Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold381
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: 1193157
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:282343 original size:24 final size:23
Alignment explanation
Indices: 282286--282348 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
282276 AAATTTATAT
**
282286 AATATAAATACTAATTTTAAAATT
1 AATATAAATA-TAATTTTAAAAAA
*
282310 TATATAAAATATAATTTATAAAAAA
1 AATAT-AAATATAATTT-TAAAAAA
*
282335 AATATAAATCTAAT
1 AATATAAATATAAT
282349 ATATCCAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (23 bp):
AATATAAATATAATTTTAAAAAA
Found at i:283073 original size:106 final size:106
Alignment explanation
Indices: 282888--283086 Score: 326
Period size: 106 Copynumber: 1.9 Consensus size: 106
282878 TGTTGCGATG
* * * * *
282888 ATTATTTAAATCTCTTAAAAACTAAAGCGATATAACTCATATTTTAATTTTTTGTATAAAAATAC
1 ATTATTTAAATATCTTAAAAACTAAAGCCACATAACTCAGATTTTAATTTTTTGCATAAAAATAC
282953 TTTGCATTTTATTTTATAACATGGTTTTATGCATCACAGTC
66 TTTGCATTTTATTTTATAACATGGTTTTATGCATCACAGTC
* * *
282994 ATTATTTAAATATTTTAAAGACTAAAGCCACATAACTTAGATTTTAATTTTTTGCATAAAAATAC
1 ATTATTTAAATATCTTAAAAACTAAAGCCACATAACTCAGATTTTAATTTTTTGCATAAAAATAC
283059 TTTGCATTTTATTTTATAACATGGTTTT
66 TTTGCATTTTATTTTATAACATGGTTTT
283087 GTGCGATCTA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 85 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (106 bp):
ATTATTTAAATATCTTAAAAACTAAAGCCACATAACTCAGATTTTAATTTTTTGCATAAAAATAC
TTTGCATTTTATTTTATAACATGGTTTTATGCATCACAGTC
Found at i:286502 original size:10 final size:10
Alignment explanation
Indices: 286487--286514 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
286477 GTAATTTGAA
286487 ATACATTTTT
1 ATACATTTTT
286497 ATACATTTTT
1 ATACATTTTT
286507 ATACATTT
1 ATACATTT
286515 AAAAAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (10 bp):
ATACATTTTT
Found at i:287329 original size:2 final size:2
Alignment explanation
Indices: 287322--287365 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
287312 AGATAAGAAA
287322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
287364 AT
1 AT
287366 CCATGAGCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:287792 original size:20 final size:20
Alignment explanation
Indices: 287767--287809 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
287757 ATTAGATCCA
287767 ATTTATGTT-TTTTCCTATTT
1 ATTTAT-TTATTTTCCTATTT
*
287787 ATTTATTTATTTTTCTATTT
1 ATTTATTTATTTTCCTATTT
287807 ATT
1 ATT
287810 ACTTATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (20 bp):
ATTTATTTATTTTCCTATTT
Found at i:288078 original size:17 final size:17
Alignment explanation
Indices: 288050--288093 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
288040 TTTTGTTTAC
*
288050 TATTTATTTTATATGAATT
1 TATTTATTATAT-TG-ATT
288069 TATTTATTATATTGATT
1 TATTTATTATATTGATT
288086 TATTTATT
1 TATTTATT
288094 TTTCTATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.46
18 2 0.08
19 11 0.46
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
TATTTATTATATTGATT
Found at i:288793 original size:38 final size:37
Alignment explanation
Indices: 288728--288913 Score: 178
Period size: 38 Copynumber: 4.9 Consensus size: 37
288718 ACAAGCTATG
288728 AACAAAAACCACTATT-TTACACCGGTGGCACGGTTCGA
1 AACAAAAACCACTATTCTTA-ACCGGTGGCACGGTTC-A
* * *
288766 AACGAAAACCACTATTCTAAACTGGTGGCACGGTTCA
1 AACAAAAACCACTATTCTTAACCGGTGGCACGGTTCA
* * * *
288803 ATACAAAAACCATTGTTCTTATCC-GTGGCACGATTCA
1 A-ACAAAAACCACTATTCTTAACCGGTGGCACGGTTCA
* * * * *
288840 TTACGAAAACCACTATTCTTATCTGGTAGCACGGTTCA
1 -AACAAAAACCACTATTCTTAACCGGTGGCACGGTTCA
* * *
288878 ATATAAAAATCACTATTTTTAACCGGTGGCACGGTT
1 A-ACAAAAACCACTATTCTTAACCGGTGGCACGGTT
288914 TGAAACCGGT
Statistics
Matches: 118, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
37 32 0.27
38 84 0.71
39 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (37 bp):
AACAAAAACCACTATTCTTAACCGGTGGCACGGTTCA
Found at i:292093 original size:16 final size:16
Alignment explanation
Indices: 292074--292125 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
292064 TCAGGTTCAA
292074 GTTATTTCGGTTTTGG
1 GTTATTTCGGTTTTGG
*
292090 GTTATTTTGGTTTTGG
1 GTTATTTCGGTTTTGG
* *
292106 G-TCTTTCTGGGTTTGG
1 GTTATTTC-GGTTTTGG
292122 GTTA
1 GTTA
292126 ATCATGTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 4 0.14
16 24 0.83
17 1 0.03
ACGTcount: A:0.06, C:0.06, G:0.33, T:0.56
Consensus pattern (16 bp):
GTTATTTCGGTTTTGG
Found at i:294657 original size:261 final size:259
Alignment explanation
Indices: 293896--294883 Score: 899
Period size: 261 Copynumber: 3.8 Consensus size: 259
293886 TTTCCTTCTT
* * * *
293896 GAAAATATTATACCTAAAGATTGTTTTTTACTTAAAAGCAGAGATAGCATATTTT-TCAGCTTGC
1 GAAAATATTATACCTAAGGATTGTTCTTTACTTAAATGCAAAGATAGCATATTTTCTC-GCTTGC
* * * * * ** * *
293960 AAAATTGGTAATTAACATTTTGCACTTGAGGATTATTCTATTTTTTCGGTACAAATGAGGTTGTA
65 AAAATTGGTAATTAACATGTTGCACCTAAGGATTATTTTTTTTTTTTAGTACAAATGAGGCTATA
* * * * * *
294025 GCTTGGGGATAGTGA-AAACATTACAGATACTAAGATTTGAACTTCAAACTTGTTGCATACTACT
130 GCTTGGGGATAG-GAGAAAGATTGCAAATGCTAAGATTTGAACTTCAAACTTGTTGCATGCCACT
* ** * *
294089 ATGGCTACATGAATCAACTGAGCTAAACTTTGAGTTCA-TCAAAAGAAAATATTTTGCTTACTTA
194 ATGGCTACATGAATCAACTAAATTAAACTCTGAGTTCACT-AAAAGAAAATATTTTCCTTACTTA
294153 AG
258 AG
* * * * * *
294155 AAAAATATTATACCTAATGATTGTTCTCTACTTAAATGCAAAGATAGCATGTGTTCTAGCTTGCA
1 GAAAATATTATACCTAAGGATTGTTCTTTACTTAAATGCAAAGATAGCATATTTTCTCGCTTGCA
* * * *
294220 AATTTGAGTAATTAACATCTTGCACCTAAGGATTA--TTCTTTTTTTAGTACAAATGAGGCTGTA
66 AAATTG-GTAATTAACATGTTGCACCTAAGGATTATTTTTTTTTTTTAGTACAAATGAGGCTATA
* * * ** * * * *
294283 ACTT-TGG-TAAGTTAAAGGTTGCAAATGCTAAGATTT-AGAC-TCTAAACTTGCTGGATGCCAT
130 GCTTGGGGATAGGAGAAAGATTGCAAATGCTAAGATTTGA-ACTTC-AAACTTGTTGCATGCCAC
* * * * * * *
294344 TATGGCTATATGAACCAACTCATTTAAATTCTGATTTCACTAAAAAAAAATATTTTCCTTACTTA
193 TATGGCTACATGAATCAACTAAATTAAACTCTGAGTTCACTAAAAGAAAATATTTTCCTTACTTA
294409 AG
258 AG
* * * * *
294411 GAAAATGTTATACATAAGGATTGTTTTTTACTTGAATGCAAAGAGAGCATATTTTCTCGCTTGCA
1 GAAAATATTATACCTAAGGATTGTTCTTTACTTAAATGCAAAGATAGCATATTTTCTCGCTTGCA
* * * *
294476 AAATTGGTACTTAACATGTTGCACCTAAGGATTATTTTTTTCTTTTTTGGAACAAATAAGGCTAT
66 AAATTGGTAATTAACATGTTGCACCTAAGGATTA-TTTTTT-TTTTTTAGTACAAATGAGGCTAT
* * * *
294541 AGCATGGGGTTAGGAGAAAGATTGCAAATGCTAGGATTTGAA-TGCTAAACTTGTTGCATGCCAC
129 AGCTTGGGGATAGGAGAAAGATTGCAAATGCTAAGATTTGAACTTC-AAACTTGTTGCATGCCAC
** ** * * *
294605 TATGGCTACATGAATCAACTAAATTAAACTCCAAGTTCACTTGAAGAAAATATTTTTCTTATTTT
193 TATGGCTACATGAATCAACTAAATTAAACTCTGAGTTCACTAAAAGAAAATATTTTCCTTACTTA
294670 AG
258 AG
* * * *
294672 GAAAATATTATTCTTAAGGATTATTCTTTA-TTCAAA--CATAGAGATAGCATATTTTCGT-ACT
1 GAAAATATTATACCTAAGGATTGTTCTTTACTT-AAATGCA-A-AGATAGCATATTTTC-TCGCT
* * * * * *
294733 TGAAAAATTAGTAATTAACACGATGCACTTGAGGATTATTCTTTTTTTTTTAAGTACAAATGAGG
62 TGCAAAATTGGTAATTAACATGTTGCACCTAAGGATTATT-TTTTTTTTTT-AGTACAAATGAGG
* * * * * ** *
294798 CTATAGCTTAGAGATAGG-GAAAAGATTGTAAATGTTAGGATTCAAACTTCAAACCTGTTGCATG
125 CTATAGCTTGGGGATAGGAG-AAAGATTGCAAATGCTAAGATTTGAACTTCAAACTTGTTGCATG
* ** *
294862 CCATTATAACTACATAAATCAA
189 CCACTATGGCTACATGAATCAA
294884 TTGAGCTAAA
Statistics
Matches: 588, Mismatches: 119, Indels: 42
0.79 0.16 0.06
Matches are distributed among these distances:
255 30 0.05
256 149 0.25
257 3 0.01
258 29 0.05
259 83 0.14
260 40 0.07
261 250 0.43
262 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (259 bp):
GAAAATATTATACCTAAGGATTGTTCTTTACTTAAATGCAAAGATAGCATATTTTCTCGCTTGCA
AAATTGGTAATTAACATGTTGCACCTAAGGATTATTTTTTTTTTTTAGTACAAATGAGGCTATAG
CTTGGGGATAGGAGAAAGATTGCAAATGCTAAGATTTGAACTTCAAACTTGTTGCATGCCACTAT
GGCTACATGAATCAACTAAATTAAACTCTGAGTTCACTAAAAGAAAATATTTTCCTTACTTAAG
Found at i:303590 original size:19 final size:19
Alignment explanation
Indices: 303550--303590 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
303540 GTAAGGTTAT
* * *
303550 TTAGGGATTTAAATTGTGG
1 TTAGAGATTTAAATTATAG
303569 TTAGAGATTTAAATTATAG
1 TTAGAGATTTAAATTATAG
303588 TTA
1 TTA
303591 TGGATATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (19 bp):
TTAGAGATTTAAATTATAG
Found at i:306126 original size:71 final size:71
Alignment explanation
Indices: 306036--306168 Score: 173
Period size: 71 Copynumber: 1.9 Consensus size: 71
306026 AAAATATTAT
* * *
306036 ACCTAAGGATTATCTTTTACTTAAACT-TAGAGATAGCGTATTTT-TCAACTTGTAAAATTGGTA
1 ACCTAAGGATTATCTTTTACTTAAA-TGCAGAGATAGCATATTTTCTC-ACTTGCAAAATTGGTA
306099 GTTATTGA
64 GTTATTGA
* *
306107 ACCTAAGTATTAT-TCTTTACTTATATGCAGAGATAGCATATTTTCTCACTTGCAAAATTGGT
1 ACCTAAGGATTATCT-TTTACTTAAATGCAGAGATAGCATATTTTCTCACTTGCAAAATTGGT
306169 TGCTACTAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
70 2 0.04
71 50 0.93
72 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (71 bp):
ACCTAAGGATTATCTTTTACTTAAATGCAGAGATAGCATATTTTCTCACTTGCAAAATTGGTAGT
TATTGA
Found at i:312211 original size:15 final size:16
Alignment explanation
Indices: 312191--312221 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
312181 TTCAGATTAT
312191 TTTCGA-TTTGGATCA
1 TTTCGAGTTTGGATCA
312206 TTTCGAGTTTGGATCA
1 TTTCGAGTTTGGATCA
312222 ATCGAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (16 bp):
TTTCGAGTTTGGATCA
Found at i:312349 original size:16 final size:16
Alignment explanation
Indices: 312328--312376 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
312318 TTAATTATTC
312328 AGGTCAATTT-AAGTTT
1 AGGTC-ATTTCAAGTTT
312344 AGGTCATTTCAAGTTT
1 AGGTCATTTCAAGTTT
* *
312360 AAGTTATTTCAAGTTT
1 AGGTCATTTCAAGTTT
312376 A
1 A
312377 AATCATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (16 bp):
AGGTCATTTCAAGTTT
Found at i:312377 original size:16 final size:16
Alignment explanation
Indices: 312334--312384 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
312324 ATTCAGGTCA
*
312334 ATTT-AAGTTTAGGTC
1 ATTTCAAGTTTAAGTC
*
312349 ATTTCAAGTTTAAGTT
1 ATTTCAAGTTTAAGTC
*
312365 ATTTCAAGTTTAAATC
1 ATTTCAAGTTTAAGTC
312381 ATTT
1 ATTT
312385 TGAATTCTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 4 0.13
