Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 421 of 433
Found at i:129012951 original size:165 final size:166
Alignment explanation
Indices: 129012679--129013156 Score: 705
Period size: 165 Copynumber: 2.9 Consensus size: 166
129012669 CTACTTTTTC
129012679 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
129012744 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
129012809 TTTCAATTTCCGTTTTTCAATTTTTACCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTACATTTCAAAA
129012844 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
129012909 GTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
129012974 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTACATTTC-----AAAA
*
129013015 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
129013080 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
129013141 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
129013157 CAAAAAATCA
Statistics
Matches: 286, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
165 153 0.53
167 27 0.09
169 34 0.12
171 72 0.25
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTACATTTCAAAA
Found at i:129013097 original size:72 final size:73
Alignment explanation
Indices: 129013013--129013519 Score: 397
Period size: 72 Copynumber: 6.5 Consensus size: 73
129013003 TTCAAAAAAA
*
129013013 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
129013078 CTGTTTTC
66 CTGTTTTC
* * ** ** *
129013086 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
129013150 CTGTTTTC
66 CTGTTTTC
* * * ** *
129013158 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
129013223 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
129013234 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
129013299 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * * *
129013313 AAAAAAATCGACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
129013377 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
129013390 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
129013455 GCTATTTTCAATTTCTGTTTTTTTTTC
52 GGTATTTTCAATTTCTG-----TTTTC
129013482 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
129013520 TTTTTAATTT
Statistics
Matches: 346, Mismatches: 55, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
72 64 0.18
73 33 0.10
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 63 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 53 0.15
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:129013337 original size:79 final size:76
Alignment explanation
Indices: 129013012--129013729 Score: 418
Period size: 88 Copynumber: 9.0 Consensus size: 76
129013002 TTTCAAAAAA
** *
129013012 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
129013075 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
129013086 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
129013147 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
129013158 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
129013222 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
129013234 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
129013299 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * * *
129013313 AAAAAAATCGACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
129013377 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
129013390 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
129013455 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
129013482 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
129013546 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
129013569 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
129013630 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
129013644 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
129013709 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
129013730 TAATGTCTGT
Statistics
Matches: 501, Mismatches: 86, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 36 0.07
76 5 0.01
77 63 0.13
78 7 0.01
79 63 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 119 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 6 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:129013390 original size:14 final size:13
Alignment explanation
Indices: 129013371--129013406 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
129013361 TGTCGAGGTA
129013371 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
129013384 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
129013398 TTTTCAAAA
1 TTTTCAAAA
129013407 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:129013537 original size:30 final size:30
Alignment explanation
Indices: 129013501--129013562 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
129013491 CAACTCATAT
129013501 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
129013531 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
129013561 TG
1 TG
129013563 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:129013663 original size:254 final size:248
Alignment explanation
Indices: 129013152--129013730 Score: 753
Period size: 254 Copynumber: 2.3 Consensus size: 248
129013142 TTCAATTTCT
* * *
129013152 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
129013217 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* * *
129013278 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCGACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
129013343 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
129013397 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
129013461 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
129013526 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
129013588 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
129013651 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
129013715 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
129013731 AATGTCTGTT
Statistics
Matches: 290, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 145 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:129014377 original size:16 final size:16
Alignment explanation
Indices: 129014356--129014439 Score: 58
Period size: 16 Copynumber: 5.7 Consensus size: 16
129014346 CCATTAAGCC
129014356 CCCAAAAAAAACCTAA
1 CCCAAAAAAAACCTAA
129014372 CCCAAAAAAAA-C-AA
1 CCCAAAAAAAACCTAA
** **
129014386 -AGAAAAAAAA-AGAA
1 CCCAAAAAAAACCTAA
129014400 ---AAAGAAAAACCT-A
1 CCCAAA-AAAAACCTAA
*
129014413 CCCCAAAAAAACCTAA
1 CCCAAAAAAAACCTAA
129014429 CCCAAAAAAAA
1 CCCAAAAAAAA
129014440 AAGAAGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.06
13 14 0.26
14 4 0.07
15 9 0.17
16 24 0.44
ACGTcount: A:0.69, C:0.24, G:0.04, T:0.04
Consensus pattern (16 bp):
CCCAAAAAAAACCTAA
Found at i:129014410 original size:42 final size:46
Alignment explanation
Indices: 129014362--129014463 Score: 124
Period size: 49 Copynumber: 2.2 Consensus size: 46
129014352 AGCCCCCAAA
129014362 AAAAACCTAACCC-AAAAAA-AA-CAAAGAAAAAAA-AAG-AAAAAG
1 AAAAACCTAACCCAAAAAAACAACCAAA-AAAAAAAGAAGAAAAAAG
*
129014404 AAAAACCTACCCCAAAAAAACCTAACCCAAAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAA-C-AA-CCAAAAAAAAAAGAAGAAAAAAG
129014453 AAAAACCTAAC
1 AAAAACCTAAC
129014464 AAAAAAGATA
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
42 12 0.24
43 6 0.12
46 2 0.04
47 7 0.14
48 7 0.14
49 16 0.32
ACGTcount: A:0.71, C:0.20, G:0.06, T:0.04
Consensus pattern (46 bp):
AAAAACCTAACCCAAAAAAACAACCAAAAAAAAAAGAAGAAAAAAG
Found at i:129014422 original size:15 final size:15
Alignment explanation
Indices: 129014404--129014438 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
129014394 AAAGAAAAAG
*
129014404 AAAAACCTACCCCAA
1 AAAAACCTAACCCAA
129014419 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
129014434 AAAAA
1 AAAAA
129014439 AAAGAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.31, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:129014743 original size:16 final size:16
Alignment explanation
Indices: 129014722--129014765 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
129014712 GCATTTTTTC
129014722 AAAAAAA-AAAAAAAA
1 AAAAAAAGAAAAAAAA
129014737 AAAAAAAGAAAAAAAA
1 AAAAAAAGAAAAAAAA
*
129014753 AGAAAAAGAAAAA
1 AAAAAAAGAAAAA
129014766 CTTACCCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAAAA
Found at i:129014779 original size:1 final size:1
Alignment explanation
Indices: 129014722--129014765 Score: 61
Period size: 1 Copynumber: 44.0 Consensus size: 1
129014712 GCATTTTTTC
* * *
129014722 AAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
129014766 CTTACCCCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:129015028 original size:356 final size:357
Alignment explanation
Indices: 129014375--129015077 Score: 1347
Period size: 356 Copynumber: 2.0 Consensus size: 357
129014365 AACCTAACCC
*
129014375 AAAAAAAACAAAGAAAAAAAAAGAAAAAGAAAAACCTACCCCAAAAAAACCTAACCCAAAAAAAA
1 AAAAAAAAAAAAGAAAAAAAAAGAAAAAGAAAAACCTACCCCAAAAAAACCTAACCCAAAAAAAA
129014440 AAGAAGAAAAAAGAAAAACCTAACAAAAAAGATAAAAAAACCTAGCCACCTAACCACTTTCCCAC
66 AAGAAGAAAAAAGAAAAACCTAACAAAAAAGATAAAAAAACCTAGCCACCTAACCACTTTCCCAC
129014505 TTGCCCCATTTTTCCTCCCATTGTCTACCACCACCACCTACAAAATAGAAAAAAAAAAAAAGAAA
131 TTGCCCCATTTTTCCTCCCATTGTCTACCACCACCACCTACAAAATAGAAAAAAAAAAAAAGAAA
129014570 ATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATCATGTAAAAAAAAAGAAGGGAGGATTT
196 ATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATCATGTAAAAAAAAAGAAGGGAGGATTT
129014635 TACAAAGATTGAAGAAGAAAAAAAACACAAAAATCCCTTCAAATTTTGAACACAAAAGAAACATC
261 TACAAAGATTGAAGAAGAAAAAAAACACAAAAATCCCTTCAAATTTTGAACACAAAAGAAACATC
129014700 AATAAAAAGGTTGCATTTTTTCAAAAAAAAAA
326 AATAAAAAGGTTGCATTTTTTCAAAAAAAAAA
* *
129014732 AAAAAAAAAAAAGAAAAAAAAAGAAAAAGAAAAACTTACCCC-AAAAAACCTAACCCCCAAAAAA
1 AAAAAAAAAAAAGAAAAAAAAAGAAAAAGAAAAACCTACCCCAAAAAAACCTAA-CCCAAAAAAA
129014796 AAAGAAGAAAAAAGAAAAACCTAACAAAAAAGATAAAAAAACCTAGCCACCTAACCACTTTCCCA
65 AAAGAAGAAAAAAGAAAAACCTAACAAAAAAGATAAAAAAACCTAGCCACCTAACCACTTTCCCA
*
