size:45 final size:45
Alignment explanation
Indices: 48482271--48482359 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
48482261 CCACACTGAT
* *
48482271 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
48482316 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
48482360 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:48489005 original size:13 final size:13
Alignment explanation
Indices: 48488987--48489012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48488977 ACCCATATGG
48488987 TAGACACACGGCC
1 TAGACACACGGCC
48489000 TAGACACACGGCC
1 TAGACACACGGCC
48489013 GTGTGTCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (13 bp):
TAGACACACGGCC
Found at i:48497802 original size:20 final size:20
Alignment explanation
Indices: 48497777--48497817 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
48497767 TTAGTTGAAG
48497777 TACTTGAATGATTGTTTCTT
1 TACTTGAATGATTGTTTCTT
48497797 TACTTGAATGATTGTTTCTT
1 TACTTGAATGATTGTTTCTT
48497817 T
1 T
48497818 CCTTATAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.56
Consensus pattern (20 bp):
TACTTGAATGATTGTTTCTT
Found at i:48503662 original size:171 final size:171
Alignment explanation
Indices: 48503377--48503720 Score: 679
Period size: 171 Copynumber: 2.0 Consensus size: 171
48503367 AAATTTGACT
*
48503377 AACATAAGAGTCATACTTAACAAATCTCCACCTTGACTCATATTTTCACAACGCCATCTTTGCCA
1 AACATAAGAGTCATACTTAACAAATCTCCACCTTGACTCATATTTTCACAACGCCATCTTGGCCA
48503442 AAGCCCACCACGGGCCTATCTTGAACTATGTAGGGAATGAACTGAGTCGAATCTGTACTTAGAAA
66 AAGCCCACCACGGGCCTATCTTGAACTATGTAGGGAATGAACTGAGTCGAATCTGTACTTAGAAA
48503507 CTGGAAGACTTCTAGCCTTCGACTTGTACATTGCCAAATCA
131 CTGGAAGACTTCTAGCCTTCGACTTGTACATTGCCAAATCA
48503548 AACATAAGAGTCATACTTAACAAATCTCCACCTTGACTCATATTTTCACAACGCCATCTTGGCCA
1 AACATAAGAGTCATACTTAACAAATCTCCACCTTGACTCATATTTTCACAACGCCATCTTGGCCA
48503613 AAGCCCACCACGGGCCTATCTTGAACTATGTAGGGAATGAACTGAGTCGAATCTGTACTTAGAAA
66 AAGCCCACCACGGGCCTATCTTGAACTATGTAGGGAATGAACTGAGTCGAATCTGTACTTAGAAA
48503678 CTGGAAGACTTCTAGCCTTCGACTTGTACATTGCCAAATCA
131 CTGGAAGACTTCTAGCCTTCGACTTGTACATTGCCAAATCA
48503719 AA
1 AA
48503721 ACTAACCCGG
Statistics
Matches: 172, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 172 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (171 bp):
AACATAAGAGTCATACTTAACAAATCTCCACCTTGACTCATATTTTCACAACGCCATCTTGGCCA
AAGCCCACCACGGGCCTATCTTGAACTATGTAGGGAATGAACTGAGTCGAATCTGTACTTAGAAA
CTGGAAGACTTCTAGCCTTCGACTTGTACATTGCCAAATCA
Found at i:48505235 original size:9 final size:9
Alignment explanation
Indices: 48505205--48505247 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
48505195 TTTTAAGTAT
48505205 TATATATATG
1 TATAT-TATG
48505215 TATATATATG
1 TATAT-TATG
48505225 TACT-TTATG
1 TA-TATTATG
48505234 TATATTATG
1 TATATTATG
48505243 TATAT
1 TATAT
48505248 ATTTTTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 1 0.03
9 16 0.52
10 13 0.42
11 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (9 bp):
TATATTATG
Found at i:48514681 original size:31 final size:31
Alignment explanation
Indices: 48514636--48514702 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
48514626 TAATAAAGAT
*
48514636 AAAATTATATTTTAACCTTTTTAAAAATAATA
1 AAAATTATAATTTAA-CTTTTTAAAAATAATA
* *
48514668 AAAATT-TAATTTAATTTTTTAAAAATTATA
1 AAAATTATAATTTAACTTTTTAAAAATAATA
48514698 AAAAT
1 AAAAT
48514703 ATAGACTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 19 0.59
31 7 0.22
32 6 0.19