16 27 0.87
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (16 bp):
ATTTCAAGTTTAAGTC
Found at i:312968 original size:21 final size:21
Alignment explanation
Indices: 312944--312985 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
312934 AAAAATTATT
*
312944 TTTATA-TTAATATTTATATAA
1 TTTATATTTAA-ATTTAAATAA
312965 TTTATATTTAAATTTAAATAA
1 TTTATATTTAAATTTAAATAA
312986 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATATTTAAATTTAAATAA
Found at i:313833 original size:19 final size:19
Alignment explanation
Indices: 313809--313887 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 19
313799 ATGATATGAA
313809 TAAAATATAAAAAAATAAT
1 TAAAATATAAAAAAATAAT
*
313828 T-AAA-AT-AAAATATAA-
1 TAAAATATAAAAAAATAAT
* ** * *
313843 TAAAAAATAATGATATAAA
1 TAAAATATAAAAAAATAAT
313862 TAAAATATAAAAAAATAAT
1 TAAAATATAAAAAAATAAT
313881 TAAAATA
1 TAAAATA
313888 AAATATAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
15 1 0.02
16 11 0.23
17 4 0.08
18 10 0.21
19 22 0.46
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (19 bp):
TAAAATATAAAAAAATAAT
Found at i:313834 original size:24 final size:26
Alignment explanation
Indices: 313807--313906 Score: 145
Period size: 24 Copynumber: 3.9 Consensus size: 26
313797 ACATGATATG
313807 AATAAAATAT-A-AAAAAATAATTAA
1 AATAAAATATAATAAAAAATAATTAA
313831 AATAAAATATAATAAAAAATAATGATATA
1 AATAAAATATAATAAAAAATAAT--TA-A
313860 AATAAAATAT-A-AAAAAATAATTAA
1 AATAAAATATAATAAAAAATAATTAA
313884 AATAAAATATAATAAAAAATAAT
1 AATAAAATATAATAAAAAATAAT
313907 ATGAATACGA
Statistics
Matches: 69, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
24 21 0.30
25 4 0.06
26 20 0.29
27 10 0.14
28 3 0.04
29 11 0.16
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (26 bp):
AATAAAATATAATAAAAAATAATTAA
Found at i:313849 original size:29 final size:29
Alignment explanation
Indices: 313807--313907 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 29
313797 ACATGATATG
* *
313807 AATAAAATATAAAAAAATAATTAAAATAA
1 AATATAATAAAAAAAAATAATTAAAATAA
* *
313836 AATATAATAAAAAATAATGA-TATAAAT-A
1 AATATAATAAAAAAAAATAATTA-AAATAA
313864 AA-AT-AT--AAAAAAATAATTAAAATAA
1 AATATAATAAAAAAAAATAATTAAAATAA
*
313889 AATATAATAAAAAATAATA
1 AATATAATAAAAAAAAATA
313908 TGAATACGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
24 12 0.21
25 5 0.09
26 4 0.07
27 4 0.07
28 5 0.09
29 28 0.48
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (29 bp):
AATATAATAAAAAAAAATAATTAAAATAA
Found at i:313864 original size:53 final size:53
Alignment explanation
Indices: 313799--313906 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
313789 TATTTTAGAC
*
313799 ATGATATGAATAAAATATAAAAAAATAATTAAAATAAAATATAATAAAAAATA
1 ATGATATAAATAAAATATAAAAAAATAATTAAAATAAAATATAATAAAAAATA
313852 ATGATATAAATAAAATATAAAAAAATAATTAAAATAAAATATAATAAAAAATA
1 ATGATATAAATAAAATATAAAAAAATAATTAAAATAAAATATAATAAAAAATA
313905 AT
1 AT
313907 ATGAATACGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (53 bp):
ATGATATAAATAAAATATAAAAAAATAATTAAAATAAAATATAATAAAAAATA
Found at i:313947 original size:14 final size:14
Alignment explanation
Indices: 313930--313981 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
313920 AAATATTAAA
313930 ATATATTAAAATTT
1 ATATATTAAAATTT
313944 ATATATTAGAAATTATT
1 ATATATTA-AAA-T-TT
* *
313961 AATAAATCAAAATTT
1 -ATATATTAAAATTT
313976 ATATAT
1 ATATAT
313982 AACCTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 13 0.42
15 5 0.16
16 2 0.06
17 5 0.16
18 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:320113 original size:2 final size:2
Alignment explanation
Indices: 320106--320130 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
320096 AACCATTTAT
320106 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
320131 TTTATGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:325130 original size:20 final size:20
Alignment explanation
Indices: 325105--325150 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
325095 AAGAATTGAA
*
325105 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
325125 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
325145 GAGGGA
1 GAGGGA
325151 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:325288 original size:27 final size:28
Alignment explanation
Indices: 325232--325296 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
325222 AGCCTTCATA
325232 TTTGACAAATCCAAAGAAAACCACCATT
1 TTTGACAAATCCAAAGAAAACCACCATT
*
325260 TTTGACAAA-CACAAA-ATAACCACCATT
1 TTTGACAAATC-CAAAGAAAACCACCATT
325287 TTTGACAAAT
1 TTTGACAAAT
325297 AAATGGGTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 21 0.62
28 13 0.38
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.25
Consensus pattern (28 bp):
TTTGACAAATCCAAAGAAAACCACCATT
Found at i:330121 original size:13 final size:13
Alignment explanation
Indices: 330103--330127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
330093 ATTGTATAAC
330103 AACTATATTTTAG
1 AACTATATTTTAG
330116 AACTATATTTTA
1 AACTATATTTTA
330128 AATTTAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
AACTATATTTTAG
Found at i:331165 original size:259 final size:257
Alignment explanation
Indices: 330422--331297 Score: 773
Period size: 258 Copynumber: 3.4 Consensus size: 257
330412 TTTCCTTGCT
* * * * *
330422 GAAAATATTATACTTAAGGATTATTCTTTATTTAAATACAAAGATAGCATATTTTTCAACTGGCA
1 GAAAATATTATACCTAAGGATTATTCTTTACTTAAACACAAAGATAGCATATTTCTCACCT-GCA
* * * * * *
330487 AAATTAGTAGTTAACAC-TTGCATCTAAAGAGTT-TTCTATTTTTTTGGTATAAATGAGGTTGTA
65 AAATTGGTAATTAACACATTGCACCTAAGGA-TTATTCTTTTTTTTTAGTATAAATGAGGTTGTA
** * * * *
330550 GCTTGAAGATAAGAGAAAGGTTATAAATATTAGTATTTGAATTCTAGACTT-ATTGTATGTCACT
129 GCTTGGGGATAAGAGAAATGTTATAGATGTTAGGATTTGAATTCTAGACTTGA-TGTATGTCACT
** * * * * ** * *
330614 ATGATTATATGAATCAATTAAGTTAAATTTCGAA-TTCAAGAAAAAAAAATATTTTTCTTACTTA
193 ATGGCTACATGAACCAATTAAGTTAAA-CTCTAAGTTCACCAAAAGAAAATATTTTTCTTATTTA
330678 A
257 A
* * ** * * * * *
330679 GGAAAATATTATAACGAACTACTATTCTCTACTTGAACACAAAGATAACATATTGTCT-AGCTTG
1 -GAAAATATTATACCTAAGGATTATTCTTTACTTAAACACAAAGATAGCATATT-TCTCA-CCTG
* * * * * * * * *
330743 CAAAATTGTTAATTAACACATTGCCCCAAAGAATTATTC-TTTATATTAGTATAAATTAGGCTAT
63 CAAAATTGGTAATTAACACATTGCACCTAAGGATTATTCTTTTTTTTTAGTATAAATGAGGTTGT
* * * * * * * * * * *
330807 AGCTTAGGAATAAGAAAAATGTTACAGATGTTAAGATTT-AACTT-TAAACTCGTTGGATGCCAT
128 AGCTTGGGGATAAGAGAAATGTTATAGATGTTAGGATTTGAA-TTCTAGACTTGATGTATGTCAC
* * * *
330870 TATGGCTACATGAACTAACTAAGTTAAACTCTAAGTTTACCAAAAGAAAATATTTTCCTTATTTA
192 TATGGCTACATGAACCAATTAAGTTAAACTCTAAGTTCACCAAAAGAAAATATTTTTCTTATTTA
330935 A
257 A
330936 GAAAACTATTATACCTAAGGATTATTCTTTACTTAAACACAAAGATAGCATATTTCTCACCTGCA
1 GAAAA-TATTATACCTAAGGATTATTCTTTACTTAAACACAAAGATAGCATATTTCTCACCTGCA
* ** * *
331001 AAATTGGTACTTAACACATTAAACCTAAGGATTATTCTTTTTTTTCTAGTACAAATGAGATTGTA
65 AAATTGGTAATTAACACATTGCACCTAAGGATTATTCTTTTTTTT-TAGTATAAATGAGGTTGTA
* * * * * * *
331066 GCATGGGGTTAGGAGAAATGTTATAGATGTTGGGATTTGAATTCCAGACTTGATGTATATCACAA
129 GCTTGGGGATAAGAGAAATGTTATAGATGTTAGGATTTGAATTCTAGACTTGATGTATGTCACTA
* ** *
331131 TGGCTACATGAACCAATTGAGTTAAACTCTAAGTTCACCTGAGGAAAATATTTTTCTT-TCTTAA
194 TGGCTACATGAACCAATTAAGTTAAACTCTAAGTTCACCAAAAGAAAATATTTTTCTTAT-TT-A
331195 A
257 A
* * * * * * * *
331196 GAAAGTATTATATCAAAGGATTATTCTTTATTTAAACATAGAGATAGCATATTTTTC-CTATTGC
1 GAAAATATTATACCTAAGGATTATTCTTTACTTAAACACAAAGATAGCATATTTCTCAC--CTGC
* * *
331260 AATATTGGTAATTAACAAATTGCACCTAAAGATTATTC
64 AAAATTGGTAATTAACACATTGCACCTAAGGATTATTC
331298 CATACGTAAA
Statistics
Matches: 478, Mismatches: 123, Indels: 32
0.76 0.19 0.05
Matches are distributed among these distances:
256 47 0.10
257 107 0.22
258 157 0.33
259 126 0.26
260 41 0.09
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (257 bp):
GAAAATATTATACCTAAGGATTATTCTTTACTTAAACACAAAGATAGCATATTTCTCACCTGCAA
AATTGGTAATTAACACATTGCACCTAAGGATTATTCTTTTTTTTTAGTATAAATGAGGTTGTAGC
TTGGGGATAAGAGAAATGTTATAGATGTTAGGATTTGAATTCTAGACTTGATGTATGTCACTATG
GCTACATGAACCAATTAAGTTAAACTCTAAGTTCACCAAAAGAAAATATTTTTCTTATTTAA
Found at i:331716 original size:28 final size:28
Alignment explanation
Indices: 331652--331706 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
331642 CAAATGCCAC
*
331652 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAAAATGGTGGTTT
331680 CCTTTGTATTTGTCAAAAATGGTGGTT
1 CCTTTGTATTTGTCAAAAATGGTGGTT
331707 ATTTTTGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAAAATGGTGGTTT
Found at i:336294 original size:28 final size:28
Alignment explanation
Indices: 336230--336284 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
336220 CAAATGCCAC
336230 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
336258 CCTTTGTATTTGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
336285 ATTTTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:336325 original size:24 final size:24
Alignment explanation
Indices: 336266--336334 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
336256 TTCCTTTGTA
* * *
336266 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
* *
336292 TATGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
336316 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
336335 AATTTTTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 21 0.60
26 14 0.40
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:340241 original size:231 final size:229
Alignment explanation
Indices: 339808--340271 Score: 831
Period size: 231 Copynumber: 2.0 Consensus size: 229
339798 CTGTCATTTG
*
339808 TGATCTCTTTGTTATATTTTAAGACAAATTCTAAAAATGTCCTCGTATGTTTTAAAATTAAGTTT
1 TGATATCTTTGTTATATTTTAAGACAAATTCTAAAAATGTCCTCGTATGTTTTAAAATTAAGTTT
339873 TATATTTGACGCATGGACCGTTAGTGTCTTAGATTTTCACTACGTTCTTGTATTGAATAAATTAG
66 TATATTTGACGCATGGACCGTTAGTGTCTTAGATTTTCACTACGTTCTTGTATTGAATAAATTAG
* * * *
339938 ATTTTTAATCTTTAATTTGTGATCTCTTTATTGTTTCTTAAGGCTAAAATATTAAAAAAATCCTC
131 ATTTTTAATCTTTAATTCGTAATCTCTTTATTGTTTCTTAAAGCTAAAATACTAAAAAAATCCTC
*
340003 GTATATTTTAAAATTATATTTATATTTAATGCAT