129014861 CTTGCCCCATTTTTCCTCCCATTGTCTACCACCACCACCTACAAAATAG-AAAAAAAAAATAGAA
130 CTTGCCCCATTTTTCCTCCCATTGTCTACCACCACCACCTACAAAATAGAAAAAAAAAAAAAGAA
129014925 AATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATCATGTAAAAAAAAAGAAGGGAGGATT
195 AATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATCATGTAAAAAAAAAGAAGGGAGGATT
129014990 TTACAAAGATTGAAGAAGAAAAAAAACACAAAAATCCCTTCAAATTTTGAACACAAAAGAAACAT
260 TTACAAAGATTGAAGAAGAAAAAAAACACAAAAATCCCTTCAAATTTTGAACACAAAAGAAACAT
129015055 CAATAAAAAGGTTGCATTTTTTC
325 CAATAAAAAGGTTGCATTTTTTC
129015078 TTTTTTCCTC
Statistics
Matches: 341, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
356 178 0.52
357 163 0.48
ACGTcount: A:0.55, C:0.19, G:0.09, T:0.17
Consensus pattern (357 bp):
AAAAAAAAAAAAGAAAAAAAAAGAAAAAGAAAAACCTACCCCAAAAAAACCTAACCCAAAAAAAA
AAGAAGAAAAAAGAAAAACCTAACAAAAAAGATAAAAAAACCTAGCCACCTAACCACTTTCCCAC
TTGCCCCATTTTTCCTCCCATTGTCTACCACCACCACCTACAAAATAGAAAAAAAAAAAAAGAAA
ATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATCATGTAAAAAAAAAGAAGGGAGGATTT
TACAAAGATTGAAGAAGAAAAAAAACACAAAAATCCCTTCAAATTTTGAACACAAAAGAAACATC
AATAAAAAGGTTGCATTTTTTCAAAAAAAAAA
Found at i:129015623 original size:11 final size:11
Alignment explanation
Indices: 129015605--129015634 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
129015595 GTGTATATTG
129015605 TATATATTATA
1 TATATATTATA
*
129015616 TTTATATTATA
1 TATATATTATA
129015627 TATATATT
1 TATATATT
129015635 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:129016908 original size:2 final size:2
Alignment explanation
Indices: 129016901--129016934 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
129016891 AATGTCAGAA
129016901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129016935 GGACATGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129017626 original size:27 final size:27
Alignment explanation
Indices: 129017595--129017648 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
129017585 GATGATCCAA
129017595 CCTGATTCACCCTAAAGATGTTTCACT
1 CCTGATTCACCCTAAAGATGTTTCACT
129017622 CCTGATTCACCCTAAAGATGTTTCACT
1 CCTGATTCACCCTAAAGATGTTTCACT
129017649 ATGGACTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (27 bp):
CCTGATTCACCCTAAAGATGTTTCACT
Found at i:129020229 original size:17 final size:17
Alignment explanation
Indices: 129020204--129020236 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
129020194 TAATATTGTT
*
129020204 TTTATTTTGGGTTGGGG
1 TTTAATTTGGGTTGGGG
129020221 TTTAATTTGGGTTGGG
1 TTTAATTTGGGTTGGG
129020237 TTGGATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.39, T:0.52
Consensus pattern (17 bp):
TTTAATTTGGGTTGGGG
Found at i:129024050 original size:21 final size:19
Alignment explanation
Indices: 129024012--129024050 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
129024002 AAAATTATTA
129024012 TTTATAAAAAATTTAAAAT
1 TTTATAAAAAATTTAAAAT
*
129024031 TTTATCAAATAATATTAAAA
1 TTTAT-AAAAAAT-TTAAAA
129024051 AAACTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTATAAAAAATTTAAAAT
Found at i:129027673 original size:20 final size:20
Alignment explanation
Indices: 129027636--129027673 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
129027626 CCTAATAAAA
**
129027636 CATTTTGTTCCATTTAAATC
1 CATTTTGTTCCACGTAAATC
129027656 CATTTTGTTCCACGTAAA
1 CATTTTGTTCCACGTAAA
129027674 CTTAAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (20 bp):
CATTTTGTTCCACGTAAATC
Found at i:129029052 original size:14 final size:14
Alignment explanation
Indices: 129029033--129029059 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
129029023 ATGTAAAAAG
129029033 AATTTTAAAACAAT
1 AATTTTAAAACAAT
129029047 AATTTTAAAACAA
1 AATTTTAAAACAA
129029060 GTTAAGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTTAAAACAAT
Found at i:129037937 original size:9 final size:8
Alignment explanation
Indices: 129037885--129037935 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
129037875 AAAAAAAGTG
129037885 ATAAAAAA
1 ATAAAAAA
129037893 AGTACAAAAA
1 A-TA-AAAAA
*
129037903 ATAAAATA
1 ATAAAAAA
**
129037911 CGAAAAAA
1 ATAAAAAA
129037919 ATAAAAAA
1 ATAAAAAA
129037927 ATAAAAAA
1 ATAAAAAA
129037935 A
1 A
129037936 ATTCTGTGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 25 0.71
9 4 0.11
10 6 0.17
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (8 bp):
ATAAAAAA
Found at i:129039855 original size:15 final size:15
Alignment explanation
Indices: 129039835--129039895 Score: 122
Period size: 15 Copynumber: 4.1 Consensus size: 15
129039825 AAATGAGGAG
129039835 TGGTTATGTTTTAAC
1 TGGTTATGTTTTAAC
129039850 TGGTTATGTTTTAAC
1 TGGTTATGTTTTAAC
129039865 TGGTTATGTTTTAAC
1 TGGTTATGTTTTAAC
129039880 TGGTTATGTTTTAAC
1 TGGTTATGTTTTAAC
129039895 T
1 T
129039896 AACTCTAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.54
Consensus pattern (15 bp):
TGGTTATGTTTTAAC
Found at i:129042118 original size:27 final size:27
Alignment explanation
Indices: 129042088--129042142 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
129042078 TAAATATATC
*
129042088 ATTTTT-ATAATTTTGTTTATATTTTTT
1 ATTTTTAATAATTTT-TTTATAATTTTT
129042115 ATTTTTAATAATTTTTTTATAATTTTT
1 ATTTTTAATAATTTTTTTATAATTTTT
129042142 A
1 A
129042143 GAGATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (27 bp):
ATTTTTAATAATTTTTTTATAATTTTT
Found at i:129042536 original size:2 final size:2
Alignment explanation
Indices: 129042529--129042567 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
129042519 TGTAAAAATC
129042529 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
129042568 AAAGTTACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:129044064 original size:1 final size:1
Alignment explanation
Indices: 129044058--129044088 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
129044048 TATGGAAATT
129044058 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
129044089 CAATCAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:129044545 original size:11 final size:11
Alignment explanation
Indices: 129044529--129044553 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
129044519 CAAGCCATAT
129044529 TAACTCTTATA
1 TAACTCTTATA
129044540 TAACTCTTATA
1 TAACTCTTATA
129044551 TAA
1 TAA
129044554 GCATGATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (11 bp):
TAACTCTTATA
Found at i:129046904 original size:26 final size:26
Alignment explanation
Indices: 129046868--129046919 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
129046858 GTTTGAGTGG
129046868 GTTTTCTGTCATTTAGTCACATATAA
1 GTTTTCTGTCATTTAGTCACATATAA
129046894 GTTTTCTGTCATTTAGTCACATATAA
1 GTTTTCTGTCATTTAGTCACATATAA
129046920 TAGTTATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (26 bp):
GTTTTCTGTCATTTAGTCACATATAA
Found at i:129054136 original size:64 final size:64
Alignment explanation
Indices: 129053944--129054137 Score: 298
Period size: 64 Copynumber: 3.0 Consensus size: 64
129053934 TCATATATCA
* **
129053944 TATCACATCTGGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAG
1 TATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAG
* * * *
129054008 CATCACATCTAGTTAGGTGCATTTGATTCATTTTGATCATAGTATCCTAATTATTTGACATAAG
1 TATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAG
* * *
129054072 TATTACATCTAGTTAGGAGTATTTGATTCATTTTGATCATAACATCCTAATTATTTGGCATAAG
1 TATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAG
129054136 TA
1 TA
129054138 AGATACAGAA
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 116 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (64 bp):
TATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAG
Found at i:129054570 original size:177 final size:177
Alignment explanation
Indices: 129054301--129054745 Score: 599
Period size: 177 Copynumber: 2.5 Consensus size: 177
129054291 GCAGTGGAGT
* * *
129054301 AGACTGAAGATTGAAAGATCTTATCTTCCTAAGCAGTAGCAGAGTAGATCGAAGATGGCGAATCT
1 AGACTGAAGATTG-AAGATCTTATCTCCCTAAACAGTAGCGGAGTAGATCGAAGATGGCGAATCT
* * * * *
129054366 TATCTCTATGTAACGGAAATAGAGCAGATTTTAGCCATTGACCTTATCTCTCTGAGGTTGCAAGA
65 TATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCATTGACCTTATCTCTCTGAGGTAGCAAGA
* * *
129054431 GAGCAGGTTGAAGA-AGATGGTCTTAT-GTTCTTGAGGTAGCAATGAAGC
130 GAGCAGGTTGAAGATAG-TAGTCTTATCTTTC-TGAGGTAGCAAGGAAGC
* * * *
129054479 AGAGTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATAGAGGATGGCGAATCTT
1 AGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGTAGATCGAAGATGGCGAATCTT
*
129054544 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCTATTGACCTTATCTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCATTGACCTTATCTCTCTGAGGTAGCAAGAG
** *
129054609 AGCAGGTTGGCGATTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGC
131 AGCAGGTTGAAGATAGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGC
* * * * * * *
129054656 AGACTAAAGATTGAAGATCTTATTTCCCTGAATAGAAGTGGAGTAGATCGAAAGA-GGCGAATTT
1 AGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGTAGATCG-AAGATGGCGAATCT
129054720 TATCTCCATGTATCGGTAATGGAGCA
65 TATCTCCATGTATCGGTAATGGAGCA
129054746 AGTTTAAGCC
Statistics
Matches: 234, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
177 215 0.92
178 19 0.08
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (177 bp):
AGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGTAGATCGAAGATGGCGAATCTT
ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCATTGACCTTATCTCTCTGAGGTAGCAAGAG
AGCAGGTTGAAGATAGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGC
Found at i:129054668 original size:44 final size:45
Alignment explanation
Indices: 129054585--129054678 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 45
129054575 AGCTATTGAC
** *** *
129054585 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAG-T
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGACTAAAGATTGAAGAT
*
129054629 CTTATCTTTCTGAGGTAGCAAG-GAAGCAGACTAAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAG-AGCAGACTAAAGATTGAAGAT
129054674 CTTAT
1 CTTAT
129054679 TTCCCTGAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
43 1 0.02
44 34 0.83
45 6 0.15
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGACTAAAGATTGAAGAT