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
AAAATTATAATTTAACTTTTTAAAAATAATA
Found at i:48520573 original size:18 final size:17
Alignment explanation
Indices: 48520550--48520583 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48520540 TTCATAAGCA
*
48520550 TATATCATTCATTTCATT
1 TATATCAAT-ATTTCATT
48520568 TATATCAATATTTCAT
1 TATATCAATATTTCAT
48520584 GCTCCGTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATCAATATTTCATT
Found at i:48520864 original size:46 final size:46
Alignment explanation
Indices: 48520804--48520985 Score: 233
Period size: 46 Copynumber: 4.0 Consensus size: 46
48520794 TTTGACATGA
* * * * * * *
48520804 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
48520850 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
48520896 TGTCATGGTATCTTTTAACCACT-GTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCA-TGGTCTTACACATTTCATATCAGGC
* *
48520942 TGCCATGGTATCTTTCAACCATTGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
48520986 AGAGCACACT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
45 5 0.04
46 115 0.95
47 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:48526810 original size:23 final size:22
Alignment explanation
Indices: 48526776--48526833 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 22
48526766 ATATTTTTTG
*
48526776 TTATAACTTAATATTTATTAG-TT
1 TTATAA-TTAATATTT-TTAGAAT
48526799 TTATAATGTAAT-TTTTTAGAAT
1 TTATAAT-TAATATTTTTAGAAT
48526821 TTATAATATAATA
1 TTATAAT-TAATA
48526834 AATCTTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 4 0.13
22 16 0.53
23 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
TTATAATTAATATTTTTAGAAT
Found at i:48527615 original size:46 final size:46
Alignment explanation
Indices: 48527520--48527618 Score: 126
Period size: 46 Copynumber: 2.2 Consensus size: 46
48527510 CTTTATTGTG
* ** *
48527520 AAAATATTGTAAATTGTATTGTAAAAATAATGCGAACAGTGTTGCA
1 AAAATATTGTAAATTGCATTGTAAAAATAATGCGAACAGTACTGAA
* * * *
48527566 AAAATATTGTAGATTGCATTGTAAAAATACTGCTAACTGTACTGAA
1 AAAATATTGTAAATTGCATTGTAAAAATAATGCGAACAGTACTGAA
48527612 AAAATAT
1 AAAATAT
48527619 GTCAATTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.32
Consensus pattern (46 bp):
AAAATATTGTAAATTGCATTGTAAAAATAATGCGAACAGTACTGAA
Found at i:48527803 original size:54 final size:54
Alignment explanation
Indices: 48527647--48528143 Score: 419
Period size: 54 Copynumber: 9.3 Consensus size: 54
48527637 GCATGAGAAA
* * * *
48527647 GTTGCGATCTTAAATCGGC-GACTGA-AAGATTCTAGAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCGACAAACT-ACAAGATTCGAAAAATCTTGTAAGTATAAG
* * * * * ** *
48527700 GCTGGGATCTTAATTTGACAAGCCGCAAGATTC-AAAAATCTTGAAAGTATAAG
1 GTTGCGATCTTAAATCGACAAACTACAAGATTCGAAAAATCTTGTAAGTATAAG
* * * * * * *
48527753 GATGTGATCCTAAATCGACAAATTAAAATATTCGTAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCGACAAACTACAAGATTCGAAAAATCTTGTAAGTATAAG
** * * * *
48527807 GTTAAGATCTTAAATCGGCGAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCGACAAACTACAAGATTCGAAAAATCTTGTAAGTATAAG
* * * * * * *
48527861 GTTGCGTTCTTAAATTGAAAAACCACAAGATTCAAAAAATCATGTAAATATAAG
1 GTTGCGATCTTAAATCGACAAACTACAAGATTCGAAAAATCTTGTAAGTATAAG
* * * *
48527915 GCTGCGATCTTAAATCGACAAAATGCAAGATTCGAAAAATCCTGTAAGTATAAG
1 GTTGCGATCTTAAATCGACAAACTACAAGATTCGAAAAATCTTGTAAGTATAAG
* * * * * * ** *
48527969 GTTGTGATCTTAATTAGGCGAGCCCCAAGATT-GAAAAATCTTGAAAGTATAAG
1 GTTGCGATCTTAAATCGACAAACTACAAGATTCGAAAAATCTTGTAAGTATAAG