196 ATATATTTTAAAATTATATTTATATTTAATGCAT
340037 TGATATCTTTGTTATATTTTAAGACTAAAATTCTAAAAAAT-TCCTCGTATGTTTTAAAATTAAG
1 TGATATCTTTGTTATATTTTAAGAC--AAATTCT-AAAAATGTCCTCGTATGTTTTAAAATTAAG
*
340101 TTTTATATTTGACGCATGGACCGTTTGTGTCTTAGATTTTCACTACGTTCTTGTATTGAATAAAT
63 TTTTATATTTGACGCATGGACCGTTAGTGTCTTAGATTTTCACTACGTTCTTGTATTGAATAAAT
340166 TAGATTTTTAATCTTTAATTCGTAATCTCTTTATTGTTTCTTAAAGCTAAAATACTAAAAAAATC
128 TAGATTTTTAATCTTTAATTCGTAATCTCTTTATTGTTTCTTAAAGCTAAAATACTAAAAAAATC
340231 CTCATATATTTTAAAATTATATTTATATTTAATGCAT
193 CTCATATATTTTAAAATTATATTTATATTTAATGCAT
340268 TGAT
1 TGAT
340272 CATCCGTGAA
Statistics
Matches: 225, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
229 24 0.11
231 195 0.87
232 6 0.03
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (229 bp):
TGATATCTTTGTTATATTTTAAGACAAATTCTAAAAATGTCCTCGTATGTTTTAAAATTAAGTTT
TATATTTGACGCATGGACCGTTAGTGTCTTAGATTTTCACTACGTTCTTGTATTGAATAAATTAG
ATTTTTAATCTTTAATTCGTAATCTCTTTATTGTTTCTTAAAGCTAAAATACTAAAAAAATCCTC
ATATATTTTAAAATTATATTTATATTTAATGCAT
Found at i:342394 original size:21 final size:21
Alignment explanation
Indices: 342369--342409 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
342359 GCTTATAAGC
342369 TTGGTG-AATAGTATAATTTTT
1 TTGGTGTAATA-TATAATTTTT
*
342390 TTGGTGTAATATTTAATTTT
1 TTGGTGTAATATATAATTTT
342410 AGAATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (21 bp):
TTGGTGTAATATATAATTTTT
Found at i:345854 original size:37 final size:37
Alignment explanation
Indices: 345813--345918 Score: 158
Period size: 37 Copynumber: 2.9 Consensus size: 37
345803 TCAGTTTCAA
*
345813 CCATGCCATCGATTAGAATAGTGGTTTTTGTTTTGAT
1 CCATGCCATCGATAAGAATAGTGGTTTTTGTTTTGAT
* *
345850 CCATGCCATCGGTAAGAATAGTGATTTTTGTTTTGAT
1 CCATGCCATCGATAAGAATAGTGGTTTTTGTTTTGAT
* * *
345887 CTATGCCACCGATAAGAATAATGGTTTTTGTT
1 CCATGCCATCGATAAGAATAGTGGTTTTTGTT
345919 CTAAGCGGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.41
Consensus pattern (37 bp):
CCATGCCATCGATAAGAATAGTGGTTTTTGTTTTGAT
Found at i:347072 original size:33 final size:33
Alignment explanation
Indices: 347035--347101 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
347025 TTCAATGATT
347035 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
347068 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
347101 T
1 T
347102 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:347073 original size:13 final size:13
Alignment explanation
Indices: 347055--347079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
347045 CATAAAATGT
347055 TGTATCGATACAA
1 TGTATCGATACAA
347068 TGTATCGATACA
1 TGTATCGATACA
347080 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:347160 original size:13 final size:13
Alignment explanation
Indices: 347142--347166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
347132 ATTACTCAAA
347142 TGTATCGATACAT
1 TGTATCGATACAT
347155 TGTATCGATACA
1 TGTATCGATACA
347167 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:347231 original size:52 final size:52
Alignment explanation
Indices: 347175--347294 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
347165 CACCGATCTT
* *
347175 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
347227 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
347279 TGTATCGATACATGCA
1 TGTATCGATACATGCA
347295 AGTAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:355195 original size:21 final size:21
Alignment explanation
Indices: 355171--355211 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
355161 ATAATGTTTT
*
355171 GATACATTGCAAGCATGTATC
1 GATACATTACAAGCATGTATC
*
355192 GATACATTATAAGCATGTAT
1 GATACATTACAAGCATGTAT
355212 ATTACAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (21 bp):
GATACATTACAAGCATGTATC
Found at i:355299 original size:20 final size:20
Alignment explanation
Indices: 355276--355317 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
355266 GATTTCATGC
* *
355276 ATGTATTGATACATTCACTT
1 ATGTAGTGATACATTAACTT
*
355296 ATGTAGTGATATATTAACTT
1 ATGTAGTGATACATTAACTT
355316 AT
1 AT
355318 TATATCGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
ATGTAGTGATACATTAACTT
Found at i:360693 original size:142 final size:142
Alignment explanation
Indices: 360501--360852 Score: 433
Period size: 142 Copynumber: 2.5 Consensus size: 142
360491 AGAAAATAAT
* * * ** *
360501 ATAATATTTAATT-TTTTTTAA-TTTTGA-AAAATATCATTTCGTATCTTAATGGAGAACCGAAA
1 ATAATTTTTAATTAATTTTTAATTTTTAACAAAAT-TCATTTCACACCTTAATGGAGAACCGAAA
* * * *
360563 AGATATGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACCCTATGAATATTAGAAATCTTG
65 AGATACGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACCATAAGAATATTAAAAATCTTG
*
360628 AGAAATTAAGATA
130 AAAAATTAAGATA
* *
360641 ATAATTTTTAATTAATTTTTAATTTTTAACAAAATTTATTTTGA-ACCTTAATGGAGAACCGAAA
1 ATAATTTTTAATTAATTTTTAATTTTTAACAAAATTCA-TTTCACACCTTAATGGAGAACCGAAA
* * * * * * *
360705 AGATACGAAGAGTTTTAAAGATTTTTATACCCTTATGGAAAACCATAAGAATATTAAAAATTTTG
65 AGATACGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACCATAAGAATATTAAAAATCTTG
360770 AAAAATTAAGATA
130 AAAAATTAAGATA
* * * * *
360783 ATAATTTTTATTTAATTTTTAATTTTTAAGAAAATTCATTTCACACTTTAATGGAGAATCAAAAA
1 ATAATTTTTAATTAATTTTTAATTTTTAACAAAATTCATTTCACACCTTAATGGAGAACCGAAAA
360848 GATAC
66 GATAC
360853 ACTTTAATGA
Statistics
Matches: 181, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
140 12 0.07
141 11 0.06
142 150 0.83
143 8 0.04
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (142 bp):
ATAATTTTTAATTAATTTTTAATTTTTAACAAAATTCATTTCACACCTTAATGGAGAACCGAAAA
GATACGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACCATAAGAATATTAAAAATCTTGA
AAAATTAAGATA
Found at i:360854 original size:26 final size:26
Alignment explanation
Indices: 360825--360877 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
360815 AATTCATTTC
*
360825 ACACTTTAATGGAGAATCAAAAAGAT
1 ACACTTTAATGAAGAATCAAAAAGAT
360851 ACACTTTAATGAAGAATCAAAAAGAT
1 ACACTTTAATGAAGAATCAAAAAGAT
360877 A
1 A
360878 TGAAAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.23
Consensus pattern (26 bp):
ACACTTTAATGAAGAATCAAAAAGAT
Found at i:360994 original size:8 final size:8
Alignment explanation
Indices: 360977--361015 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
360967 GATAAAATAA
*
360977 TATTTATT
1 TATTTTTT
*
360985 TATTATTT
1 TATTTTTT
360993 TATTTTTT
1 TATTTTTT
361001 TATTTTTT
1 TATTTTTT
361009 TATTTTT
1 TATTTTT
361016 AAAAATTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TATTTTTT
Found at i:361685 original size:2 final size:2
Alignment explanation
Indices: 361678--361717 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
361668 ACTAGCTATC
361678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
361718 GAACACAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:361879 original size:13 final size:14
Alignment explanation
Indices: 361846--361890 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
361836 TTGCCTTGAT
*
361846 TTTTCTTTTCTTCTC
1 TTTT-TTTTCTTCAC
*
361861 TCTTTTTTCTTC-C
1 TTTTTTTTCTTCAC
361874 TTTTTTTTCTTCAC
1 TTTTTTTTCTTCAC
361888 TTT
1 TTT
361891 CCAAATCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 12 0.44
14 12 0.44
15 3 0.11
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTTTTCTTCAC
Found at i:364214 original size:27 final size:27
Alignment explanation
Indices: 364184--364264 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
364174 ACATGACATG
364184 TATACATAAAATA-AAAAATAATTTAAA
1 TATA-ATAAAATATAAAAATAATTTAAA
* **
364211 TATAATATAATATAAAAATAAAATAAA
1 TATAATAAAATATAAAAATAATTTAAA
364238 TATAATATAAATATAAAAAT-ATTTAAA
1 TATAATA-AAATATAAAAATAATTTAAA
364265 AATTTATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.15
27 28 0.61
28 11 0.24
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (27 bp):
TATAATAAAATATAAAAATAATTTAAA
Found at i:364220 original size:16 final size:16
Alignment explanation
Indices: 364198--364242 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
364188 CATAAAATAA
* *
364198 AAAATAATTTAAATAT
1 AAAATAATATAAAAAT
*
364214 AATATAATATAAAAAT
1 AAAATAATATAAAAAT
364230 AAAATAAATATAA
1 AAAAT-AATATAA
364243 TATAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATAATATAAAAAT
Found at i:364231 original size:11 final size:11
Alignment explanation
Indices: 364209--364253 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
364199 AAATAATTTA
364209 AATAT-AATAT
1 AATATAAATAT
*
364219 AATATAAAAAT
1 AATATAAATAT
*
364230 AAAATAAATAT
1 AATATAAATAT
364241 AATATAAATAT
1 AATATAAATAT
364252 AA
1 AA
364254 AAATATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 5 0.17
11 25 0.83
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AATATAAATAT
Found at i:364239 original size:22 final size:23
Alignment explanation
Indices: 364208--364255 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
364198 AAAATAATTT
364208 AAATATAATATAATATAAAAATA
1 AAATATAATATAATATAAAAATA
*
364231 AAATA-AATATAATATAAATATA
1 AAATATAATATAATATAAAAATA
364253 AAA
1 AAA
364256 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AAATATAATATAATATAAAAATA
Found at i:364277 original size:27 final size:27
Alignment explanation
Indices: 364193--364281 Score: 87
Period size: 27 Copynumber: 3.3 Consensus size: 27
364183 GTATACATAA
*
364193 AATA-AAAAATAATTTAAATA-TAATAT
1 AATATAAAAAT-ATTTAAAAATTAATAT
*
364219 AATATAAAAATA--AAATAAATATAATAT
1 AATATAAAAATATTTAA-AAAT-TAATAT
*
364246 AAATATAAAAATATTTAAAAATTTATAT
1 -AATATAAAAATATTTAAAAATTAATAT
364274 AATATAAA
1 AATATAAA
364282 TTTAATATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
24 2 0.04
25 2 0.04
26 5 0.10
27 20 0.38
28 17 0.33
29 4 0.08
30 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AATATAAAAATATTTAAAAATTAATAT
Found at i:364293 original size:13 final size:15
Alignment explanation
Indices: 364264--364295 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
364254 AAATATTTAA
364264 AAATTTATATAATAT
1 AAATTTATATAATAT
364279 AAATTTA-AT-ATAT
1 AAATTTATATAATAT