Found at i:129054785 original size:89 final size:89
Alignment explanation
Indices: 129054669--129054835 Score: 239
Period size: 89 Copynumber: 1.9 Consensus size: 89
129054659 CTAAAGATTG
* *
129054669 AAGATCTTATTTCCCTGAATAGAAGTGGAGTAGATCGAAAGA-GGCGAATTTTATCTCCATGTAT
1 AAGATCTTATTTCCCTGAATAGAAGTGGAGGAGATCG-AAGATGGCGAATCTTATCTCCATGTAT
*
129054733 CGGTAATGGAGCAAGTTTAAGCCCC
65 CGGAAATGGAGCAAGTTTAAGCCCC
* * * *
129054758 AAGAT-TTATTTCCCTGAAGTTGCAGTGGAGGAGATTGAAGATGGTGAATCTTATCTCCATGTAT
1 AAGATCTTATTTCCCTGAA-TAGAAGTGGAGGAGATCGAAGATGGCGAATCTTATCTCCATGTAT
129054822 CGGAAATGGAGCAA
65 CGGAAATGGAGCAA
129054836 ATTTTACTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 17 0.25
89 52 0.75
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (89 bp):
AAGATCTTATTTCCCTGAATAGAAGTGGAGGAGATCGAAGATGGCGAATCTTATCTCCATGTATC
GGAAATGGAGCAAGTTTAAGCCCC
Found at i:129056323 original size:9 final size:10
Alignment explanation
Indices: 129056293--129056322 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
129056283 GGGAAATAGG
129056293 CTTTAGTTTTT
1 CTTT-GTTTTT
129056304 CTTTGTTTTT
1 CTTTGTTTTT
129056314 CTTTGTTTT
1 CTTTGTTTT
129056323 CAAGTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.03, C:0.10, G:0.10, T:0.77
Consensus pattern (10 bp):
CTTTGTTTTT
Found at i:129058540 original size:30 final size:31
Alignment explanation
Indices: 129058480--129058540 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
129058470 TAATTATACA
** *
129058480 AAATCAAAATTTATATACCAAATTGCATATT
1 AAATCAAAATCCATATACCAAATTGAATATT
*
129058511 AAATCAAAATCCAT-TACCAAATTTAATATT
1 AAATCAAAATCCATATACCAAATTGAATATT
129058541 TATCGTAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (31 bp):
AAATCAAAATCCATATACCAAATTGAATATT
Found at i:129067512 original size:131 final size:129
Alignment explanation
Indices: 129067354--129067670 Score: 339
Period size: 131 Copynumber: 2.4 Consensus size: 129
129067344 TGTTCGATCG
** * * * * ** *
129067354 TTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCGAATTTTTAAATTTCA
1 TTTTGAGCAAAC-AGAAATTGCAACCCAACACGTTAGGGCACGATTCGCGAATTACTAAATATCA
** * * ** *
129067419 AATATTGCCTTCGTTTTAAATAATTTTTAGAAGATGTGAATGAAATCTTGAAGGGATACTCGATT
65 AATACCGCCTTCGTTTTAAAGAA-TTTTAAAAGACATGAATGAAATCTTAAAGGGATACTCGATT
129067484 A
129 A
*
129067485 TTTTGAGCAAACACGAAATTGCAACCCAACATGTTAGGGCACGATTCCGCGAATTACTAAATATC
1 TTTTGAGCAAACA-GAAATTGCAACCCAACACGTTAGGGCACGATT-CGCGAATTACTAAATATC
* * * * * * * *
129067550 GAATCCCGTCTTCGTTTTGAAGAATTTTAAAAGACATGAATGAAATTTTAAAGTGATATTCGGTT
64 AAATACCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATCTTAAAGGGATACTCGATT
129067615 A
129 A
129067616 TTTTGAGCAAAC-GTAAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATT
1 TTTTGAGCAAACAG--AAATTGCAACCCAACACGTTAGGGCACGATT-CGCGAATT
129067671 GCCAAACAAC
Statistics
Matches: 156, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
129 1 0.01
130 1 0.01
131 123 0.79
132 31 0.20
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (129 bp):
TTTTGAGCAAACAGAAATTGCAACCCAACACGTTAGGGCACGATTCGCGAATTACTAAATATCAA
ATACCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATCTTAAAGGGATACTCGATTA
Found at i:129067684 original size:131 final size:131
Alignment explanation
Indices: 129067427--129067709 Score: 368
Period size: 131 Copynumber: 2.1 Consensus size: 131
129067417 CAAATATTGC
* * * ** *
129067427 CTTCGTTTTAAATAATTTTTAGAAGATGTGAATGAAATCTTGAAGGGATACTCGATTATTTTGAG
1 CTTCGTTTTGAAGAA-TTTTAAAAGACATGAATGAAATCTTAAAGGGATACTCGATTATTTTGAG
* * * * *
129067492 CAAACACGAAATTGCAACCCAACATGTTAGGGCACGATTCCGCGAATTACTAAATATCGAATCCC
65 CAAACACAAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACAACGAATCCC
129067557 GT
130 GT
* * * *
129067559 CTTCGTTTTGAAGAATTTTAAAAGACATGAATGAAATTTTAAAGTGATATTCGGTTATTTTGAGC
1 CTTCGTTTTGAAGAATTTTAAAAGACATGAATGAAATCTTAAAGGGATACTCGATTATTTTGAGC
** * *
129067624 AAACGTAAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACAACGAATCTCG
66 AAACACAAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACAACGAATCCCG
129067689 T
131 T
*
129067690 CTTTGTTTTTGAAGAATTTT
1 CTTCG-TTTTGAAGAATTTT
129067710 TGAATGAATG
Statistics
Matches: 130, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
131 103 0.79
132 27 0.21
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (131 bp):
CTTCGTTTTGAAGAATTTTAAAAGACATGAATGAAATCTTAAAGGGATACTCGATTATTTTGAGC
AAACACAAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACAACGAATCCCG
T
Found at i:129068811 original size:19 final size:20
Alignment explanation
Indices: 129068787--129068826 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
129068777 TAATTAATAC
*
129068787 AGGTAAATAA-ACATGAAAT
1 AGGTAAAAAACACATGAAAT
129068806 AGGTAAAAAATCACATGAAAT
1 AGGTAAAAAA-CACATGAAAT
129068827 GAATCTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (20 bp):
AGGTAAAAAACACATGAAAT
Found at i:129076183 original size:17 final size:17
Alignment explanation
Indices: 129076162--129076195 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
129076152 TTTTTATTTT
129076162 TAAAAAATTTAC-AAAA
1 TAAAAAATTTACTAAAA
129076178 TAAAAAATTTACTAAAA
1 TAAAAAATTTACTAAAA
129076195 T
1 T
129076196 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAAATTTACTAAAA
Found at i:129082580 original size:42 final size:43
Alignment explanation
Indices: 129082488--129082573 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 43
129082478 CCTAAAAAAA
* **
129082488 AAATTAGGTACCAAATTAGGAAAAAAAATAACAAGTTCATGTACC
1 AAATTGGGT-CCAAATTAGG-AAAAAAATAACAAGTTCAAATACC
* *
129082533 AAATTGGGTCCAAATTAGG-AAAAAGTATCAAGTTCAAATAC
1 AAATTGGGTCCAAATTAGGAAAAAAATAACAAGTTCAAATAC
129082574 TGAATTGAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 18 0.50
44 10 0.28
45 8 0.22
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (43 bp):
AAATTGGGTCCAAATTAGGAAAAAAATAACAAGTTCAAATACC
Found at i:129083983 original size:29 final size:29
Alignment explanation
Indices: 129083927--129083983 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
129083917 AAAATTATAT
129083927 TTGATTTGTCACATACATGGCAAATGTTAG
1 TTGATTTGTCACATACATGGC-AATGTTAG
*
129083957 TTGATTGTGTCACATACATTGC-ATGTT
1 TTGATT-TGTCACATACATGGCAATGTT
129083984 TGAGTTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 5 0.20
30 6 0.24
31 14 0.56
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (29 bp):
TTGATTTGTCACATACATGGCAATGTTAG
Found at i:129088444 original size:31 final size:31
Alignment explanation
Indices: 129088406--129088469 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
129088396 CCTTTTCATA
129088406 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
129088437 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
129088468 TT
1 TT
129088470 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:129088707 original size:24 final size:24
Alignment explanation
Indices: 129088661--129088779 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
129088651 GCTTTATCAT
*
129088661 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
129088686 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
129088710 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
129088733 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
129088757 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
129088780 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:129088740 original size:47 final size:48
Alignment explanation
Indices: 129088661--129088779 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
129088651 GCTTTATCAT
*
129088661 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
129088710 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
129088757 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
129088780 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:129088855 original size:20 final size:20
Alignment explanation
Indices: 129088830--129088868 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
129088820 TATGATTATA
129088830 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
129088850 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
129088869 ACCATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:129088944 original size:25 final size:25
Alignment explanation
Indices: 129088912--129088959 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
129088902 ATACATAAAC
* * *
129088912 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
129088937 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
129088960 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:129096712 original size:31 final size:31
Alignment explanation
Indices: 129096674--129096737 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
129096664 CCTTTTCATA
129096674 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
129096705 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
129096736 TT
1 TT
129096738 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:129096975 original size:24 final size:24
Alignment explanation
Indices: 129096929--129097047 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
129096919 GCTTTATCAT
*
129096929 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
129096954 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
129096978 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
129097001 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
129097025 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
129097048 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:129097008 original size:47 final size:48
Alignment explanation
Indices: 129096929--129097047 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
129096919 GCTTTATCAT
*
129096929 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
129096978 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
129097025 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
129097048 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:129097123 original size:20 final size:20
Alignment explanation