** * ** * *
48528022 ACTGTGATCTTAAATCGACAAACCGCAAGATTTGAAAAATCTTGTAAGTGTAAG
1 GTTGCGATCTTAAATCGACAAACTACAAGATTCGAAAAATCTTGTAAGTATAAG
* ** * * *
48528076 GCTGCGATCTTAAATCGGTGAGAC-ACAAGATTTGGAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATC-GACAAACTACAAGATTCGAAAAATCTTGTAAGTATAAG
48528130 GTTGCGATCTTAAA
1 GTTGCGATCTTAAA
48528144 CTGGTTAAGA
Statistics
Matches: 349, Mismatches: 90, Indels: 9
0.78 0.20 0.02
Matches are distributed among these distances:
53 97 0.28
54 248 0.71
55 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (54 bp):
GTTGCGATCTTAAATCGACAAACTACAAGATTCGAAAAATCTTGTAAGTATAAG
Found at i:48527851 original size:161 final size:161
Alignment explanation
Indices: 48527652--48528143 Score: 540
Period size: 161 Copynumber: 3.1 Consensus size: 161
48527642 AGAAAGTTGC
* * * * *
48527652 GATCTTAAATCGGCGA-CTGAAAGATTCTAGAAATCTTGTAAGTATAAGGCTGGGATCTTAATTT
1 GATCTTAAATCGGCGAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATT
* * * * *
48527716 GACAAGCCGCAAGATTCAAAAATCTTGAAAGTATAAGGATGTGATCCTAAATCGACAAATTAAAA
66 GACAAACCGCAAGATTCAAAAATCTTGAAAGTATAAGGCTGCGATCTTAAATCGACAAAATAAAA
* * *
48527781 TATTCGTAAAATCTTGTAAGTATAAGGTTAA
131 GATTCGAAAAATCCTGTAAGTATAAGGTTAA
* *
48527812 GATCTTAAATCGGCGAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCGTTCTTAAATT
1 GATCTTAAATCGGCGAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATT
* * * **
48527877 GAAAAACCACAAGATTCAAAAAATCATGTAAA-TATAAGGCTGCGATCTTAAATCGACAAAATGC
66 GACAAACCGCAAGATTC-AAAAATCTTG-AAAGTATAAGGCTGCGATCTTAAATCGACAAAATAA
**
48527941 AAGATTCGAAAAATCCTGTAAGTATAAGGTTGT
129 AAGATTCGAAAAATCCTGTAAGTATAAGGTTAA
* * ** * * * *
48527974 GATCTTAATTAGGCGAGCCCCAAGATT-GAAAAATCTTGAAAGTATAAGACTGTGATCTTAAATC
1 GATCTTAAATCGGCGAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATT
* * * *** * * *
48528038 GACAAACCGCAAGATTTGAAAAATCTTGTAAGTGTAAGGCTGCGATCTTAAATCGGTGAGACACA
66 GACAAACCGCAAGA-TTCAAAAATCTTGAAAGTATAAGGCTGCGATCTTAAATCGACAAAATAAA
* * * **
48528103 AGATTTGGAAAATCTTGTAAGTATAAGGTTGC
130 AGATTCGAAAAATCCTGTAAGTATAAGGTTAA
48528135 GATCTTAAA
1 GATCTTAAA
48528144 CTGGTTAAGA
Statistics
Matches: 278, Mismatches: 49, Indels: 9
0.83 0.15 0.03
Matches are distributed among these distances:
160 18 0.06
161 169 0.61
162 88 0.32
163 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (161 bp):
GATCTTAAATCGGCGAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATT
GACAAACCGCAAGATTCAAAAATCTTGAAAGTATAAGGCTGCGATCTTAAATCGACAAAATAAAA
GATTCGAAAAATCCTGTAAGTATAAGGTTAA
Found at i:48533348 original size:8 final size:9
Alignment explanation
Indices: 48533327--48533356 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48533317 TGAACATTTG
48533327 TTTTAATAA
1 TTTTAATAA
48533336 TTTTAAT-A
1 TTTTAATAA
48533344 TTTTAATAA
1 TTTTAATAA
48533353 TTTT
1 TTTT
48533357 TTTATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTAATAA
Found at i:48533458 original size:12 final size:12
Alignment explanation
Indices: 48533430--48533462 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
48533420 AATATTTTAA
*
48533430 TATTTTAATAAT
1 TATTTTTATAAT
48533442 T-TTTTTATAAT
1 TATTTTTATAAT
48533453 TATTTTTATA
1 TATTTTTATA
48533463 TTTTCCCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTTATAAT
Found at i:48535168 original size:28 final size:28
Alignment explanation
Indices: 48535106--48535190 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
48535096 ATTTTAGCCC
*
48535106 TATTATTGTTATTATTATTTAGAT-TAAATA
1 TATT-TTG-TATTATTATTTA-ATACAAATA