364292 AAAT
1 AAAT
364296 ACAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 2 0.12
15 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTATATAATAT
Found at i:364304 original size:22 final size:21
Alignment explanation
Indices: 364207--364306 Score: 69
Period size: 22 Copynumber: 4.5 Consensus size: 21
364197 AAAAATAATT
* *
364207 TAAATATAATATAATATAAAAA
1 TAAATA-AATTTAATATATAAA
*
364229 TAAAATAAATATAATATA-AATA
1 T-AAATAAATTTAATATATAA-A
* * *
364251 TAAA-AATATTTAAAAATTTATA
1 TAAATAA-ATTT-AATATATAAA
364273 TAATATAAATTTAATATATAAA
1 TAA-ATAAATTTAATATATAAA
364295 TACAATAAATTT
1 TA-AATAAATTT
364307 GTATGTTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
20 2 0.03
21 8 0.13
22 39 0.62
23 12 0.19
24 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATAAATTTAATATATAAA
Found at i:364552 original size:93 final size:93
Alignment explanation
Indices: 364388--364560 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
364378 TTAAAAAAAA
* * * *
364388 AGTACTAGCAAGTCGTTACCGAAGTGACTACGAAGTCAATTGCTTCAGTCTGTATTCTTATTCAC
1 AGTAATAGCAAGTCGTTACCGAAGTGACTAAGAAGTCAATTGCTTCAGTATGAATTCTTATTCAC
*
364453 CTACCCTCTACTAATTACTTTTTGAAGT
66 ATACCCTCTACTAATTACTTTTTGAAGT
* *
364481 AGTAATAGCAAGTCGTTACCGAAGTGACTAATAAGTCAATTGCTTCTGTAAT-AATTCTTATTCA
1 AGTAATAGCAAGTCGTTACCGAAGTGACTAAGAAGTCAATTGCTTCAGT-ATGAATTCTTATTCA
364545 CATACCCTCTACTAAT
65 CATACCCTCTACTAAT
364561 GAAAGTAGCC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (93 bp):
AGTAATAGCAAGTCGTTACCGAAGTGACTAAGAAGTCAATTGCTTCAGTATGAATTCTTATTCAC
ATACCCTCTACTAATTACTTTTTGAAGT
Found at i:364850 original size:22 final size:22
Alignment explanation
Indices: 364825--364868 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
364815 GGGGAGATTT
364825 AAATATTATAGTT-TGATTTTAA
1 AAATATTAT-GTTATGATTTTAA
* *
364847 AAATGTTATTTTATGATTTTAA
1 AAATATTATGTTATGATTTTAA
364869 TTTATTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
AAATATTATGTTATGATTTTAA
Found at i:368185 original size:21 final size:22
Alignment explanation
Indices: 368147--368192 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
368137 ATCTGTTGAA
* **
368147 ACTCCACTTGTTTTGGAGTA-T
1 ACTCCACCTGTTGCGGAGTACT
368168 ACTCCACCTGTTGCGGAGTACT
1 ACTCCACCTGTTGCGGAGTACT
368190 ACT
1 ACT
368193 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (22 bp):
ACTCCACCTGTTGCGGAGTACT
Found at i:370648 original size:20 final size:20
Alignment explanation
Indices: 370623--370668 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
370613 AAGAATTGAA
*
370623 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
370643 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
370663 GAGGGA
1 GAGGGA
370669 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:372737 original size:20 final size:20
Alignment explanation
Indices: 372709--372757 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
372699 AGAAAGAATT
372709 GAAGAGGGATACAAGAGAGG
1 GAAGAGGGATACAAGAGAGG
* * **
372729 GATGAGGGATGCTTGAGAGG
1 GAAGAGGGATACAAGAGAGG
372749 GAAGAGGGA
1 GAAGAGGGA
372758 GCCTCTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.49, T:0.10
Consensus pattern (20 bp):
GAAGAGGGATACAAGAGAGG
Found at i:375339 original size:13 final size:13
Alignment explanation
Indices: 375321--375345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
375311 ATTACTCAAA
375321 TGTATCGATACAT
1 TGTATCGATACAT
375334 TGTATCGATACA
1 TGTATCGATACA
375346 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:379242 original size:20 final size:21
Alignment explanation
Indices: 379208--379248 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
379198 TATTTATGTA
*
379208 ATAATTAAATGATTGATTTTT
1 ATAATTAAATAATTGATTTTT
379229 ATAA-TAAATAATTGATTTTT
1 ATAATTAAATAATTGATTTTT
379249 TTTTTTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
ATAATTAAATAATTGATTTTT
Found at i:383365 original size:11 final size:11
Alignment explanation
Indices: 383351--383377 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
383341 AAATCCACTA
383351 ATAATCTTTGT
1 ATAATCTTTGT
383362 ATAATCTTTGT
1 ATAATCTTTGT
383373 ATAAT
1 ATAAT
383378 AGTACAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (11 bp):
ATAATCTTTGT
Found at i:391893 original size:52 final size:52
Alignment explanation
Indices: 391831--391971 Score: 255
Period size: 54 Copynumber: 2.7 Consensus size: 52
391821 ATTAAATATC
391831 AATAACTTCTATTTTAATACATGTACTTTTGAATTATATATATAAATAAATA
1 AATAACTTCTATTTTAATACATGTACTTTTGAATTATATATATAAATAAATA
*
391883 AATAATTTCTATTTTAATACATGTACTTTTGAATTATATATATATAAATAAATA
1 AATAACTTCTATTTTAATACATGTACTTTTGAA-T-TATATATATAAATAAATA
391937 AATAACTTCTATTTTAATACATGTACTTTTGAATT
1 AATAACTTCTATTTTAATACATGTACTTTTGAATT
391972 TTCTAAGATG
Statistics
Matches: 85, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
52 33 0.39
53 2 0.02
54 50 0.59
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (52 bp):
AATAACTTCTATTTTAATACATGTACTTTTGAATTATATATATAAATAAATA
Found at i:392397 original size:22 final size:21
Alignment explanation
Indices: 392372--392427 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
392362 TTGACATACG
392372 TTAAAATATTAAAATTTTTATA
1 TTAAAAT-TTAAAATTTTTATA
* *
392394 TTAATATTTATATATTTTTATA
1 TTAAAATTTA-AAATTTTTATA
*
392416 ATAAAATTTAAA
1 TTAAAATTTAAA
392428 TAAAATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAAATTTAAAATTTTTATA
Found at i:399016 original size:52 final size:51
Alignment explanation
Indices: 398938--399086 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
398928 CGAAATATGA
* *
398938 AAATTTGCTTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTAGGC
* *
398990 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTAGGC
**
399042 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
399087 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTAGGC
Found at i:399093 original size:13 final size:13
Alignment explanation
Indices: 399075--399099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
399065 CAAAGATCAG
399075 TGTATCGATACAA
1 TGTATCGATACAA
399088 TGTATCGATACA
1 TGTATCGATACA
399100 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:399177 original size:33 final size:33
Alignment explanation
Indices: 399140--399206 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
399130 AGTAGCTTAA
399140 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
399173 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
399206 A
1 A
399207 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:399180 original size:13 final size:13
Alignment explanation
Indices: 399162--399186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
399152 CAAAAAAATA
399162 TGTATCGATACAT
1 TGTATCGATACAT
399175 TGTATCGATACA
1 TGTATCGATACA
399187 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:400100 original size:15 final size:15
Alignment explanation
Indices: 400059--400101 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
400049 TTCGGATTAT
400059 TTTAGATTAATT--A
1 TTTAGATTAATTCGA
*
400072 TTTAGATCAATTCGA
1 TTTAGATTAATTCGA
*
400087 TTTAGATTATTTCGA
1 TTTAGATTAATTCGA
400102 ATTCAGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.44
15 14 0.56
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (15 bp):
TTTAGATTAATTCGA
Found at i:403398 original size:52 final size:52
Alignment explanation
Indices: 403328--403468 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
403318 GAAAATTTAT
403328 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
403380 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
403432 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
403469 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:403475 original size:13 final size:13
Alignment explanation
Indices: 403457--403481 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
403447 CAAAAATCAG
403457 TGTATCGATACAA
1 TGTATCGATACAA
403470 TGTATCGATACA
1 TGTATCGATACA
403482 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:403564 original size:13 final size:13
Alignment explanation
Indices: 403546--403570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
403536 CAAAAAAATA
403546 TGTATCGATACAT
1 TGTATCGATACAT
403559 TGTATCGATACA
1 TGTATCGATACA
403571 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:403566 original size:33 final size:33
Alignment explanation
Indices: 403524--403590 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
403514 AGTAGCTTAA
403524 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
403557 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
403590 A
1 A
403591 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:403669 original size:21 final size:21
Alignment explanation
Indices: 403628--403669 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
403618 GTTGGGACCT
*
403628 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
403649 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
403670 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:404139 original size:25 final size:25
Alignment explanation
Indices: 404105--404157 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
404095 TCATAAATGA
*
404105 TCTTTCCATAAATAACTGTTTGTTT
1 TCTTTCCATAAATAACTATTTGTTT
404130 TCTTTCCATAAATAACTATTTGTTT
1 TCTTTCCATAAATAACTATTTGTTT
404155 TCT
1 TCT
404158 CAACCTCGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.53
Consensus pattern (25 bp):
TCTTTCCATAAATAACTATTTGTTT
Found at i:406163 original size:97 final size:97
Alignment explanation
Indices: 405994--406176 Score: 210
Period size: 97 Copynumber: 1.9 Consensus size: 97
405984 CGACAATGAT
* * *
405994 AATTTAGGCAAAAATAAAATTTAAAGCTTAACAAGTTTAAAAATGAGGTTAGAGTATCCCCTCAG
1 AATTTAAGCAAAAATAAAATTTAAAGCTTAACAAATTTAAAAATGAGGTTAGAGTATCACCTCAG
*
406059 AAAAATA-GAGTTGGAGTATCCCTGATGATGTC
66 AAAAATAGGA-TTAGAGTATCCCTGATGATGTC
* * * * * * * *
406091 AATTTAAGCAGAAATAAGATTTAAATCTTGATAAATTTAAAATTGAGGTT-GAAGTATCATCTTA