Indices: 129097098--129097136 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
129097088 TATGATTACA
129097098 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
129097118 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
129097137 ACCATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:129097212 original size:25 final size:25
Alignment explanation
Indices: 129097180--129097227 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
129097170 ATACATAAAC
* * *
129097180 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
129097205 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
129097228 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:129102177 original size:41 final size:40
Alignment explanation
Indices: 129102101--129102186 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
129102091 CAAATACATT
*
129102101 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * **
129102142 TAAAACAATTCTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
129102182 TAAAA
1 TAAAA
129102187 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.21
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:129102525 original size:35 final size:35
Alignment explanation
Indices: 129102420--129102530 Score: 125
Period size: 35 Copynumber: 3.2 Consensus size: 35
129102410 CACCTCTAGC
* * * *
129102420 TGTGACACATAGGTATGGTATTATCCATACCAAGC
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* * *
129102455 TAT-AATACGTAGGTATGGTATTTTTCATACCGAGT
1 TGTGAA-ACGTAGGTATGGTATTATCCATACCGAGT
* *
129102490 TGTGAAACGTAGGTATGGTATTAACCATACGGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
129102525 TGTGAA
1 TGTGAA
129102531 TTATAACACT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
34 1 0.02
35 59 0.95
36 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
Found at i:129103905 original size:48 final size:48
Alignment explanation
Indices: 129103834--129104020 Score: 216
Period size: 48 Copynumber: 3.9 Consensus size: 48
129103824 AAAGGATACA
* * **
129103834 CTGATTTGGCTTCAGGCCATGATATCAGCACTTCGGGTGCGAGTTACT
1 CTGATTTAGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGTTACT
*
129103882 CTGATTTAGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAGTTACT
1 CTGATTTAGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGTTACT
* * * *
129103930 TTGATTTGGCTTCGGGCCATGATATTGGCACTTTGAGTGCGAGATTTA-T
1 CTGATTTAGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG--TTACT
* * * * *
129103979 -TGAGTTAGCTTTGGGCCATGATATTGGAACTTAGTGTGCGAG
1 CTGATTTAGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG
129104021 AATCCTAAGT
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
48 117 0.97
49 1 0.01
50 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (48 bp):
CTGATTTAGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGTTACT
Found at i:129103999 original size:96 final size:96
Alignment explanation
Indices: 129103835--129104010 Score: 248
Period size: 96 Copynumber: 1.8 Consensus size: 96
129103825 AAGGATACAC
* *
129103835 TGATTTGGCTTCAGGCCATGATATCAGCACTTCGGGTGCGAGTTACTCTGATTTAGCTTCGGGCC
1 TGATTTGGCTTCAGGCCATGATATCAGCACTTCGAGTGCGAGTTACTCTGAGTTAGCTTCGGGCC
*
129103900 ATGATATTGGCACTTCGGGTGTGAGTTACTT
66 ATGATATTGGAACTTCGGGTGTGAGTTACTT
* ** * *
129103931 TGATTTGGCTTCGGGCCATGATATTGGCACTTTGAGTGCGAGATTTA-T-TGAGTTAGCTTTGGG
1 TGATTTGGCTTCAGGCCATGATATCAGCACTTCGAGTGCGAG--TTACTCTGAGTTAGCTTCGGG
129103994 CCATGATATTGGAACTT
64 CCATGATATTGGAACTT
129104011 AGTGTGCGAG
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
96 66 0.94
97 1 0.01
98 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (96 bp):
TGATTTGGCTTCAGGCCATGATATCAGCACTTCGAGTGCGAGTTACTCTGAGTTAGCTTCGGGCC
ATGATATTGGAACTTCGGGTGTGAGTTACTT
Found at i:129107848 original size:35 final size:35
Alignment explanation
Indices: 129107804--129107969 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
129107794 TCCTCATTGA
** *
129107804 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
129107839 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
129107878 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
129107913 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
129107948 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
129107970 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:129107889 original size:74 final size:73
Alignment explanation
Indices: 129107799--129107969 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
129107789 GGTTTTCCTC
** * * **
129107799 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
129107862 TCAGTATGG
65 TCAGTATGG
*
129107871 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
129107936 CTCAGTATGG
64 CTCAGTATGG
129107946 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
129107970 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:129114855 original size:35 final size:35
Alignment explanation
Indices: 129114811--129114976 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
129114801 TCCTCATTGA
** *
129114811 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
129114846 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
129114885 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
129114920 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
129114955 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
129114977 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:129114896 original size:74 final size:73
Alignment explanation
Indices: 129114806--129114976 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
129114796 GGTTTTCCTC
** * * **
129114806 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
129114869 TCAGTATGG
65 TCAGTATGG
*
129114878 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
129114943 CTCAGTATGG
64 CTCAGTATGG
129114953 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
129114977 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:129124065 original size:15 final size:15
Alignment explanation
Indices: 129124045--129124076 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
129124035 TTCATATAAC
129124045 TCTATGTAAATATTT
1 TCTATGTAAATATTT
*
129124060 TCTATGTATATATTT
1 TCTATGTAAATATTT
129124075 TC
1 TC
129124077 CTTTCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.56
Consensus pattern (15 bp):
TCTATGTAAATATTT
Found at i:129125715 original size:28 final size:28
Alignment explanation
Indices: 129125669--129125737 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
129125659 TTTAAAACCC
*
129125669 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
129125696 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
129125724 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
129125738 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:129127558 original size:19 final size:18
Alignment explanation
Indices: 129127521--129127564 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
129127511 ATACATACAG
129127521 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
129127538 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
129127557 TACTAATT
1 TAATAATT
129127565 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:129129982 original size:28 final size:28
Alignment explanation
Indices: 129129936--129130004 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
129129926 TTTAAAACCC
*
129129936 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
129129963 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
129129991 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
129130005 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:129131829 original size:19 final size:18
Alignment explanation
Indices: 129131792--129131835 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
129131782 ATACATACAG
129131792 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
129131809 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
129131828 TACTAATT
1 TAATAATT
129131836 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:129134360 original size:15 final size:15
Alignment explanation
Indices: 129134327--129134360 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
129134317 ATGTATAATA
*
129134327 ATACTAAATATATAC
1 ATACTAAATACATAC
*
129134342 ATACTAAATACATAT
1 ATACTAAATACATAC
129134357 ATAC
1 ATAC
129134361 ATAGTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (15 bp):
ATACTAAATACATAC
Found at i:129134370 original size:21 final size:20
Alignment explanation
Indices: 129134321--129134380 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 20
129134311 ATACATATGT
129134321 ATAATAATACTAA-ATATATAC
1 ATAATAA-A-TAACATATATAC
*
129134342 ATACTAAAT-ACATATATAC
1 ATAATAAATAACATATATAC
129134361 ATAGTATAAATGAACATATA
1 ATA--ATAAAT-AACATATA
129134381 CAATGTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 1 0.03
19 12 0.38
20 1 0.03
21 11 0.34
23 7 0.22
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAATAAATAACATATATAC
Found at i:129134550 original size:16 final size:15
Alignment explanation
Indices: 129134519--129134552 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
129134509 AATATCAAGT
*
129134519 ATATTAATGAATATA
1 ATATTAATGAAAATA
129134534 ATATTATATGAAAATA
1 ATATTA-ATGAAAATA
129134550 ATA
1 ATA
129134553 CTAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
ATATTAATGAAAATA
Found at i:129135199 original size:3 final size:3
Alignment explanation
Indices: 129135191--129135249 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
129135181 GCACATTAGA
129135191 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
129135239 AAT AAT AAT AA
1 AAT AAT AAT AA
129135250 ATTAAAGTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:129137915 original size:21 final size:21
Alignment explanation
Indices: 129137891--129137933 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
129137881 AATAAAAATG
*
129137891 ATAATCATGAG-AATAATATAA
1 ATAAT-ATGAGAAATAAAATAA
*
129137912 ATAATATTAGAAATAAAATAA
1 ATAATATGAGAAATAAAATAA
129137933 A
1 A