48535136 TATTTT-TAATTATTATTTAATACAACATA
1 TATTTTGT-ATTATTATTTAATACAA-ATA
* *
48535165 -ATTTTGTATTATCATTTAATATAAAT
1 TATTTTGTATTATTATTTAATACAAAT
48535191 CTAATATCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
27 5 0.10
28 33 0.69
29 6 0.12
30 4 0.08
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (28 bp):
TATTTTGTATTATTATTTAATACAAATA
Found at i:48540126 original size:24 final size:25
Alignment explanation
Indices: 48540094--48540141 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
48540084 TATTAAAATT
48540094 TATTAATTAT-TTTAAAATTTTAAC
1 TATTAATTATATTTAAAATTTTAAC
* *
48540118 TATTCATTATATTTTAAATTTTAA
1 TATTAATTATATTTAAAATTTTAA
48540142 ATTTAATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTAATTATATTTAAAATTTTAAC
Found at i:48540215 original size:12 final size:12
Alignment explanation
Indices: 48540198--48540243 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
48540188 TTTTCTTACT
48540198 TTAAAATAATTA
1 TTAAAATAATTA
*
48540210 TTAAAATATTCTA
1 TTAAAATAAT-TA
* *
48540223 TAAAAATATTTA
1 TTAAAATAATTA
48540235 TTAAAATAA
1 TTAAAATAA
48540244 AAATATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAAATAATTA
Found at i:48540253 original size:25 final size:24
Alignment explanation
Indices: 48540199--48540254 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
48540189 TTTCTTACTT
***
48540199 TAAAATAATTATTAAAATATTCTA
1 TAAAATAATTATTAAAATAAAATA
*
48540223 TAAAAATATTTATTAAAATAAAAATA
1 T-AAAATAATTATTAAAAT-AAAATA
48540249 TAAAAT
1 TAAAAT
48540255 TATCCTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 21 0.81
26 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAATAATTATTAAAATAAAATA
Found at i:48540426 original size:30 final size:29
Alignment explanation
Indices: 48540365--48540433 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
48540355 TAATAATTAT
*
48540365 TTAAAATTATTTAAAAAATAAAAATACTG
1 TTAAAATTATTTAAAAAATAAAAATAATG
** * *
48540394 TTAAAATATATTTAAAATTTTAAGATAATG
1 TTAAAAT-TATTTAAAAAATAAAAATAATG
48540424 TTAAGAATTA
1 TTAA-AATTA
48540434 ATAAATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 23 0.70
31 3 0.09
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (29 bp):
TTAAAATTATTTAAAAAATAAAAATAATG
Found at i:48540472 original size:10 final size:8
Alignment explanation
Indices: 48540446--48540480 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
48540436 AAATTAAAAC
48540446 TTTTTATT
1 TTTTTATT
48540454 TTTTTATT
1 TTTTTATT
48540462 TTTTTCAATT
1 TTTTT--ATT
48540472 TTTTTATT
1 TTTTTATT
48540480 T
1 T
48540481 GATTAGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTATT
Found at i:48540936 original size:10 final size:10
Alignment explanation
Indices: 48540922--48540952 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
48540912 ATAAAATAAA
48540922 ATAAATTTAT
1 ATAAATTTAT
*
48540932 TTAAATTTAT
1 ATAAATTTAT
48540942 ATAAATTTAT
1 ATAAATTTAT
48540952 A
1 A
48540953 AAAAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATAAATTTAT
Found at i:48541531 original size:8 final size:9
Alignment explanation
Indices: 48541514--48541541 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
48541504 CCATTTCTCG
48541514 TGTTCTTTT
1 TGTTCTTTT
48541523 TGTTCTTTT
1 TGTTCTTTT
48541532 TGTTCTTTT
1 TGTTCTTTT
48541541 T
1 T
48541542 TTATTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.79
Consensus pattern (9 bp):
TGTTCTTTT
Found at i:48542806 original size:21 final size:21