1 AATTTAAGCAAAAATAAAATTTAAAGCTTAACAAATTTAAAAATGAGGTTAG-AGTATCACCTCA
406155 -AAAGAATAGGATTAGAGTATCC
65 GAAA-AATAGGATTAGAGTATCC
406177 TCGATAAATA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
96 4 0.06
97 65 0.92
98 2 0.03
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (97 bp):
AATTTAAGCAAAAATAAAATTTAAAGCTTAACAAATTTAAAAATGAGGTTAGAGTATCACCTCAG
AAAAATAGGATTAGAGTATCCCTGATGATGTC
Found at i:409972 original size:16 final size:16
Alignment explanation
Indices: 409947--410007 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
409937 TTGATCATAT
*
409947 TTTTATTTTTTTTGAA
1 TTTTAATTTTTTTGAA
* **
409963 TTTTGATTTTAATGAA
1 TTTTAATTTTTTTGAA
* * *
409979 TTTTTTATTTCTTTGAT
1 -TTTTAATTTTTTTGAA
409996 TTTTAATTTTTT
1 TTTTAATTTTTT
410008 AGATTTTTTT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
16 22 0.67
17 11 0.33
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.72
Consensus pattern (16 bp):
TTTTAATTTTTTTGAA
Found at i:410012 original size:16 final size:16
Alignment explanation
Indices: 409978--410015 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
409968 ATTTTAATGA
*
409978 ATTTTTTATTTCTTTG
1 ATTTTTAATTTCTTTG
409994 ATTTTTAATTT-TTTAG
1 ATTTTTAATTTCTTT-G
410010 ATTTTT
1 ATTTTT
410016 TTATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (16 bp):
ATTTTTAATTTCTTTG
Found at i:410624 original size:42 final size:43
Alignment explanation
Indices: 410576--410682 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
410566 ATCTCTAAGG
* *
410576 TCAAAGCCGACAGGCAGACTTTA-GATAAGACAGTCTCTAGCA
1 TCAAAGCCGACAGGCAGACTTTAGGATAAGAAAGTCTCCAGCA
* * * **
410618 TTAAAGCCGACAGGCA-AATTTAGGGTAAGAAAGTCTCCAGGG
1 TCAAAGCCGACAGGCAGACTTTAGGATAAGAAAGTCTCCAGCA
* *
410660 TCAAAGCTGATAGGCAGACTTTA
1 TCAAAGCCGACAGGCAGACTTTA
410683 AATGAAGTAG
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
41 5 0.10
42 42 0.81
43 5 0.10
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (43 bp):
TCAAAGCCGACAGGCAGACTTTAGGATAAGAAAGTCTCCAGCA
Found at i:410816 original size:84 final size:82
Alignment explanation
Indices: 410572--410823 Score: 247
Period size: 84 Copynumber: 3.0 Consensus size: 82
410562 AAAAATCTCT
* * * * *
410572 AAGGTCAAAGCCGACAGGCAGACTTTAGATAAGACAGTC-TCTAGCATTAAAGCCGACAGGCAAA
1 AAGGTCAAAGCTGACAGGCAGACTTTAGATAAG-TAGTCTTCAAG-GTCAAAG-CGACAGGCAAA
* * *
410636 TTTAGGGTAAGAAAGTCTCC
63 CTAAGGGTAAGAAAGTCTTC
* * * * *
410656 AGGGTCAAAGCTGATAGGCAGACTTTAAATGAAGTAGTCTGCAAGGTCAAAGGCGACAAGCAAAC
1 AAGGTCAAAGCTGACAGGCAGACTTTAGAT-AAGTAGTCTTCAAGGTCAAA-GCGACAGGCAAAC
* *
410721 TGAGGGCAAGAAAGTCTTC
64 TAAGGGTAAGAAAGTCTTC
* *
410740 AAGGTCAAAGCTAACAGACAGACTTTAGATAAAGTAGTCTTC-AGGTCAAAGCTGACAGGCAAAC
1 AAGGTCAAAGCTGACAGGCAGACTTTAGAT-AAGTAGTCTTCAAGGTCAAAGC-GACAGGCAAAC
*
410804 TAAAAGGTAAGAAAAGTCTT
64 T-AAGGGTAAG-AAAGTCTT
410824 TAGGGCTAAA
Statistics
Matches: 137, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
82 2 0.01
83 19 0.14
84 101 0.74
85 15 0.11
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (82 bp):
AAGGTCAAAGCTGACAGGCAGACTTTAGATAAGTAGTCTTCAAGGTCAAAGCGACAGGCAAACTA
AGGGTAAGAAAGTCTTC
Found at i:411769 original size:20 final size:22
Alignment explanation
Indices: 411719--411776 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 22
411709 AGAGTTAGGT
411719 AAAAAAGAAAGAAAGAAGATGAAG
1 AAAAAAGAAAGAAA-AAGA-GAAG
*
411743 AAGAAAGAAAGAAAAAG-GAA-
1 AAAAAAGAAAGAAAAAGAGAAG
411763 AAAAAAGAAA-AAAA
1 AAAAAAGAAAGAAAA
411777 TATGAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 4 0.12
20 9 0.28
21 3 0.09
23 3 0.09
24 13 0.41
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAAGAAAAAGAGAAG
Found at i:418527 original size:11 final size:11
Alignment explanation
Indices: 418511--418542 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
418501 CCTAATTCTA
418511 AAAAAAAAAAC
1 AAAAAAAAAAC
*
418522 AAAAAAAAACC
1 AAAAAAAAAAC
418533 AAAAAAAAAA
1 AAAAAAAAAA
418543 ACCTTTTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:418544 original size:13 final size:13
Alignment explanation
Indices: 418510--418545 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
418500 ACCTAATTCT
418510 AAAAAAAAAAA-C
1 AAAAAAAAAAACC
418522 --AAAAAAAAACC
1 AAAAAAAAAAACC
418533 AAAAAAAAAAACC
1 AAAAAAAAAAACC
418546 TTTTCACCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
13 11 0.52
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACC
Found at i:419601 original size:27 final size:27
Alignment explanation
Indices: 419561--420410 Score: 1295
Period size: 27 Copynumber: 31.1 Consensus size: 27
419551 ACTGTGACCT
* * *
419561 CTTTAAAGCCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
419588 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
419615 CTTCTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
419642 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
419670 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
419697 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
419725 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
419752 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
419779 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
419807 CTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
419834 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
419861 ATTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
419888 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
**
419916 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
419943 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
419970 CTTTTAAGTCCACAACTACGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
419997 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
420024 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
420052 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
420079 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
420106 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
420134 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
420161 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
420189 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
420216 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
420243 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
420270 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
420297 CTTTTAAGACCACAACTCCGTCGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
420324 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
420352 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
420379 CTTATAAAATCCACAACTCCGTGGCACT
1 CTT-TTAAGTCCACAACTCCGTGGCACC
420407 CTTT
1 CTTT
420411 GGCACCCATT
Statistics
Matches: 758, Mismatches: 56, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
27 532 0.70
28 226 0.30
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:419756 original size:82 final size:81
Alignment explanation
Indices: 419561--420410 Score: 1295
Period size: 82 Copynumber: 10.4 Consensus size: 81
419551 ACTGTGACCT
* * ** *
419561 CTTTAAAGCCCACAACTCCGTGGCACTTTTTTAAGTCCACAACTCCGTGGCACCCTTCTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
419626 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
419642 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
**
419707 CCACAACTCCGTGGCATT
64 CCACAACTCCGTGGCACC
419725 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTC
419790 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
419807 CTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTCCACAACTCCGTGGCACCATTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
419872 ACAACTTCGTGGCATC
66 ACAACTCCGTGGCACC
** **
419888 CTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCATTCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
419953 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
419970 CTTTTAAGTCCACAACTACGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
420035 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* *
420052 CTTTTAAGACCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
420117 ATAACTCCGTGGCATCT
66 ACAACTCCGTGGCA-CC
* *
420134 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
420199 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
420216 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
420281 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCACC
* * * * *
420297 CTTTTAAGACCACAACTCCGTCGCACCCTTTTAAGTCCATAACTCTGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
420362 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* * *
420379 CTTATAAAATCCACAACTCCGTGGCACTCTTT
1 CTT-TTAAGTCCACAACTCCGTGGCACCCTTT
420411 GGCACCCATT
Statistics
Matches: 706, Mismatches: 56, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
81 210 0.30
82 383 0.54
83 113 0.16
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:420455 original size:32 final size:32
Alignment explanation
Indices: 420410--420873 Score: 734
Period size: 32 Copynumber: 14.5 Consensus size: 32
420400 TGGCACTCTT
420410 TGGC-ACCCATTTCAAAGCCCACACAAGTCGG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420441 TAGCAACCCATTTCAAAGCCCACACAAGTCGG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420473 TGGCAACCCATTTCAAAGCCCACACAAGTTGG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
* *
420505 TGGCAACCCTTTTCAAAGCCCACACAAGTCAG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420537 TGGTAACCCATTTCAAAGCCCACACAAGTCGG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420569 TGGCAA-CCATTTTCAAAGCCCTCACAAGTCGG
1 TGGCAACCCA-TTTCAAAGCCCACACAAGTCGG
*
420601 TGGCAACCCATTTCAGAGCCCACACAAGTCGG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
* *
420633 TGGCAACCCATTTCAGAGCCCACACAAGTCGA
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420665 TGGCAACCCATTTCAATGCCCACACAAGTCGG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420697 TGGCAACCCTTTTCAAAGCCCACACAAGTCGG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420729 TGGCAACCCATTTCAAAGCCCACACAAGTCAG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420761 TGGCAACCCATTCCAAAGCCCACACAAGTCGG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420793 TGGCAACCCATTTCAAAGCCCACTCAAGTCGG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