129137934 CTAGCAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (21 bp):
ATAATATGAGAAATAAAATAA
Found at i:129139827 original size:179 final size:176
Alignment explanation
Indices: 129139598--129140206 Score: 733
Period size: 179 Copynumber: 3.4 Consensus size: 176
129139588 AACAGACATT
* **
129139598 AAAACAGAAATTGAAAATAGCTCAGCACATGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
* *
129139663 TGATTTTTGAAAACAAAATTTGAAAAACAGATTTTGAAAATGCCTCGACATGTGACCCAAGGCTC
66 TGATTTTTGAAAACAAAA-TTGAAAAGCAGATTTTGAAAATACCTCGACATGTGACCCAAGGCTC
129139728 AACTCACCTATCGTCATATGAGTTGATTTTTGAAAAATATAAATTGAGA
130 AACTCACCTATCG-CATATGAGTTGATTTTTGAAAAATATAAATTGA-A
** * *
129139777 AAAACAGAAATTGAGGATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAACAGAAATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
***
129139842 TGATTTTTG-AAAC----TT-AAAAGCAGATTTTGAAAATACCTCGACATGTGACGTGAGGCTCA
66 TGATTTTTGAAAACAAAATTGAAAAGCAGATTTTGAAAATACCTCGACATGTGACCCAAGGCTCA
*
129139901 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAA
131 ACTCACCTATCGC-ATATGAGTTGATTTTTGAAAAATATAAATTGAA
* *
129139948 AAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
129140013 TGATTTTTTTGACAAGCAAAAATTGAAAAGCAAGA-ATTGAAAATTCCTC-AGC--GTG-CCCTA
66 TGA--TTTTTGA-AAAC-AAAATTGAAAAGC-AGATTTTGAAAATACCTCGA-CATGTGACCC-A
*
129140073 AGGCTCAACTCACTTCTCGCAGTTCGCAGTATGAGTTGATTTTTTTGAAAAATATAGATTGAA
124 AGGCTCAACTCAC--CT---A--TCGCA-TATGAGTTGA--TTTTTGAAAAATATAAATTGAA
* *
129140136 AAAACAGGAATTGAAAATACCTCAGC--GTG-TCCTAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
129140198 TTGATTTTT
65 TTGATTTTT
129140207 TTTTTGAAAA
Statistics
Matches: 376, Mismatches: 29, Indels: 45
0.84 0.06 0.10
Matches are distributed among these distances:
171 66 0.18
172 82 0.22
173 8 0.02
175 3 0.01
178 5 0.01
179 83 0.22
180 3 0.01
181 21 0.06
182 3 0.01
184 5 0.01
185 3 0.01
186 49 0.13
188 45 0.12
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (176 bp):
AAAACAGAAATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAACAAAATTGAAAAGCAGATTTTGAAAATACCTCGACATGTGACCCAAGGCTCA
ACTCACCTATCGCATATGAGTTGATTTTTGAAAAATATAAATTGAA
Found at i:129139928 original size:81 final size:84
Alignment explanation
Indices: 129139598--129140020 Score: 392
Period size: 90 Copynumber: 4.9 Consensus size: 84
129139588 AACAGACATT
* * ** *
129139598 AAAACAGAAATTGAAAATAGCTCAGCACATGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
129139663 TGATTTTTGAAAACAAAATTTGA
66 TGATTTTTG--AA-TAAA-TTAA
*** * * * *
129139686 AAAACAGATTTTGAAAATGCCTC-GACATGTGACCCAAGGCTCAACTCACCTATCGTC-ATATGA
1 AAAACAGAAACTGAAAATACCTCAG-CATGTGAGCCGAGGCTCAACTCACCTCTCG-CAATATGA
129139749 GTTGATTTTTGAAAAATATAAATTGAGA
64 GTTGATTTTTG----A-ATAAATT-A-A
* ** *
129139777 AAAACAGAAATTGAGGATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
129139842 TGATTTTTG-A-AACTT-A
66 TGATTTTTGAATAAATTAA
* *** *
129139858 AAAGCAGATTTTGAAAATACCTC-GACATGTGA-CGTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAACAGAAACTGAAAATACCTCAG-CATGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGA
129139921 GTTGATTTTTGAAAAATATAAATTGAA
64 GTTGATTTTTG----A-ATAAATT-AA
129139948 AAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
129140013 TGATTTTT
66 TGATTTTT
129140021 TTGACAAGCA
Statistics
Matches: 280, Mismatches: 33, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
80 2 0.01
81 64 0.23
84 4 0.01
85 1 0.00
87 2 0.01
88 66 0.24
89 3 0.01
90 72 0.26
91 65 0.23
92 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (84 bp):
AAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAATAAATTAA
Found at i:129140043 original size:14 final size:14
Alignment explanation
Indices: 129140021--129140055 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
129140011 GTTGATTTTT
*
129140021 TTGACAAGCAAAAA
1 TTGAAAAGCAAAAA
*
129140035 TTGAAAAGCAAGAA
1 TTGAAAAGCAAAAA
129140049 TTGAAAA
1 TTGAAAA
129140056 TTCCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAAAAA
Found at i:129140197 original size:186 final size:186
Alignment explanation
Indices: 129139910--129140282 Score: 554
Period size: 189 Copynumber: 2.0 Consensus size: 186
129139900 AACTCACCTC
129139910 TCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAACTGAAAATACCTCAGCA
1 TCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAACTGAAAATACCTCAGCA
* *
129139975 TGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGACAAGCAAAAATTGA
66 -GTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCAAAAATTGA
129140039 AAAGCAAGAATTGAAAATTCCTCAGCGTGCCCTAAGGCTCAACTCACTTCTCGCAGT
130 AAAGCAAGAATTGAAAATTCCTCAGCGTGCCCTAAGGCTCAACTCACTTCTCGCAGT
* * * *
129140096 TCGCAGTATGAGTTGATTTTTTTGAAAAATATAGATTGAAAAAACAGGAATTGAAAATACCTCAG
1 TCGCAATATGAGTTGA--TTTTTGAAAAATATAAATTGAAAAAACAGAAACTGAAAATACCTCAG
* * *
129140161 C-GTG-TCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAGTAGAAA
64 CAGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTGAAAAGCAAAAA
* * * *
129140224 TTGAAAAGCAGGAATTGGAAATTTCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCA
126 TTGAAAAGCAAGAATTGAAAATTCCTCAGCGTGCCCTAAGGCTCAACTCACTTCTCGCA
129140283 ATATGAGTTG
Statistics
Matches: 168, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
185 2 0.01
186 50 0.30
188 45 0.27
189 71 0.42
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (186 bp):
TCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAACTGAAAATACCTCAGCA
GTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCAAAAATTGAA
AAGCAAGAATTGAAAATTCCTCAGCGTGCCCTAAGGCTCAACTCACTTCTCGCAGT
Found at i:129140266 original size:92 final size:93
Alignment explanation
Indices: 129139894--129140298 Score: 429
Period size: 92 Copynumber: 4.4 Consensus size: 93
129139884 ATGTGACGTG
*
129139894 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAAAATATAAATTGAAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAATAGAAATTGAAAAAACA
* * * *
129139954 GAAACTGAAAATACCTCAGCATGTGAGCC-G
66 GGAATTGAAAATACCTCAGC--GTG-CCCTA
* ** * *
129139984 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGACAAGCAAAAATTG-AAAAGCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAATAGAAATTGAAAAAACA
* *
129140045 AGAATTGAAAATTCCTCAGCGTGCCCTA
66 GGAATTGAAAATACCTCAGCGTGCCCTA
* * * * *
129140073 AGGCTCAACTCACTTCTCGCAGT-TCGCAGTATGAGTTGATTTTTTTGAAAAATATAGATTGAAA
1 AGGCTCAACTCACCTCTCGCAATAT-G-AGT-TGA-TT-TTTTTTTTGAAAAATAGAAATTGAAA
*
129140137 AAACAGGAATTGAAAATACCTCAGCGTGTCCTA
61 AAACAGGAATTGAAAATACCTCAGCGTGCCCTA
* *
129140170 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAGTAGAAATTG-AAAAGCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAATAGAAATTGAAAAAACA
* ** *
129140234 GGAATTGGAAATTTCTCAGCGTGCCCTG
66 GGAATTGAAAATACCTCAGCGTGCCCTA
*
129140262 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
129140299 GAAACATAAA
Statistics
Matches: 267, Mismatches: 35, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
88 3 0.01
89 25 0.09
90 35 0.13
91 25 0.09
92 81 0.30
93 19 0.07
94 2 0.01
95 3 0.01
96 20 0.07
97 53 0.20
98 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (93 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAATAGAAATTGAAAAAACA
GGAATTGAAAATACCTCAGCGTGCCCTA
Found at i:129151833 original size:21 final size:21
Alignment explanation
Indices: 129151809--129151851 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
129151799 AATAAAAATG
*
129151809 ATAATCATGAG-AATAATATAA
1 ATAAT-ATGAGAAATAAAATAA
*
129151830 ATAATATTAGAAATAAAATAA
1 ATAATATGAGAAATAAAATAA
129151851 A
1 A
129151852 ATAGCAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (21 bp):
ATAATATGAGAAATAAAATAA
Found at i:129160263 original size:23 final size:20
Alignment explanation
Indices: 129160233--129160278 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 20
129160223 ATAAATATGT
129160233 ATGTATGTATATGTATAGTATAC
1 ATGTATGTATA--TATA-TATAC
*
129160256 ATGTATGTCTATATATATAC
1 ATGTATGTATATATATATAC
129160276 ATG
1 ATG
129160279 AGTGATACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 4 0.18
23 10 0.45
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (20 bp):
ATGTATGTATATATATATAC
Found at i:129161339 original size:2 final size:2
Alignment explanation
Indices: 129161332--129161365 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
129161322 ATGTTTGGTC
129161332 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129161366 ATCGTTTACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:129169468 original size:15 final size:14
Alignment explanation
Indices: 129169441--129169481 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 14
129169431 AAATAGTTTT
129169441 ACTTAATTTTTCAGC
1 ACTT-ATTTTTCAGC
129169456 ACTTATTTATTCAGC
1 ACTTATTT-TTCAGC
129169471 ACTTAATTTTT
1 ACTT-ATTTTT
129169482 TAATTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (14 bp):
ACTTATTTTTCAGC
Found at i:129171583 original size:20 final size:20
Alignment explanation
Indices: 129171555--129171607 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
129171545 TCAGAACCCC
*
129171555 AAACTTTGACCCTAAACCC-A
1 AAAC-TTGAACCTAAACCCTA
*
129171575 AAATCTTGAACTTAAACCCTA
1 AAA-CTTGAACCTAAACCCTA
129171596 AAACTTGAACCT
1 AAACTTGAACCT
129171608 TAAATGGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.25
Consensus pattern (20 bp):
AAACTTGAACCTAAACCCTA
Found at i:129171609 original size:21 final size:20
Alignment explanation
Indices: 129171567--129171611 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
129171557 ACTTTGACCC
129171567 TAAACCCAAAATCTTGAACT
1 TAAACCCAAAATCTTGAACT
129171587 TAAACCCTAAAA-CTTGAACCT
1 TAAACCC-AAAATCTTGAA-CT
129171608 TAAA
1 TAAA
129171612 TGGTTAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.24
Consensus pattern (20 bp):
TAAACCCAAAATCTTGAACT
Found at i:129175232 original size:23 final size:23
Alignment explanation
Indices: 129175206--129175290 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
129175196 ACAAAAAAAG
129175206 AAAATATAATAATAATAATAGTA
1 AAAATATAATAATAATAATAGTA
* * * *
129175229 AAAACACAATAGTAATAATAATGA
1 AAAATATAATAATAATAATAGT-A
* *
129175253 AAAGGTATTATAAT-ATAATAGTA