Alignment explanation
Indices: 48542761--48542806 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
48542751 TGTTATATAT
*
48542761 ATTA-TTTATTTTAAGATTGC
1 ATTATTTTATTTTAAGATTAC
48542781 ATTATTTTATTTTTAA-ATTAC
1 ATTATTTTA-TTTTAAGATTAC
*
48542802 TTTAT
1 ATTAT
48542807 GTATTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTATTTTATTTTAAGATTAC
Found at i:48542916 original size:22 final size:22
Alignment explanation
Indices: 48542886--48542942 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
48542876 TTTTTTATGT
* *
48542886 ATTACTTATTTAAAATTGTTTC
1 ATTATTTATTTAAAATGGTTTC
* *
48542908 ATTATTTATTTTAAATGGTTTT
1 ATTATTTATTTAAAATGGTTTC
48542930 ATGTTATTTATTT
1 A--TTATTTATTT
48542943 CGTTCTCTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 19 0.66
24 10 0.34
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTATTTATTTAAAATGGTTTC
Found at i:48545600 original size:58 final size:60
Alignment explanation
Indices: 48545525--48545664 Score: 160
Period size: 58 Copynumber: 2.4 Consensus size: 60
48545515 GTTTGATCCT
* ** *
48545525 AAATCTAAAAAATTCAATAAAATTAGCCCTTAATGTTTACAAAATTTGTCATTTTAGTTC
1 AAATCTAAAAAATTCAATAAAATTAGCCCTCAACATTTACAAAATTTGTCAATTTAGTTC
* * **
48545585 AAAT-TAAAAAA-TCAATAAAATTATCCCTCAACATTTACAAAATTTTTCAATTTAACTC
1 AAATCTAAAAAATTCAATAAAATTAGCCCTCAACATTTACAAAATTTGTCAATTTAGTTC
* *
48545643 TAATTCTAAAAATTTCAA-AAAA
1 -AAATCTAAAAAATTCAATAAAA
48545665 CTTATTTAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
58 39 0.58
59 10 0.15
60 14 0.21
61 4 0.06
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (60 bp):
AAATCTAAAAAATTCAATAAAATTAGCCCTCAACATTTACAAAATTTGTCAATTTAGTTC
Found at i:48547545 original size:16 final size:17
Alignment explanation
Indices: 48547524--48547556 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
48547514 TTTTCAAATC
48547524 AAAATAAT-TAAAAAGT
1 AAAATAATCTAAAAAGT
48547540 AAAATAATCTAAAAAGT
1 AAAATAATCTAAAAAGT
48547557 TGTTAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAATAATCTAAAAAGT
Found at i:48548941 original size:16 final size:16
Alignment explanation
Indices: 48548920--48548950 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48548910 AATTTGGTGT
48548920 ATATTGATACTTGAAA
1 ATATTGATACTTGAAA
48548936 ATATTGATACTTGAA
1 ATATTGATACTTGAA
48548951 CACATTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (16 bp):
ATATTGATACTTGAAA
Found at i:48548957 original size:16 final size:16
Alignment explanation
Indices: 48548922--48548957 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
48548912 TTTGGTGTAT
*
48548922 ATTGATACTTGAAAAT
1 ATTGATACTTGAAAAC
*
48548938 ATTGATACTTGAACAC
1 ATTGATACTTGAAAAC
48548954 ATTG
1 ATTG
48548958 TAATACAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (16 bp):
ATTGATACTTGAAAAC
Found at i:48551050 original size:3 final size:3
Alignment explanation
Indices: 48551042--48551066 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48551032 GAATTAAATA
48551042 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
48551067 CTTGCTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:48555078 original size:9 final size:9
Alignment explanation
Indices: 48555064--48555095 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
48555054 CAACGCTTTT
48555064 TTGCATTCA
1 TTGCATTCA
48555073 TTGCATTCA
1 TTGCATTCA
48555082 TTGCATTCA
1 TTGCATTCA
48555091 -TGCAT
1 TTGCAT
48555096 CGGTATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:48557783 original size:63 final size:63