* ** *
420825 TGGCAACCCATTTAAAAGCCCATGCAAGTCAG
1 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
*
420857 TGGCAACCCTTTTCAAA
1 TGGCAACCCATTTCAAA
420874 TCACCAGTTT
Statistics
Matches: 399, Mismatches: 31, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
31 6 0.02
32 390 0.98
33 3 0.01
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (32 bp):
TGGCAACCCATTTCAAAGCCCACACAAGTCGG
Found at i:422126 original size:4 final size:4
Alignment explanation
Indices: 422117--422187 Score: 50
Period size: 4 Copynumber: 18.8 Consensus size: 4
422107 GTTAGGTAAA
422117 AAAG AAAG AAAG -AAG ATGAAG -AAG AAAG AAAG -AA- AAAG AAA- AAA-
1 AAAG AAAG AAAG AAAG A--AAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
422161 AAA- AAAG ATGAAG -AAG AAAG AAAG AAA
1 AAAG AAAG A--AAG AAAG AAAG AAAG AAA
422188 AAGAAAAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
3 22 0.39
4 29 0.51
6 6 0.11
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:422174 original size:36 final size:36
Alignment explanation
Indices: 422129--422197 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
422119 AGAAAGAAAG
422129 AAGATGAAGAAGAAAGAAAGAAAAAGAAAAAAAAAA
1 AAGATGAAGAAGAAAGAAAGAAAAAGAAAAAAAAAA
422165 AAGATGAAGAAGAAAGAAAGAAAAAGAAAAAAA
1 AAGATGAAGAAGAAAGAAAGAAAAAGAAAAAAA
422198 TATGAAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (36 bp):
AAGATGAAGAAGAAAGAAAGAAAAAGAAAAAAAAAA
Found at i:424872 original size:42 final size:42
Alignment explanation
Indices: 424824--426058 Score: 436
Period size: 42 Copynumber: 29.6 Consensus size: 42
424814 GAAGGTAGGA
*
424824 AAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * ** * **
424866 CAGTCTCTAGGGTCAAAGTCGACAGG-TGAACTAAAGGGTAAAAA
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAG-ACTTTA-GAT-AAGG
* * *
424910 AAGTCTTTAGGGTCAAAGTCGACAAGCAGACTTTAGATAAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * * * ** * *
424952 CAA-TCTCCAAGGTCAAAGTCGATAGACAGA-TCGAAGCTTAA-A
1 -AAGTCTCTAGGGTCAAAGCCGACAGGCAGACT-TTAG-ATAAGG
* * *
424994 AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTA-ATAAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * ** * *
425035 CAGTCTCTAGGGTCAAAGCTGATAGGCAGA-TCGAGGGT-AGAA
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAG-G
* * **
425077 AAATCTCTAGGGTCAAAGCTGACAGATAGACTTTAGATAAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * * * ** *
425119 CAGTCTCTAAGGTCCAAGCTGGCAGGCAGA-TCGAGGGT-AGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG
* *
425160 AAAGTCTCTAAGGTCAAAGCCGACAGCCAGACTTTAGATAAGG
1 -AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * * ** * *
425203 CAGTCTCTAGGGTCAAAGCTGACTGGTAGAC-CGAGGGT-AGAA
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAG-G
* ** *
425245 AAGTCTCTAGGGTCAAAGCCAACAAACAGACTTTAGATGAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * * *
425287 TAGTCTCTAGGGTCAAAACCGACAAGCAGACTTTAAATGAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * * * * *
425329 TAGTCTCCAAGGTCAAAGCCGACAGGTAAAC-TAAGGGT-AGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG
* * *
425370 AAAGTCTCCAAGGG-CAAAACCGACAGGTAGA-TTT---T----
1 -AAGTCT-CTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * ** *
425405 -AGTCT-TCAGGATTAAAGCTAACAGGCAGACTTTAGATTAGG
1 AAGTCTCT-AGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * * * * *
425446 CAGTCTCCAAGGTCAAAGCTGACAGACAGAC-TGAGGT-AGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * ** * * * *
425486 AAAGTCTCCAGAGTCAAAATCGATAGGCAAACATTAGATGAGG
1 -AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * ** * ** * *
425529 CAGTCTCTAAGGTCAAAGCTAACAGGCAAACTGAAGTGTAAGAA
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAG-ATAAG-G
* * * *
425573 AAGTCTTTAGGGTCAAAGCTGACAGGCAGACTTTAGATGATG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * * *
425615 TAGTCTCTAGGGTCAAAGCCGACAAGCA-AATTGAGGGT-AGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG
* * * *
425656 AAAGTCT-TCAGGGTCAAACCCAACAGACAAACTTTAGATGAA-G
1 -AAGTCTCT-AGGGTCAAAGCCGACAGGCAGACTTTAGAT-AAGG
* * * * * * * **
425699 TAGTCT-TCAAGGTCAAAGCTGATAGGCA-AATTGAGGGTAAAA
1 AAGTCTCT-AGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG
* * * *
425741 AAGTCTCCAAGGTCAAAGCCCATAGGCAGACTTTAGATAAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* ** * *
425783 TAGTCTCTAAAGTCAAAGCTGACAGGCAGACTTTAGATGAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * * *
425825 TAGT-TTTCAGGGTCAAAGCCGATAGGCAGAC-TGAGGGT-AGG
1 AAGTCTCT-AGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG
* * * * ** * *
425866 AAAGTCTCTAAGGTCAAAGTCAATAGGCAGACTGAAGGTAAGA
1 -AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* ** * * * *
425909 AAGTCTCCAAAGCCAAAGCCAACAAGCAGACTTTAAATAAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * * * * * * * *
425951 CAGCCTCCAAGGTCAAAGCTGACAAGCAGAC-TGAAAGTAAGA
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGA-TAAGG
* ** ** *
425993 AAGTCTCCAAAGTCAAAGTGGACAGGCATACTTTAGATAAGG
1 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* *
426035 GAGTTTCTAGGGTCAAAGCCGACA
1 AAGTCTCTAGGGTCAAAGCCGACA
426059 AACAGACAAA
Statistics
Matches: 874, Mismatches: 257, Indels: 124
0.70 0.20 0.10
Matches are distributed among these distances:
32 3 0.00
33 17 0.02
34 3 0.00
37 1 0.00
38 1 0.00
40 8 0.01
41 95 0.11
42 635 0.73
43 51 0.06
44 59 0.07
45 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (42 bp):
AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
Found at i:425079 original size:84 final size:85
Alignment explanation
Indices: 424805--426058 Score: 708
Period size: 84 Copynumber: 15.0 Consensus size: 85
424795 CAAAGTCGAT
* * * * *
424805 AGGCAGACCGAAGGTAG-GAAAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAGGCAG
1 AGGCAGATCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAG
*
424869 TCTCTAGGGTCAAAG-TCGAC
66 TCTCTAAGGTCAAAGCT-GAC
* ** * * ** * * *
424889 AGG-TGAACTAAAGGGTAAAAAAAGTCTTTAGGGTCAAAGTCGACAAGCAGACTTTAGATAAGGC
1 AGGCAG-A-TCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGC
* * *
424953 AATCTCCAAGGTCAAAG-TCGAT
64 AGTCTCTAAGGTCAAAGCT-GAC
* ** *
424975 AGACAGATCGAAGCTTA-A-AAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTA-ATAAGGCA
1 AGGCAGATCG-AGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCA
* *
425037 GTCTCTAGGGTCAAAGCTGAT
65 GTCTCTAAGGTCAAAGCTGAC
* * * * **
425058 AGGCAGATCGAGGGTAGA-AAAATCTCTAGGGTCAAAGCTGACAGATAGACTTTAGATAAGGCAG
1 AGGCAGATCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAG
* *
425122 TCTCTAAGGTCCAAGCTGGC
66 TCTCTAAGGTCAAAGCTGAC
* *
425142 AGGCAGATCGAGGGTAG-GAAAGTCTCTAAGGTCAAAGCCGACAGCCAGACTTTAGATAAGGCAG
1 AGGCAGATCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAG
*
425206 TCTCTAGGGTCAAAGCTGAC
66 TCTCTAAGGTCAAAGCTGAC
* * * * * * ** * *
425226 TGGTAGACCGAGGGTAGA-AAAGTCTCTAGGGTCAAAGCCAACAAACAGACTTTAGATGAGGTAG
1 AGGCAGATCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAG
* * *
425290 TCTCTAGGGTCAAAACCGAC
66 TCTCTAAGGTCAAAGCTGAC
* ** ** ** * * * *
425310 AAGCAGACTTTA-AAT-GAGGTAGTCTCCAAGGTCAAAGCCGACAGGTAAAC-TAAGGGT-AGGA
1 AGGCAGA-TCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG-
* * *
425371 AAGTCTCCAAGGGCAAA----AC
63 CAGTCTCTAAGGTCAAAGCTGAC
*** * * ** *
425390 ---C-GA-C-A-GGTAGATTTTAGTCTTC-AGGATTAAAGCTAACAGGCAGACTTTAGATTAGGC
1 AGGCAGATCGAGGGTAGA-GAAAGTCTCCAAGG-TCAAAGCCGACAGGCAGACTTTAGATAAGGC
*
425447 AGTCTCCAAGGTCAAAGCTGAC
64 AGTCTCTAAGGTCAAAGCTGAC
* ** * * * *
425469 AGACAGA-CTGA-GGTAG-GAAAGTCTCC-AGAGTCAAAATCGATAGGCAAACATTAGATGAGGC
1 AGGCAGATC-GAGGGTAGAGAAAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTTTAGATAAGGC
*
425530 AGTCTCTAAGGTCAAAGCTAAC
64 AGTCTCTAAGGTCAAAGCTGAC
* * ** * * * *
425552 AGGCA-AACTGAAGTGTA-AGAAAAGTCTTTAGGGTCAAAGCTGACAGGCAGACTTTAGATGATG
1 AGGCAGATC-G-AGGGTAGAG-AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
* * *
425615 TAGTCTCTAGGGTCAAAGCCGAC
63 CAGTCTCTAAGGTCAAAGCTGAC
* * * * * * * * * *
425638 AAGCAAATTGAGGGTAG-GAAAGTCTTCAGGGTCAAACCCAACAGACAAACTTTAGATGAA-GTA
1 AGGCAGATCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGAT-AAGGCA
*
425701 GTCT-TCAAGGTCAAAGCTGAT
65 GTCTCT-AAGGTCAAAGCTGAC
* * * * * *
425722 AGGCAAATTGAGGGTA-AAAAAGTCTCCAAGGTCAAAGCCCATAGGCAGACTTTAGATAAGGTAG
1 AGGCAGATCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAG
*
425786 TCTCTAAAGTCAAAGCTGAC
66 TCTCTAAGGTCAAAGCTGAC
** * ** * * * * * *
425806 AGGCAGACTTTA-GAT-GAGGTAGTTTTCAGGGTCAAAGCCGATAGGCAGAC-TGAGGGT-AGGA
1 AGGCAGA-TCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG-
* * *
425867 AAGTCTCTAAGGTCAAAG-TCAAT
63 CAGTCTCTAAGGTCAAAGCT-GAC
* * * * * *
425890 AGGCAGA-CTGAAGGTA-AGAAAGTCTCCAAAGCCAAAGCCAACAAGCAGACTTTAAATAAGGCA
1 AGGCAGATC-GAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCA
* *
425953 GCCTCCAAGGTCAAAGCTGAC
65 GTCTCTAAGGTCAAAGCTGAC
* ** * ** * *
425974 AAGCAGA-CTGAAAGTA-AGAAAGTCTCCAAAGTCAAAGTGGACAGGCATACTTTAGATAAGGGA
1 AGGCAGATC-GAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCA
* * *
426037 GTTTCTAGGGTCAAAGCCGAC
65 GTCTCTAAGGTCAAAGCTGAC
426058 A
1 A
426059 AACAGACAAA
Statistics
Matches: 909, Mismatches: 207, Indels: 108
0.74 0.17 0.09
Matches are distributed among these distances:
73 2 0.00
74 5 0.01
75 38 0.04
76 7 0.01
77 1 0.00
79 2 0.00
80 2 0.00
82 6 0.01
83 143 0.16
84 545 0.60
85 35 0.04
86 120 0.13
87 3 0.00
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (85 bp):
AGGCAGATCGAGGGTAGAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAG
TCTCTAAGGTCAAAGCTGAC
Found at i:426549 original size:13 final size:13
Alignment explanation
Indices: 426533--426563 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
426523 TTATGCCTTT
426533 TAATATTTTTATA
1 TAATATTTTTATA
426546 TAATATTTTTATA
1 TAATATTTTTATA
*
426559 AAATA
1 TAATA