1 AAA-ATATAATAATAATAATAGTA
* *
129175276 ATAATGATGATAATA
1 AAAAT-ATAATAATA
129175291 GTGGTATTAG
Statistics
Matches: 45, Mismatches: 13, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
22 1 0.02
23 28 0.62
24 11 0.24
25 5 0.11
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATATAATAATAATAATAGTA
Found at i:129175278 original size:33 final size:38
Alignment explanation
Indices: 129175236--129175317 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
129175226 GTAAAAACAC
129175236 AATAGTAATAATAATGA-AA-A-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
*
129175269 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAG-GGTATTAGTAATAAT
*
129175308 AATAATAATA
1 AATAGTAATA
129175318 GAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
37 7 0.17
38 4 0.10
39 11 0.27
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.34
Consensus pattern (38 bp):
AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
Found at i:129175326 original size:19 final size:18
Alignment explanation
Indices: 129175302--129175343 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
129175292 TGGTATTAGT
*
129175302 AATAATAATAATAATAGAA
1 AATAATAACAATAATA-AA
*
129175321 AATAATAACAATATTAAA
1 AATAATAACAATAATAAA
129175339 AATAA
1 AATAA
129175344 CACTCTCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAATAACAATAATAAA
Found at i:129176595 original size:206 final size:206
Alignment explanation
Indices: 129176239--129176747 Score: 883
Period size: 206 Copynumber: 2.5 Consensus size: 206
129176229 CAAATCTGCT
* * *
129176239 TCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTAGATCTTGCTTCGGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
* *
129176304 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTTGAAATAGAGATGCCAGACTTCGACTTA
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAGATGCCAGACTTCGACATA
* *
129176369 TTCTCTGACAATAAAGAGATGTCAAATCATCTTAGACTTGCTTTAGAGTAAGCACGCGAAAGGCA
131 TTCTCTGACAATAAAGAGATGCCAAATCATCTTAGACTTGCTTTAGAGTAAGCACGCGAAAGCCA
*
129176434 AATCAGCTATA
196 AATCAGCCATA
129176445 TCTTCGATTTGCTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
* *
129176510 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACATG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAGATGCCAGACTTCGACATA
* *
129176575 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATAAAGAGATGCCAAATCATCTTAGACTTGCTTTAGAGTAAGCACGCGAAAGCCA
*
129176640 AATCAGCCATG
196 AATCAGCCATA
*
129176651 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
*
129176716 ATCTGAAGGCCAAATCTGCTATGTATCTGCTC
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTC
129176748 CTTCGACTTG
Statistics
Matches: 288, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
206 288 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (206 bp):
TCTTCGATTTGCTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAGATGCCAGACTTCGACATA
TTCTCTGACAATAAAGAGATGCCAAATCATCTTAGACTTGCTTTAGAGTAAGCACGCGAAAGCCA
AATCAGCCATA
Found at i:129177069 original size:348 final size:348
Alignment explanation
Indices: 129176432--129177095 Score: 1220
Period size: 348 Copynumber: 1.9 Consensus size: 348
129176422 ACGCGAAAGG
*
129176432 CAAATCAGCTATATCTTCGATTTGCTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTG
1 CAAATCAGCTATATCTTCGATTTGCTCCTTATAAGCACAAAGATGCCAAATCATCTTGGATCTTG
129176497 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCC
66 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCC
* *
129176562 AGACTTCGACATGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAG
131 AGACTTCGACATGTTATCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTTAGCGTAAG
129176627 CACGCGAAAGCCAAATCAGCCATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCAT
196 CACGCGAAAGCCAAATCAGCCATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCAT
129176692 CTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTGCTATGTATCTGCTCCTTCGACTT
261 CTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTGCTATGTATCTGCTCCTTCGACTT
129176757 GTTCTCTGACAATACAGAGATGC
326 GTTCTCTGACAATACAGAGATGC
* * *
129176780 CAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGTACAAGGATGCCAAATCATCTTGGATCTTG
1 CAAATCAGCTATATCTTCGATTTGCTCCTTATAAGCACAAAGATGCCAAATCATCTTGGATCTTG
* *
129176845 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTTTCCGTCGAAATGGAGATGCT
66 CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCC
* *
129176910 AGACTTTGACTTGTTATCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTTAGCGTAAG
131 AGACTTCGACATGTTATCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTTAGCGTAAG
*
129176975 CACGCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCAT
196 CACGCGAAAGCCAAATCAGCCATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCAT
*
129177040 CTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTC
261 CTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTGCTATGTATCTGCTC
129177096 TCCGTCGAAA
Statistics
Matches: 304, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
348 304 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (348 bp):
CAAATCAGCTATATCTTCGATTTGCTCCTTATAAGCACAAAGATGCCAAATCATCTTGGATCTTG
CTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCC
AGACTTCGACATGTTATCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTTAGCGTAAG
CACGCGAAAGCCAAATCAGCCATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCAT
CTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTGCTATGTATCTGCTCCTTCGACTT
GTTCTCTGACAATACAGAGATGC
Found at i:129177138 original size:206 final size:206
Alignment explanation
Indices: 129176778--129177262 Score: 805
Period size: 206 Copynumber: 2.3 Consensus size: 206
129176768 ATACAGAGAT
* *
129176778 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGTACAAGGATGCCAAATCATCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCT
*
129176843 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTTTCCGTCGAAATGGAGATG
66 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATG
*
129176908 CTAGACTTTGACTTGTTATCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTTAGCGTA
131 CCAGACTTTGACTTGTTATCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTTAGCGTA
129176973 AGCACGCGAAA
196 AGCACGCGAAA
129176984 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCT
129177049 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATG
66 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATG
* * *
129177114 CCAGACTTTGACTTGTTCTCTGACAATACAGAGATGCCAAATCTTCTTAGACTTGCTTTAGCGTA
131 CCAGACTTTGACTTGTTATCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTTAGCGTA
129177179 AGCACGCGAAA
196 AGCACGCGAAA
* * *
129177190 GCCAAATCAGCTATGTC-TCGGATCTACTATG-TCTTTGTAAGCATAAGGATGCCAAACCATCTT
1 GCCAAATCAGCTATGTCTTC-GA--T--T-TGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
129177253 GGATC-TGCTT
60 GGATCTTGCTT
129177263 TAGCCAGATC
Statistics
Matches: 263, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
205 2 0.01
206 218 0.83
208 1 0.00
209 5 0.02
210 35 0.13
211 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (206 bp):
GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCT
TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATG
CCAGACTTTGACTTGTTATCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTTAGCGTA
AGCACGCGAAA
Found at i:129180748 original size:24 final size:26
Alignment explanation
Indices: 129180712--129180760 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
129180702 TCAAACATGC
129180712 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
129180737 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
129180761 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:129182342 original size:25 final size:26
Alignment explanation
Indices: 129182248--129182356 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
129182238 ACATGAATTC
129182248 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
129182274 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
129182300 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
129182326 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
129182351 TTATCA
1 TTATCA
129182357 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:129186899 original size:26 final size:26
Alignment explanation
Indices: 129186863--129186972 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
129186853 CATGGAATTC
129186863 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
129186889 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
129186915 TTATCATGGAACCTTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
129186941 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
129186967 TTATCA
1 TTATCA
129186973 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:129196234 original size:3 final size:3
Alignment explanation
Indices: 129196228--129196369 Score: 60
Period size: 3 Copynumber: 47.3 Consensus size: 3
129196218 AAAAGAAAAT
* * *
129196228 ATA ATA ATA ATA ATA ATA GTA A-A A-A CACA ATA GTA ATA ATA ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA AT-A
* * * * * * *
129196273 A-A AGGT- ATT ATA AT- ATA ATA GTA ATA ATG ATG ATA ATA GTG GTA
1 ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
129196317 TTA GTA ATA ATA ATA ATA ATA ATA ATA GAAA ATA ATA ACA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
129196363 AAA ATA A
1 ATA ATA A
129196370 CACTCTCTCC
Statistics
Matches: 106, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
2 8 0.08
3 92 0.87
4 6 0.06
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:129196298 original size:33 final size:36
Alignment explanation
Indices: 129196256--129196348 Score: 111
Period size: 39 Copynumber: 2.6 Consensus size: 36
129196246 GTAAAAACAC
129196256 AATAGTAATAATAATGAAAA-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGAAAAGGGTATTAGTAATAAT
*
129196289 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGA-AA-AG-GGTATTAGTAATAAT
*
129196328 AATAATAATAATAATAGAAAA
1 AATAGTAATAATAAT-GAAAA
129196349 TAATAACAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