Alignment explanation
Indices: 48557684--48557809 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
48557674 ATTACCAGGG
*
48557684 GTATTGATCGACAATGGGTCTGCGCTGAATGTCCTACCCCTATCTACGCTGAATAGGTTGCCA
1 GTATTGATCGACAATGGGTCTGCGCTGAATGCCCTACCCCTATCTACGCTGAATAGGTTGCCA
*
48557747 GTATTGATCGACAATGGGTCTGCGCTGAATGCCCTACCCCTATCTACTCTGAATAGGTTGCCA
1 GTATTGATCGACAATGGGTCTGCGCTGAATGCCCTACCCCTATCTACGCTGAATAGGTTGCCA
48557810 ATGGATAGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (63 bp):
GTATTGATCGACAATGGGTCTGCGCTGAATGCCCTACCCCTATCTACGCTGAATAGGTTGCCA
Found at i:48563376 original size:43 final size:44
Alignment explanation
Indices: 48563329--48563411 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
48563319 CACTAGCCTT
* *
48563329 ATCTCCCTGAAGT-GCAGTGGAGCAGACTGAAGTTACAAGTCTC
1 ATCTCCCTGAAATCGCAGTGGAGCAGACTAAAGTTACAAGTCTC
* * *
48563372 ATCTCCTTGAAATCGCAGTGGAGCAGGCTAAATTTACAAG
1 ATCTCCCTGAAATCGCAGTGGAGCAGACTAAAGTTACAAG
48563412 ATCTTAACCC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 11 0.32
44 23 0.68
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
ATCTCCCTGAAATCGCAGTGGAGCAGACTAAAGTTACAAGTCTC
Found at i:48563468 original size:44 final size:44
Alignment explanation
Indices: 48563414--48563917 Score: 329
Period size: 44 Copynumber: 11.5 Consensus size: 44
48563404 TTTACAAGAT
* *
48563414 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGAC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGAC
* * * * ** * *
48563458 CTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTTACA-AGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTA-ATGGAC
* * * * *
48563502 CTTAACCCCCTAAGCAATAGGGAAATAGATCGAAGGTGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGAC
* * * * ** * ** *
48563546 CTTAAACCCCTAAGCAATAGGGTAACAG-GCTAAATTTACAGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGAC
* *
48563589 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGAC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGAC
* * * ** * *
48563633 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACA-AGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTA-ATGGAC
* * * *
48563677 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGAC
* * * * ** * ** *
48563721 CTTAAACCCTTAAGCAGTAGGGTAACAG-GCTAAATTTACAGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGAC
* * *
48563764 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGAC
* * * ** * *
48563808 CTTAAACCCCTAAGTAGT-GAGGTAACAG-GCTGAATTTACA-AGAT
1 CTTAAACCCCTAAGCAGTAG-GGAAACAGATC-GAAGGTA-ATGGAC
** * * * *
48563852 CTTATCCCCCTAAGCAGTAGGGAAATATATCGAAGGTGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGAC
*
48563896 CTTAAACCCCTAAGCAATAGGG
1 CTTAAACCCCTAAGCAGTAGGG
48563918 TAGCAGGCTA
Statistics
Matches: 332, Mismatches: 116, Indels: 24
0.70 0.25 0.05
Matches are distributed among these distances:
43 67 0.20
44 260 0.78
45 5 0.02
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (44 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGAC
Found at i:48563512 original size:88 final size:88
Alignment explanation
Indices: 48563395--48563926 Score: 827
Period size: 88 Copynumber: 6.1 Consensus size: 88
48563385 CGCAGTGGAG
* ** *
48563395 CAGGCTAAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGACCT
1 CAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCT
48563460 TAAACCCCTAAGCAGTAGGGTAA
66 TAAACCCCTAAGCAGTAGGGTAA
* * * *