426564 ATGTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATATTTTTATA
Found at i:429429 original size:22 final size:21
Alignment explanation
Indices: 429404--429444 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
429394 TCAATTTAAT
429404 GAAAAAAAAAGTCAAAATTCAA
1 GAAAAAAAAAG-CAAAATTCAA
*
429426 GAAAAAAAATGCAAAATTC
1 GAAAAAAAAAGCAAAATTC
429445 TAGTTGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.15
Consensus pattern (21 bp):
GAAAAAAAAAGCAAAATTCAA
Found at i:429726 original size:13 final size:13
Alignment explanation
Indices: 429710--429734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
429700 CTAATATATG
429710 ATATGATTATAAA
1 ATATGATTATAAA
429723 ATATGATTATAA
1 ATATGATTATAA
429735 TATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
ATATGATTATAAA
Found at i:429738 original size:18 final size:16
Alignment explanation
Indices: 429717--429778 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
429707 ATGATATGAT
429717 TATAAAATATGATTATAA
1 TATAAAA-AT-ATTATAA
*
429735 TATAAAAATTAATTAAAA
1 TATAAAAA-T-ATTATAA
*
429753 TATAAAAAATATATGTAA
1 TAT-AAAAATAT-TATAA
429771 TATAAAAA
1 TATAAAAA
429779 ATAATATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
17 8 0.22
18 24 0.65
19 5 0.14
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
TATAAAAATATTATAA
Found at i:429791 original size:18 final size:19
Alignment explanation
Indices: 429733--429788 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 19
429723 ATATGATTAT
*
429733 AATATAAAAATTAAT-TAA
1 AATATAAAAAATAATATAA
**
429751 AATATAAAAAAT-ATATGT
1 AATATAAAAAATAATATAA
429769 AATATAAAAAATAATATAA
1 AATATAAAAAATAATATAA
429788 A
1 A
429789 TATGATATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 2 0.06
18 24 0.77
19 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AATATAAAAAATAATATAA
Found at i:429832 original size:19 final size:19
Alignment explanation
Indices: 429800--429845 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
429790 ATGATATAAA
* *
429800 TATATAAATTTATCATAATT
1 TATAT-AATATATCAAAATT
429820 TATATAATATATCAAAATT
1 TATATAATATATCAAAATT
*
429839 TACATAA
1 TATATAA
429846 AAATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (19 bp):
TATATAATATATCAAAATT
Found at i:430065 original size:13 final size:13
Alignment explanation
Indices: 430049--430094 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
430039 AATAAGAAAC
430049 AAATATAATATAA
1 AAATATAATATAA
430062 AAATAATTAA-ATTAA
1 AAAT-A-TAATA-TAA
430077 AAATATAATATAA
1 AAATATAATATAA
430090 AAATA
1 AAATA
430095 ATATAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 15 0.52
14 4 0.14
15 10 0.34
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATATAATATAA
Found at i:430102 original size:28 final size:27
Alignment explanation
Indices: 430049--430116 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 27
430039 AATAAGAAAC
430049 AAATATAATATAAAAATAATTAAATTAA
1 AAATATAATATAAAAATAATTAAATT-A
430077 AAATATAATATAAAAATAA-TATAATTA
1 AAATATAATATAAAAATAATTA-AATTA
*
430104 TAATATAACTATA
1 AAATATAA-TATA
430117 TGATTATATC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 10 0.27
28 27 0.73
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (27 bp):
AAATATAATATAAAAATAATTAAATTA
Found at i:430116 original size:11 final size:11
Alignment explanation
Indices: 430049--430116 Score: 65
Period size: 11 Copynumber: 6.6 Consensus size: 11
430039 AATAAGAAAC
430049 AAATATAATAT
1 AAATATAATAT
*
430060 AAAAATAAT-T
1 AAATATAATAT
430070 AAAT-T-A-A-
1 AAATATAATAT
430077 AAATATAATAT
1 AAATATAATAT
*
430088 AAAAATAATAT
1 AAATATAATAT
*
430099 AATTATAATAT
1 AAATATAATAT
*
430110 AACTATA
1 AAATATA
430117 TGATTATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
7 4 0.09
8 2 0.04
9 2 0.04
10 5 0.11
11 33 0.72
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATAATAT
Found at i:430987 original size:2 final size:2
Alignment explanation
Indices: 430980--431006 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
430970 TCCTAATTGC
430980 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
431007 GTATGTATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:431703 original size:2 final size:2
Alignment explanation
Indices: 431690--431720 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
431680 CGTATCATTA
*
431690 AT AT AT AC 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 A
431721 AATGCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:433264 original size:25 final size:25
Alignment explanation
Indices: 433230--433286 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
433220 ATAAGGTCAT
* * *
433230 ATTTAATATATTGTTTATATATATAA
1 ATTTAATATACTATTAATATAT-TAA
433256 ATTT-ATATACTATTAATATATTAA
1 ATTTAATATACTATTAATATATTAA
*
433280 ATATAAT
1 ATTTAAT
433287 TTTTTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 6 0.23
25 16 0.62
26 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
ATTTAATATACTATTAATATATTAA
Found at i:434605 original size:2 final size:2
Alignment explanation
Indices: 434598--434633 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
434588 TATTTCTTCG
434598 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
434634 AAGAAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:438850 original size:20 final size:21
Alignment explanation
Indices: 438825--438877 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
438815 TACCCAGATG
438825 TATCGATACATTACAGA-ATA
1 TATCGATACATTACAGACATA
* *
438845 TATCGATACATT-CATACATG
1 TATCGATACATTACAGACATA
438865 TATCGATACATTA
1 TATCGATACATTA
438878 TGTCTTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (21 bp):
TATCGATACATTACAGACATA
Found at i:452833 original size:22 final size:24
Alignment explanation
Indices: 452807--452872 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 24
452797 TCCTTTACAC
*
452807 CCAAAAAAAAAAACAAAACAAA-A
1 CCAAAAAAAAAAACAAAAAAAATA
* *
452830 -CAAACAAAAAACCAAGAAAAAATA
1 CCAAAAAAAAAAACAA-AAAAAATA
*
452854 GCCAAAAAAAAAAAGAAAA
1 -CCAAAAAAAAAAACAAAA
452873 GGGTCTAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
22 13 0.39
23 5 0.15
24 1 0.03
25 2 0.06
26 12 0.36
ACGTcount: A:0.79, C:0.15, G:0.05, T:0.02
Consensus pattern (24 bp):
CCAAAAAAAAAAACAAAAAAAATA
Found at i:454618 original size:230 final size:227
Alignment explanation
Indices: 454081--455012 Score: 1159
Period size: 230 Copynumber: 4.1 Consensus size: 227
454071 GAATGTTCAT
* *
454081 CCCTTTCAAAGCACACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTC
* * *
454145 AAAGCCCACAAGTTAGTGGCA-CTCTTTCAAAG-CC-CACAAGTTAGTGGCACCTTTTC-AAGCC
64 AAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCC
* *
454206 CACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTC
128 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTC
* *
454270 AGTGGCACCGTTTCAGAGCCCACAAGTCAGTGGCA
193 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
454305 CCCTTTCGAAGCCCACAAGTCAGTGGCACCCTTTT-GAAGCCCACAATTCAGTGGTACTCTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCA
*
454369 AAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCC
65 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAC-CCTTTCAAAG-CC
* * *
454434 ACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTCAATGGCACTTTTTTCAAAGCCCACAA
128 -CACAAGTCAGTGGC-ACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAA
* *
454499 GTCAGTGGCACCCTTTC-AAGCCCACGAGTCAATGGCA
190 GTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
454536 CCCTTTC-AAGCCCACGAGTTAGTGGCACCTTTTCAAAGCCTACGAGTCAGTGGCACTCTTTCAA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAA
** ** * *
454600 AGCTTACAAGTCAGTGGCATCCTTTCAAAGCCCATGCAAGTCAGTGGCACCTTTTTAAAGCCCAC
66 AGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAG-CC-C
* * * *
454665 ACAAGTTAGTGGCAC-CTTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACGAGTC
129 ACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACC-TTTTCAAAGCCCACAAGTC
*
454729 AGTGGCACTCTTTCAAAGCCCACACAAGTCAGTGGCA
193 AGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCA
* * * * * *
454766 CCCTTTTAAAGTCCATGCAAGTAAGTAGCACATTTTC-AAGCCCACGAGTCAGTGGCACTCTTTC
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTC
* * *
454830 AAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCATACAAGTCAGTGGCACCCTTTTAAAGCCC
64 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCC
*
454895 ACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCA
129 ACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCA
* * * **
454959 GTGACACTCTTTTCAAAGCCCACAAGCCAGTAGTAA
194 GTGGCAC-CCTTTCAAAGCCCACAAGTCAGT-GGCA
*
454995 CTCTTTTCAAAGCCCACA
1 C-CCTTTCAAAGCCCACA
455013 CGTGTCGGTG
Statistics
Matches: 619, Mismatches: 65, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
223 52 0.08
224 35 0.06
225 16 0.03
226 5 0.01
227 59 0.10
228 19 0.03
229 75 0.12
230 171 0.28
231 58 0.09
232 113 0.18
233 16 0.03
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (227 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAA
AGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCAC
AAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGT
GGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:455000 original size:30 final size:29
Alignment explanation
Indices: 454084--455045 Score: 1039
Period size: 28 Copynumber: 33.5 Consensus size: 29
454074 TGTTCATCCC
*
454084 TTTCAAAGCACACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
454113 TTTCAAAGCCCACAAGTTAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
454141 TTTCAAAGCCCACAAGTTAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
454169 TTTCAAAGCCCACAAGTTAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
454197 TTTC-AAGCCCACAAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
454224 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
454252 TTTCAAAACCCACAAGTCAGTGGCAC-CG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
454280 TTTCAGAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