33 16 0.32
34 2 0.04
35 1 0.02
37 7 0.14
38 5 0.10
39 17 0.34
40 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (36 bp):
AATAGTAATAATAATGAAAAGGGTATTAGTAATAAT
Found at i:129196352 original size:19 final size:18
Alignment explanation
Indices: 129196321--129196369 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
129196311 GTGGTATTAG
* *
129196321 TAATAATAATAATAATAA
1 TAATAAAAATAATAACAA
129196339 TAATAGAAAATAATAACAA
1 TAATA-AAAATAATAACAA
*
129196358 TATTAAAAATAA
1 TAATAAAAATAA
129196370 CACTCTCTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
TAATAAAAATAATAACAA
Found at i:129196769 original size:13 final size:13
Alignment explanation
Indices: 129196751--129196777 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
129196741 GTGGTTAGGA
129196751 TGGTTTAGTGGGG
1 TGGTTTAGTGGGG
129196764 TGGTTTAGTGGGG
1 TGGTTTAGTGGGG
129196777 T
1 T
129196778 AGTTGGAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.52, T:0.41
Consensus pattern (13 bp):
TGGTTTAGTGGGG
Found at i:129197846 original size:2 final size:2
Alignment explanation
Indices: 129197839--129197872 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
129197829 AATTTAATTG
129197839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129197873 GGAAACATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129198826 original size:13 final size:13
Alignment explanation
Indices: 129198808--129198835 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
129198798 CAGAATTCAT
129198808 TTAATATTTTATA
1 TTAATATTTTATA
129198821 TTAATATTTTATA
1 TTAATATTTTATA
129198834 TT
1 TT
129198836 TTTATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATATTTTATA
Found at i:129204424 original size:20 final size:20
Alignment explanation
Indices: 129204401--129204438 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
129204391 CACATCCAAA
*
129204401 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
129204421 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
129204439 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:129212402 original size:20 final size:20
Alignment explanation
Indices: 129212379--129212416 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
129212369 CACATCCAAA
*
129212379 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
129212399 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
129212417 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:129213142 original size:371 final size:371
Alignment explanation
Indices: 129212459--129213200 Score: 1484
Period size: 371 Copynumber: 2.0 Consensus size: 371
129212449 TAACACCCCA
129212459 AACCCGGCCTGGACGTTATGACCGGATCTGATGCGCCACATTGATGCGTTCAAAACATTCCGTAT
1 AACCCGGCCTGGACGTTATGACCGGATCTGATGCGCCACATTGATGCGTTCAAAACATTCCGTAT
129212524 TACTTAGTTTGGAAAAGCTGAGTTGGTGTTGTAAAAGACACTTTTAAAGGTAGGTTAAAGTGAAT
66 TACTTAGTTTGGAAAAGCTGAGTTGGTGTTGTAAAAGACACTTTTAAAGGTAGGTTAAAGTGAAT
129212589 AGAAGCTGTGCACCAGGTAGGAAACCAGGAAAAAGAGGAGGTGAGTCCGTCGGACTGCTTAAGTA
131 AGAAGCTGTGCACCAGGTAGGAAACCAGGAAAAAGAGGAGGTGAGTCCGTCGGACTGCTTAAGTA
129212654 CCAAGCTCTTCCCGGATCCAATCCTAGACATGCACACCACCATTGCCACACTCTAACATCTCGTA
196 CCAAGCTCTTCCCGGATCCAATCCTAGACATGCACACCACCATTGCCACACTCTAACATCTCGTA
129212719 TAATTTTGAGAAAATCGTTTGATTATGTCCGTCTTAAGAAAATGTTTAAGTTGAAAACGTTTGTT
261 TAATTTTGAGAAAATCGTTTGATTATGTCCGTCTTAAGAAAATGTTTAAGTTGAAAACGTTTGTT
129212784 TAAAATATTTATTTCCTTGGAAAAACATTTACTTTGCGGAAACTTT
326 TAAAATATTTATTTCCTTGGAAAAACATTTACTTTGCGGAAACTTT
129212830 AACCCGGCCTGGACGTTATGACCGGATCTGATGCGCCACATTGATGCGTTCAAAACATTCCGTAT
1 AACCCGGCCTGGACGTTATGACCGGATCTGATGCGCCACATTGATGCGTTCAAAACATTCCGTAT
129212895 TACTTAGTTTGGAAAAGCTGAGTTGGTGTTGTAAAAGACACTTTTAAAGGTAGGTTAAAGTGAAT
66 TACTTAGTTTGGAAAAGCTGAGTTGGTGTTGTAAAAGACACTTTTAAAGGTAGGTTAAAGTGAAT
129212960 AGAAGCTGTGCACCAGGTAGGAAACCAGGAAAAAGAGGAGGTGAGTCCGTCGGACTGCTTAAGTA
131 AGAAGCTGTGCACCAGGTAGGAAACCAGGAAAAAGAGGAGGTGAGTCCGTCGGACTGCTTAAGTA
129213025 CCAAGCTCTTCCCGGATCCAATCCTAGACATGCACACCACCATTGCCACACTCTAACATCTCGTA
196 CCAAGCTCTTCCCGGATCCAATCCTAGACATGCACACCACCATTGCCACACTCTAACATCTCGTA
129213090 TAATTTTGAGAAAATCGTTTGATTATGTCCGTCTTAAGAAAATGTTTAAGTTGAAAACGTTTGTT
261 TAATTTTGAGAAAATCGTTTGATTATGTCCGTCTTAAGAAAATGTTTAAGTTGAAAACGTTTGTT
129213155 TAAAATATTTATTTCCTTGGAAAAACATTTACTTTGCGGAAACTTT
326 TAAAATATTTATTTCCTTGGAAAAACATTTACTTTGCGGAAACTTT
129213201 GCGCGTCATC
Statistics
Matches: 371, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
371 371 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (371 bp):
AACCCGGCCTGGACGTTATGACCGGATCTGATGCGCCACATTGATGCGTTCAAAACATTCCGTAT
TACTTAGTTTGGAAAAGCTGAGTTGGTGTTGTAAAAGACACTTTTAAAGGTAGGTTAAAGTGAAT
AGAAGCTGTGCACCAGGTAGGAAACCAGGAAAAAGAGGAGGTGAGTCCGTCGGACTGCTTAAGTA
CCAAGCTCTTCCCGGATCCAATCCTAGACATGCACACCACCATTGCCACACTCTAACATCTCGTA
TAATTTTGAGAAAATCGTTTGATTATGTCCGTCTTAAGAAAATGTTTAAGTTGAAAACGTTTGTT
TAAAATATTTATTTCCTTGGAAAAACATTTACTTTGCGGAAACTTT
Found at i:129215637 original size:20 final size:20
Alignment explanation
Indices: 129215614--129215651 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
129215604 CACATCCAAA
*
129215614 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
129215634 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
129215652 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:129224407 original size:3 final size:3
Alignment explanation
Indices: 129224388--129224451 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
129224378 GCAAAGACGA
* *
129224388 AAT AAT -AT ATAT GAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
129224433 GAT AAC GAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AA
129224452 ATCATTTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 4 0.08
3 42 0.88
4 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:129224437 original size:15 final size:15
Alignment explanation
Indices: 129224388--129224429 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
129224378 GCAAAGACGA
129224388 AATAAT-ATATATGAT
1 AATAATAATA-ATGAT
129224403 AATAATAATAATGAT
1 AATAATAATAATGAT
129224418 AATAATAATAAT
1 AATAATAATAAT
129224430 AATGATAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 23 0.88
16 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (15 bp):
AATAATAATAATGAT
Found at i:129224443 original size:18 final size:18
Alignment explanation
Indices: 129224403--129224446 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
129224393 TATATATGAT
*
129224403 AATAATAATAATGATAAT
1 AATAATAATAATGATAAC
129224421 AATAATAATAATGATAAC
1 AATAATAATAATGATAAC
*
129224439 GATAATAA
1 AATAATAA
129224447 AATAAATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (18 bp):
AATAATAATAATGATAAC
Found at i:129226371 original size:12 final size:12
Alignment explanation
Indices: 129226335--129226384 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
129226325 AAATGGAAAG
129226335 ATATTTAACTTC
1 ATATTTAACTTC
**
129226347 ATA-TT-ACGAC
1 ATATTTAACTTC
*
129226357 ATATATAACTTC
1 ATATTTAACTTC
129226369 ATATTTAACTTC
1 ATATTTAACTTC
129226381 ATAT
1 ATAT
129226385 GATGATTCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
10 6 0.20
11 3 0.10
12 21 0.70
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (12 bp):
ATATTTAACTTC
Found at i:129226756 original size:10 final size:10
Alignment explanation
Indices: 129226741--129226792 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
129226731 TAATTTTAGG
129226741 ATTTATTTTT
1 ATTTATTTTT
*
129226751 ATTTATCTTT
1 ATTTATTTTT
* *
129226761 AATTATCTTT
1 ATTTATTTTT
*
129226771 ATTTATTTGT
1 ATTTATTTTT
129226781 ATTTATCTTTT
1 ATTTAT-TTTT
129226792 A
1 A
129226793 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:129227527 original size:15 final size:16
Alignment explanation
Indices: 129227507--129227539 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
129227497 TATATATTTT
129227507 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
129227522 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
129227539 T
1 T
129227540 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:129227625 original size:22 final size:22
Alignment explanation
Indices: 129227586--129227644 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
129227576 GTTTTAAGAA
*
129227586 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
129227607 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
129227629 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
129227645 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:129227661 original size:26 final size:24
Alignment explanation
Indices: 129227615--129227663 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
129227605 ATTTGTTTTA
*
129227615 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
129227639 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
129227664 ATTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:129227675 original size:26 final size:26
Alignment explanation
Indices: 129227618--129227676 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
129227608 TGTTTTAATA
*
129227618 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
129227643 TTGATTTATTATATTTTTAAA-ATTTT
1 TTTATTTATTATATTTTTAAATA-TAT
129227669 TTTATTTA
1 TTTATTTA
129227677 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:129235220 original size:17 final size:18
Alignment explanation
Indices: 129235177--129235223 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
129235167 CTATAATTTT
*
129235177 TTTAATTTCTTATTAAAA
1 TTTAATTTATTATTAAAA
* *
129235195 TTTATTTTATTCTTAAAA
1 TTTAATTTATTATTAAAA
129235213 -TTAATTTATTA
1 TTTAATTTATTA
129235224 AATAATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTTATTATTAAAA
Found at i:129242334 original size:18 final size:19
Alignment explanation
Indices: 129242311--129242347 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
129242301 ATTTTTTAAA
129242311 TATAAAT-TTTGAAATTTT
1 TATAAATATTTGAAATTTT
*
129242329 TATAAATATTTTAAATTTT
1 TATAAATATTTGAAATTTT
129242348 GAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGAAATTTT
Found at i:129242357 original size:19 final size:20
Alignment explanation
Indices: 129242316--129242361 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
129242306 TTAAATATAA
*
129242316 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTGATAAAT
129242336 ATTTT-AAATTTTGA-AAATT
1 ATTTTGAAATTTTGATAAA-T
129242355 ATTTTGA
1 ATTTTGA
129242362 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTTTGAAATTTTGATAAAT
Found at i:129244244 original size:2 final size:2
Alignment explanation
Indices: 129244237--129244264 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
129244227 GAGTGACATG
129244237 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129244265 ATAAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:129247356 original size:21 final size:22
Alignment explanation
Indices: 129247333--129247374 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
129247323 AAATTATAAT
*
129247333 AAAATTAACATTTTTTATTTTA
1 AAAAATAACATTTTTTATTTTA
*
129247355 AAAAATATCATTTTTTATTT
1 AAAAATAACATTTTTTATTT
129247375 AACATAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
AAAAATAACATTTTTTATTTTA
Found at i:129259558 original size:3 final size:3
Alignment explanation
Indices: 129259523--129259602 Score: 73
Period size: 3 Copynumber: 28.0 Consensus size: 3
129259513 TCATATTTTC
* * *
129259523 TTA TTA ATA TTC TTG TTA TT- TT- TTA TATA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
129259566 -TA TTA TT- TTA TTA TTA -TA TTA TTA TTA TTA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
129259603 GCTTATGTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
2 12 0.18
3 47 0.72
4 6 0.09
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:129259561 original size:8 final size:8
Alignment explanation
Indices: 129259548--129259596 Score: 80
Period size: 8 Copynumber: 6.0 Consensus size: 8
129259538 TTATTTTTTA
129259548 TATATTAT
1 TATATTAT
129259556 TATATTAT
1 TATATTAT
129259564 TATATTAT
1 TATATTAT
*
129259572 TTTATTAT
1 TATATTAT
129259580 TATATTAT
1 TATATTAT
129259588 TATTATTAT
1 TA-TATTAT
129259597 GTATTAGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
8 32 0.84
9 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TATATTAT
Found at i:129259601 original size:16 final size:15
Alignment explanation
Indices: 129259523--129259602 Score: 73
Period size: 14 Copynumber: 5.6 Consensus size: 15
129259513 TCATATTTTC
* * *
129259523 TTATTAATATTCTTG
1 TTATTATTATTATTA
129259538 TTATT-TT-TTATATA
1 TTATTATTATTAT-TA
129259552 TTATTA-TATTATTA
1 TTATTATTATTATTA
129259566 -TATTATT-TTATTA
1 TTATTATTATTATTA
129259579 TTA-TATTATTATTA
1 TTATTATTATTATTA
129259593 TTATGTATTA
1 TTAT-TATTA
129259603 GCTTATGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
13 18 0.33
14 22 0.41
15 9 0.17
16 5 0.09
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (15 bp):
TTATTATTATTATTA
Found at i:129261995 original size:40 final size:37
Alignment explanation
Indices: 129261902--129262047 Score: 125
Period size: 39 Copynumber: 3.8 Consensus size: 37
129261892 ATTGAATGAT
* * * * *
129261902 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC--G-AGTTAC
* *
129261942 A-CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT---TAC
**
129261981 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTTT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAC
*
129262018 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
129262048 AAATCGTGAT
Statistics
Matches: 88, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
36 2 0.02
37 27 0.31
38 2 0.02
39 30 0.34
40 27 0.31
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (37 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAC
Found at i:129262062 original size:77 final size:78
Alignment explanation
Indices: 129261938--129262124 Score: 180
Period size: 77 Copynumber: 2.4 Consensus size: 78
129261928 ATGCTGGAAA
* * * *
129261938 TTATACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGC
1 TTATACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGC
129262003 ATTCGTGCGAGTT
66 ATTCGTGCGAGTT
* * * * *
129262016 TTAT-CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 TTATACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGG
* * *
129262079 CCTTGGTGCGGGTT
65 CATTCGTGCGAGTT
** * * *
129262093 ACCATAACCGGGCTATGTCCCGAAGGCGATTG
1 -TTAT-ACCGGGCTAAGACCCGAAGGCAATTG
129262125 ATCGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
76 1 0.01
77 59 0.68
78 6 0.07
80 21 0.24
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (78 bp):
TTATACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGC
ATTCGTGCGAGTT
Found at i:129270097 original size:39 final size:39
Alignment explanation
Indices: 129270004--129270179 Score: 171
Period size: 39 Copynumber: 4.5 Consensus size: 39
129269994 AAATTGAATG
* * * *
129270004 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAAT-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT--AGTGTT
* *
129270044 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
129270083 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTT
* * * * *
129270122 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-GTT
*
129270162 ATATCCGGG-TAAGTCCCG
1 ATATCCGGGCTAAGACCCG
129270180 TTGGCCTTGG
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 7 0.06
39 67 0.58
40 42 0.36
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
Found at i:129271932 original size:2 final size:2
Alignment explanation
Indices: 129271925--129271966 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
129271915 TATTAGTTGG
*
129271925 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129271967 CATCTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:129286990 original size:275 final size:276
Alignment explanation
Indices: 129286493--129287003 Score: 895
Period size: 275 Copynumber: 1.9 Consensus size: 276
129286483 AATTGGAGGG
129286493 ATGTTAGACTTTCAAGGGCAGATATATTTCCAGAGAACTGATCAGAAGAGAGGTCCAAAGATTCA
1 ATGTTAGACTTTCAAGGGCAGATATATTTCCAGAGAACTGATCAGAAGAGAGGTCCAAAGATTCA
129286558 AGCAATGTTAGGCTTTGAAGGGCAGATATATTTCCAAAGAACTGATTGGAAGAGAGGTCCAAAGA
66 AGCAATGTTAGGCTTTGAAGGGCAGATATATTTCCAAAGAACTGATTGGAAGAGAGGTCCAAAGA
*
129286623 TTCAAGCAATGTTAGGCTCTTAAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCA
131 TTCAAGCAATGTTAGGCTCTTAAGGGCAAATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCA
* *
129286688 AATATTCAAGCAATGTTAGGCTCTTAAGG-GAGATATATTTCCAGAGAACTGATTGGAAGAGAGG
196 AAGATTCAAGCAATGTTAGGCTCTTAAGGACAGATATATTTCCAGAGAACTGATTGGAAGAGAGG
129286752 TCCAAAGATTCAAGCA
261 TCCAAAGATTCAAGCA
* **
129286768 ATGTTAGGCTCTT-AAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTC
1 ATGTTAGACT-TTCAAGGGCAGATATATTTCCAGAGAACTGATCAGAAGAGAGGTCCAAAGATTC
*
129286832 AAGCAATGTTAGGCTCTT-AAGGGCAGATATACTTT-CAGAGAACTGATTGGAAGAGAGGTCCAA
65 AAGCAATGTTAGGCT-TTGAAGGGCAGATATA-TTTCCAAAGAACTGATTGGAAGAGAGGTCCAA
129286895 AGATTCAAGCAATGTTAGGCTCTTAAGGGCAAATATATTTCCAGAGAACTGATTGGAAGAGAGGT
128 AGATTCAAGCAATGTTAGGCTCTTAAGGGCAAATATATTTCCAGAGAACTGATTGGAAGAGAGGT
*
129286960 CCAAAGATTCAAGCAATGTTAGGTTCTTAAGGACAGATATATTT
193 CCAAAGATTCAAGCAATGTTAGGCTCTTAAGGACAGATATATTT
129287004 TCGAAAAGTT
Statistics
Matches: 224, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
275 207 0.92
276 17 0.08
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (276 bp):
ATGTTAGACTTTCAAGGGCAGATATATTTCCAGAGAACTGATCAGAAGAGAGGTCCAAAGATTCA
AGCAATGTTAGGCTTTGAAGGGCAGATATATTTCCAAAGAACTGATTGGAAGAGAGGTCCAAAGA
TTCAAGCAATGTTAGGCTCTTAAGGGCAAATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCA
AAGATTCAAGCAATGTTAGGCTCTTAAGGACAGATATATTTCCAGAGAACTGATTGGAAGAGAGG
TCCAAAGATTCAAGCA
Found at i:129287018 original size:69 final size:69
Alignment explanation
Indices: 129286493--129287003 Score: 895
Period size: 69 Copynumber: 7.4 Consensus size: 69
129286483 AATTGGAGGG
* **
129286493 ATGTTAGACT-TTCAAGGGCAGATATATTTCCAGAGAACTGATCAGAAGAGAGGTCCAAAGATTC
1 ATGTTAGGCTCTT-AAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTC
129286557 AAGCA
65 AAGCA
*
129286562 ATGTTAGGCT-TTGAAGGGCAGATATATTTCCAAAGAACTGATTGGAAGAGAGGTCCAAAGATTC
1 ATGTTAGGCTCTT-AAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTC
129286626 AAGCA
65 AAGCA
*
129286631 ATGTTAGGCTCTTAAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAATATTCA
1 ATGTTAGGCTCTTAAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTCA
129286696 AGCA
66 AGCA
129286700 ATGTTAGGCTCTTAAGGG-AGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTCA
1 ATGTTAGGCTCTTAAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTCA
129286764 AGCA
66 AGCA
129286768 ATGTTAGGCTCTTAAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTCA
1 ATGTTAGGCTCTTAAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTCA
129286833 AGCA
66 AGCA
129286837 ATGTTAGGCTCTTAAGGGCAGATATACTTT-CAGAGAACTGATTGGAAGAGAGGTCCAAAGATTC
1 ATGTTAGGCTCTTAAGGGCAGATATA-TTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTC
129286901 AAGCA
65 AAGCA
*
129286906 ATGTTAGGCTCTTAAGGGCAAATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTCA
1 ATGTTAGGCTCTTAAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTCA
129286971 AGCA
66 AGCA
* *
129286975 ATGTTAGGTTCTTAAGGACAGATATATTT
1 ATGTTAGGCTCTTAAGGGCAGATATATTT
129287004 TCGAAAAGTT
Statistics
Matches: 426, Mismatches: 12, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
68 70 0.16
69 351 0.82
70 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (69 bp):
ATGTTAGGCTCTTAAGGGCAGATATATTTCCAGAGAACTGATTGGAAGAGAGGTCCAAAGATTCA
AGCA
Found at i:129294267 original size:22 final size:22
Alignment explanation
Indices: 129294242--129294299 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
129294232 CATGAAGCAA
129294242 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
129294264 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
129294286 TCCCATACCTCCAC
1 CCCCATACCCCCAC
129294300 AGTCCTCGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.55, G:0.03, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Done.