48563483 TAGGTTGAATTTACAAGATCTTAACCCCCTAAGCAATAGGGAAATAGATCGAAGGTGATGGGCCT
1 CAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCT
*
48563548 TAAACCCCTAAGCAATAGGGTAA
66 TAAACCCCTAAGCAGTAGGGTAA
* ** *
48563571 CAGGCTAAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGACCT
1 CAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCT
48563635 TAAACCCCTAAGCAGTAGGGTAA
66 TAAACCCCTAAGCAGTAGGGTAA
* *
48563658 CAGGTTGAATTTACAAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGCCT
1 CAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCT
*
48563723 TAAACCCTTAAGCAGTAGGGTAA
66 TAAACCCCTAAGCAGTAGGGTAA
*
48563746 CAGGCTAAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCT
1 CAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCT
*
48563810 TAAACCCCTAAGTAGT-GAGGTAA
66 TAAACCCCTAAGCAGTAG-GGTAA
* * *
48563833 CAGGCTGAATTTACAAGATCTTATCCCCCTAAGCAGTAGGGAAATATATCGAAGGTGATGGGCCT
1 CAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCT
* *
48563898 TAAACCCCTAAGCAATAGGGTAG
66 TAAACCCCTAAGCAGTAGGGTAA
48563921 CAGGCT
1 CAGGCT
48563927 AAAAATTATA
Statistics
Matches: 403, Mismatches: 37, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
86 1 0.00
87 160 0.40
88 241 0.60
89 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (88 bp):
CAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCT
TAAACCCCTAAGCAGTAGGGTAA
Found at i:48563609 original size:175 final size:175
Alignment explanation
Indices: 48563395--48563929 Score: 919
Period size: 175 Copynumber: 3.1 Consensus size: 175
48563385 CGCAGTGGAG
48563395 CAGGCTAAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGACCT
1 CAGGCTAAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGACCT
* *
48563460 TAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTTACAAGATCTTAACCCCCTAAGCAATAGGGA
65 TAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGA
48563525 AATAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAATAGGGTAA
130 AATAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAATAGGGTAA
48563571 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGACCTT
1 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGACCTT
*
48563636 AAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAAGATCTTAACCCCCTAAGTAGTAGGGAA
66 AAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAA
* * *
48563701 ACAGATCGAAGGTGATGGGCCTTAAACCCTTAAGCAGTAGGGTAA
131 ATAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAATAGGGTAA
** *
48563746 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTT
1 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGACCTT
* * *
48563811 AAACCCCTAAGTAGT-GAGGTAACAGGCTGAATTTACAAGATCTTATCCCCCTAAGCAGTAGGGA
66 AAACCCCTAAGCAGTAG-GGTAACAGGTTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGA
* *
48563875 AATATATCGAAGGTGATGGGCCTTAAACCCCTAAGCAATAGGGTAG
130 AATAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAATAGGGTAA
48563921 CAGGCTAAA
1 CAGGCTAAA
48563930 AATTATAGAT
Statistics
Matches: 340, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
174 1 0.00
175 325 0.96
176 14 0.04
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (175 bp):
CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGACCTT
AAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAA
ATAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAATAGGGTAA
Found at i:48565381 original size:3 final size:3
Alignment explanation
Indices: 48565373--48565584 Score: 62
Period size: 3 Copynumber: 69.3 Consensus size: 3