454308 TTTCGAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
454337 TTT-GAAGCCCACAATTCAGTGGTACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
454364 TTTCAAAGCCCACAAGTTAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
454392 TTTCAAAGCCCACACAAGTCAGTGGCACTCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
* *
454423 TTTCAAAGCCCACACAAGTCGGTGGCAACTCC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCT
* *
454455 TTTCAAAGCCCACAAGTCAATGGCACTTT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
454484 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
454512 TTTC-AAGCCCACGAGTCAATGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
454539 TTTC-AAGCCCACGAGTTAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
454566 TTTCAAAGCCTACGAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
** *
454594 TTTCAAAGCTTACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
454622 TTTCAAAGCCCATGCAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
* *
454652 TTTTAAAGCCCACACAAGTTAGTGGCAC-CT
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
*
454682 TTTCAAAGCCCACGAGTCAGTGGCAC-CTT
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-T
*
454711 TTTCAAAGCCCACGAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
454739 TTTCAAAGCCCACACAAGTCAGTGGCACCCT
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
* * * *
454770 TTT-AAAGTCCATGCAAGTAAGTAGCAC-AT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
454799 TTTC-AAGCCCACGAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
454826 TTTCAAAGCCCACAAGTCAGTAGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
454854 TTTCAAAGCCCATACAAGTCAGTGGCACCCT
1 TTTCAAAGCCC--ACAAGTCAGTGGCACTCT
* *
454885 TTT-AAAGCCCACAAGTTAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
454912 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
454940 TTTCAAAGCCCACAAGTCAGTGACACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* **
454969 TTTCAAAGCCCACAAGCCAGTAGTAACTCT
1 TTTCAAAGCCCACAAGTCAGT-GGCACTCT
* * *
454999 TTTCAAAGCCCACACGTGTCGGTGGCAACTTT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
*
455031 TTTCAAAGCCTACAA
1 TTTCAAAGCCCACAA
455046 AAGTTAGTGG
Statistics
Matches: 815, Mismatches: 77, Indels: 81
0.84 0.08 0.08
Matches are distributed among these distances:
27 103 0.13
28 370 0.45
29 124 0.15
30 142 0.17
31 40 0.05
32 36 0.04
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:455191 original size:44 final size:46
Alignment explanation
Indices: 455134--455242 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 46
455124 GCTAGCATTC
* *
455134 AATCAGCATATTGGCACCTTT-ATTAGCCTAATGTCGCTGGCCTTG
1 AATCAGCACATTGGCACCTTTCATTAGCCCAATGTCGCTGGCCTTG
* *
455179 -ATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTCGCTGGCCTTG
1 AATCAGCACATTGG--CACCTTT-CATTAGCCCAATGTCGCTGGCCTTG
**
455227 AATTGGCACATTGGCA
1 AATCAGCACATTGGCA
455243 TTCCTCTCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
44 12 0.23
46 6 0.11
47 2 0.04
48 22 0.42
49 11 0.21
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (46 bp):
AATCAGCACATTGGCACCTTTCATTAGCCCAATGTCGCTGGCCTTG
Found at i:455645 original size:20 final size:19
Alignment explanation
Indices: 455616--455691 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
455606 TTTTTACCCA
*
455616 AATGTATCGATACATTTTT
1 AATGTATCGATACATTTAT
* *
455635 CAATATATCGATACATGTAT
1 -AATGTATCGATACATTTAT
* *
455655 GAATGTATCGATATATTCTGT
1 -AATGTATCGATACATT-TAT
455676 AATGTATCGATACATT
1 AATGTATCGATACATT
455692 ATGTCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (19 bp):
AATGTATCGATACATTTAT
Found at i:455684 original size:40 final size:39
Alignment explanation
Indices: 455616--455694 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
455606 TTTTTACCCA
*
455616 AATGTATCGATACATTTTTCAATATATCGATACATGTATG
1 AATGTATCGATACATTTGTCAATATATCGATACAT-TATG
* *
455656 AATGTATCGATATATTCTGT-AATGTATCGATACATTATG
1 AATGTATCGATACATT-TGTCAATATATCGATACATTATG
455695 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
39 4 0.11
40 29 0.83
41 2 0.06
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (39 bp):
AATGTATCGATACATTTGTCAATATATCGATACATTATG
Found at i:460647 original size:3 final size:3
Alignment explanation
Indices: 460639--460663 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
460629 TAGCAAAAAA
460639 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
460664 TTAATGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:460721 original size:9 final size:9
Alignment explanation
Indices: 460672--460722 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
460662 TTTTAATGCA
460672 TAAATATTT
1 TAAATATTT
460681 CT-AATATTT
1 -TAAATATTT
*
460690 TAAAAATTAT
1 TAAATATT-T
*
460700 TATAATGTTT
1 TA-AATATTT
460710 TAAATATTT
1 TAAATATTT
460719 TAAA
1 TAAA
460723 ATAATAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
8 1 0.03
9 22 0.65
10 7 0.21
11 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (9 bp):
TAAATATTT
Found at i:461536 original size:25 final size:26
Alignment explanation
Indices: 461485--461537 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
461475 AAAAGCTTAT
* *
461485 ATAATTATTTTATAATATTTATATAA
1 ATAATTATTTTATAATAATAATATAA
*
461511 ATAATTATTTT-TAATAATAATTTAA
1 ATAATTATTTTATAATAATAATATAA
461536 AT
1 AT
461538 TGCTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAATTATTTTATAATAATAATATAA
Found at i:462316 original size:31 final size:32
Alignment explanation
Indices: 462257--462317 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
462247 CGAAAATGTA
*
462257 ATGAATATTAGGCATAATTACTCGTAAATTTG
1 ATGAATATTAGGCATAATTACTCATAAATTTG
*
462289 ATGAATATTA-G-ATTAATTATTCATAAATT
1 ATGAATATTAGGCA-TAATTACTCATAAATT
462318 CAATAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.04
31 15 0.58
32 10 0.38
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (32 bp):
ATGAATATTAGGCATAATTACTCATAAATTTG
Found at i:462635 original size:3 final size:3
Alignment explanation
Indices: 462627--462668 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
462617 TGAAAACTAT
462627 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
462669 TCACATTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:464024 original size:16 final size:16
Alignment explanation
Indices: 463999--464037 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
463989 AATAAATATT
* *
463999 ATTATAATTAATTATA
1 ATTATTATTAATAATA
464015 ATTATTATTAATAATA
1 ATTATTATTAATAATA
*
464031 AATATTA
1 ATTATTA
464038 ATAAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATTATTAATAATA
Found at i:464028 original size:13 final size:13
Alignment explanation
Indices: 463988--464041 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
463978 TAAATATATG
*
463988 TAATAAATATTAT
1 TAATAATTATTAT
464001 T-ATAATTA--AT
1 TAATAATTATTAT
464011 T-ATAATTATTAT
1 TAATAATTATTAT
* *
464023 TAATAATAAATAT
1 TAATAATTATTAT
464036 TAATAA
1 TAATAA
464042 AAAATTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 10 0.29
12 9 0.26
13 16 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATAATTATTAT
Found at i:464382 original size:22 final size:22
Alignment explanation
Indices: 464357--464399 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
464347 TATAAATTTT
* *
464357 AATATATTAAAAATTTATATTA
1 AATAAATTAAAAATATATATTA
*
464379 AATAAATTTAAAATATATATT
1 AATAAATTAAAAATATATATT
464400 TATGTTATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATAAATTAAAAATATATATTA
Found at i:465754 original size:17 final size:16
Alignment explanation
Indices: 465732--465765 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
465722 TTATCCAACA
465732 AAATTTAAAAATAATTT
1 AAATTT-AAAATAATTT
*
465749 AAATTTGAAATAATTT
1 AAATTTAAAATAATTT
465765 A
1 A
465766 TATTAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AAATTTAAAATAATTT
Found at i:466397 original size:13 final size:13
Alignment explanation
Indices: 466379--466404 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
466369 TACAGCAAGT
466379 ATGTATCGATACA
1 ATGTATCGATACA
466392 ATGTATCGATACA
1 ATGTATCGATACA
466405 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:468646 original size:21 final size:21
Alignment explanation
Indices: 468613--468657 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
468603 TTGCAAGTTG
*
468613 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
468635 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
468655 AAA
1 AAA
468658 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:470481 original size:15 final size:15
Alignment explanation
Indices: 470461--470491 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
470451 TAAAAATGTC
*
470461 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
470476 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
470491 C
1 C
470492 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:472589 original size:13 final size:13
Alignment explanation
Indices: 472571--472596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
472561 ACATTTTTCT
472571 TTGTATCGATACA
1 TTGTATCGATACA
472584 TTGTATCGATACA
1 TTGTATCGATACA
472597 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:472741 original size:21 final size:21
Alignment explanation
Indices: 472717--472763 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
472707 AAATCTTTTG
472717 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
472738 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
472758 CAAAAT
1 CAAAAT
472764 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:472760 original size:20 final size:19
Alignment explanation
Indices: 472719--472761 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
472709 ATCTTTTGCA
472719 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
472739 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
472759 AAA
1 AAA
472762 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Done.