48565363 GAATTAAATA
* * *
48565373 TAT TAT TAT TAT TAT TAT TAT TCT T-T CTGT TAT CT-T TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT TAT
* * * *
48565418 T-T CCAT TAT TTT TAT T-T CTAAC TAT TAT TTT TAT GTAT ATAT TAT
1 TAT -TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT -TAT -TAT TAT
** * *
48565463 TAT T-T ATAT TAT CGT TAT TAT TAC TAT TAT TAAA TAT CT-T TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT -TAT TAT TAT
* * * * * * *
48565509 TAC TAT TAT TTT TGT TCCT T-T TAT TAT TGTT TAT CAT CAT TA- TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* ** *
48565554 TAT TAT TAC TCC TAT TAT TAT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
48565585 TCTTTTTTTG
Statistics
Matches: 154, Mismatches: 36, Indels: 38
0.68 0.16 0.17
Matches are distributed among these distances:
2 10 0.06
3 126 0.82
4 18 0.12
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:48576545 original size:17 final size:17
Alignment explanation
Indices: 48576523--48576558 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
48576513 GTAATCATTT
48576523 TTTTAGATAA-AAAAATA
1 TTTTAGA-AATAAAAATA
48576540 TTTTAGAAATAAAAATA
1 TTTTAGAAATAAAAATA
48576557 TT
1 TT
48576559 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTTAGAAATAAAAATA
Found at i:48576569 original size:19 final size:18
Alignment explanation
Indices: 48576523--48576569 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
48576513 GTAATCATTT
*
48576523 TTTTAGATAA-AAAAATA
1 TTTTAAATAATAAAAATA
*
48576540 TTTTAGA-AATAAAAATA
1 TTTTAAATAATAAAAATA
48576557 TTATTAAATAATA
1 TT-TTAAATAATA
48576570 TGTTTCTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 16 0.62
18 4 0.15
19 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
TTTTAAATAATAAAAATA
Found at i:48585993 original size:40 final size:41
Alignment explanation
Indices: 48585938--48586105 Score: 128
Period size: 40 Copynumber: 4.1 Consensus size: 41
48585928 GCAAAAATTG
* *
48585938 TAAAACACATAGCAATAGCGGCG-TTTTACCAAAAACGCCAC
1 TAAAA-ACAGAGCAATAGCGGCGATTTTAGCAAAAACGCCAC
* * * *
48585979 TAAAAACAGAGCAATAGCAGCG-TTTTAGTAAAAATGCCGC
1 TAAAAACAGAGCAATAGCGGCGATTTTAGCAAAAACGCCAC
* * * * * *
48586019 AAAAAAAAGAGCATTAGAGGCGATTTTTTGC-AAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGA-TTTTAGCAAAAACGCCAC
* * * * *
48586060 TAAAAACCAGAGCATTAGCGACGCTTTT-GGAAAAATGCCAC
1 TAAAAA-CAGAGCAATAGCGGCGATTTTAGCAAAAACGCCAC
48586101 TAAAA
1 TAAAA
48586106 GTCATATAAC
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 47 0.47
41 36 0.36
42 18 0.18
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCGATTTTAGCAAAAACGCCAC
Found at i:48586104 original size:41 final size:40
Alignment explanation
Indices: 48585968--48586105 Score: 109
Period size: 41 Copynumber: 3.4 Consensus size: 40
48585958 GCGTTTTACC
* *
48585968 AAAAACGCCACTAAAAACAGAGCAATAGC-A-GCGTTTTAGT
1 AAAAACGCCACTAAAAACAGAGCATTAGCGACGC-TTTT-GG
* * * * * * * *
48586008 AAAAATGCCGCAAAAAAAAGAGCATTAGAGGCGATTTTTTG
1 AAAAACGCCACTAAAAACAGAGCATTAGCGACG-CTTTTGG
* *
48586049 CAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTGG
1 AAAAACGCCACTAAAAA-CAGAGCATTAGCGACGCTTTTGG
*
48586090 AAAAATGCCACTAAAA
1 AAAAACGCCACTAAAA
48586106 GTCATATAAC
Statistics
Matches: 73, Mismatches: 21, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
40 23 0.32
41 32 0.44
42 18 0.25
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (40 bp):
AAAAACGCCACTAAAAACAGAGCATTAGCGACGCTTTTGG
Done.