Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold128
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: 1835488
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 2 of 11
Found at i:224019 original size:20 final size:20
Alignment explanation
Indices: 223994--224107 Score: 174
Period size: 20 Copynumber: 5.7 Consensus size: 20
223984 TTTTACCTAG
* * * *
223994 ATGTATCGATAAATTTTTTA
1 ATGTATCGATACATGTATGA
224014 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
224034 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
224054 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
*
224074 CTGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
*
224094 ATGTATTGATACAT
1 ATGTATCGATACAT
224108 TGTGTTTTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 87 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATGA
Found at i:224031 original size:12 final size:12
Alignment explanation
Indices: 224014--224091 Score: 72
Period size: 12 Copynumber: 7.5 Consensus size: 12
224004 AAATTTTTTA
224014 ATGTATCGATAC
1 ATGTATCGATAC
224026 ATGTAT-G--A-
1 ATGTATCGATAC
224034 ATGTATCGATAC
1 ATGTATCGATAC
224046 ATGTAT-G--A-
1 ATGTATCGATAC
224054 ATGTATCGATAC
1 ATGTATCGATAC
224066 ATGTAT-G--AC
1 ATGTATCGATAC
224075 -TGTATCGATAC
1 ATGTATCGATAC
224086 ATGTAT
1 ATGTAT
224092 GAATGTATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 24
0.69 0.00 0.31
Matches are distributed among these distances:
8 17 0.31
9 7 0.13
11 7 0.13
12 23 0.43
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:224195 original size:50 final size:51
Alignment explanation
Indices: 224075--224208 Score: 173
Period size: 51 Copynumber: 2.6 Consensus size: 51
224065 CATGTATGAC
* * * * *
224075 TGTATCGATACATGTATGAATGTATTGATACATTGTGTTTTTTTACCTAGA
1 TGTATCGATACATTTTTCAATGTATTGATACATTCTATTTTTTTACCTAGA
*
224126 TGTATCGATACATTCTTCAATGTATTGATACATTCTATCTTTTTT-CC-AGA
1 TGTATCGATACATTTTTCAATGTATTGATACATTCTAT-TTTTTTACCTAGA
* *
224176 TGTATCGCTACATTTTTCAATGTATCGATACAT
1 TGTATCGATACATTTTTCAATGTATTGATACAT
224209 CTAGTTAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
50 33 0.45
51 34 0.47
52 6 0.08
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (51 bp):
TGTATCGATACATTTTTCAATGTATTGATACATTCTATTTTTTTACCTAGA
Found at i:235764 original size:22 final size:21
Alignment explanation
Indices: 235729--235778 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
235719 TTTGTTGATG
*
235729 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
235749 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
235770 AATTTGAAG
1 ATTTTGAAG
235779 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:235775 original size:21 final size:22
Alignment explanation
Indices: 235736--235778 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
235726 ATGATTTTGA
* *
235736 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
235758 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
235779 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:235999 original size:80 final size:78
Alignment explanation
Indices: 235915--236245 Score: 312
Period size: 80 Copynumber: 4.2 Consensus size: 78
235905 AATTTTGATA
*
235915 TTTTAGAAGTAAAAATAAGGTTGGAGTATCCCTTCGAAAATGGTGGGGTTGCAGTATCCCATAAG
1 TTTTAGAAGTAAAAATAAGGTTGGAGTATCCCTTCGAAAATGGTGGGGTTG-AGTATCCC-TGAG
* * *
235980 AT-GAAAATTGTAGTG
64 ATAAAAAATT-CAATG
* *** * *
235995 TTTTAGAAGTAAAGACGGGGTTGGAGTAT-CCTATCGGAAATTGTGGGGTTGGAGTATCCCTGGA
1 TTTTAGAAGTAAAAATAAGGTTGGAGTATCCCT-TCGAAAATGGTGGGGTT-GAGTATCCCT-GA
236059 GATAAAGAAATTCAATG
63 GATAAA-AAATTCAATG
* * * * * *
236076 CTTTAGAAGTAAAAATAGGGTTAGAGTATCCCCTT-GAAAGTGGTGGGGTTAGAGCATCCCCGAG
1 TTTTAGAAGTAAAAATAAGGTTGGAGTAT-CCCTTCGAAAATGGTGGGGTT-GAGTATCCCTGAG
236140 ATAAAAAATTCAATG
64 ATAAAAAATTCAATG
* * * * * * *
236155 TTTTGGAAGTAAAAGTGAGGTTGGAGTATCCCCTCCAAAGTGGT-GGTTTAGAGTATCCC-GAGA
1 TTTTAGAAGTAAAAATAAGGTTGGAGTATCCCTTCGAAAATGGTGGGGTT-GAGTATCCCTGAGA
*
236218 TGAAAAATTCAATG
65 TAAAAAATTCAATG
*
236232 TTTTGGAAGTAAAA
1 TTTTAGAAGTAAAA
236246 GCGGGGTTAG
Statistics
Matches: 211, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
77 31 0.15
78 17 0.08
79 45 0.21
80 60 0.28
81 49 0.23
82 6 0.03
83 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.28
Consensus pattern (78 bp):
TTTTAGAAGTAAAAATAAGGTTGGAGTATCCCTTCGAAAATGGTGGGGTTGAGTATCCCTGAGAT
AAAAAATTCAATG
Found at i:236241 original size:77 final size:78
Alignment explanation
Indices: 236037--236263 Score: 287
Period size: 77 Copynumber: 2.9 Consensus size: 78
236027 ATCGGAAATT
* * * *
236037 GTGGGGTTGGAGTATCCCTGGAGATAAAGAAATTCAATGCTTTAGAAGTAAAAAT-AGGGTTAGA
1 GTGGGGTTAGAGTATCCC--GAGATAAA-AAATTCAATGTTTTGGAAGTAAAAGTGA-GGTTAGA
**
236101 GTATCCCCTTGAAAGTG
62 GTATCCCCTCCAAAGTG
* *
236118 GTGGGGTTAGAGCATCCCCGAGATAAAAAATTCAATGTTTTGGAAGTAAAAGTGAGGTTGGAGTA
1 GTGGGGTTAGAGTAT-CCCGAGATAAAAAATTCAATGTTTTGGAAGTAAAAGTGAGGTTAGAGTA
236183 TCCCCTCCAAAGTG
65 TCCCCTCCAAAGTG
* * * *
236197 GT-GGTTTAGAGTATCCCGAGATGAAAAATTCAATGTTTTGGAAGTAAAAGCGGGGTTAGAGTAT
1 GTGGGGTTAGAGTATCCCGAGATAAAAAATTCAATGTTTTGGAAGTAAAAGTGAGGTTAGAGTAT
236261 CCC
66 CCC
236264 TCTTGATGTT
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
77 49 0.38
78 10 0.08
79 46 0.35
80 9 0.07
81 13 0.10
82 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (78 bp):
GTGGGGTTAGAGTATCCCGAGATAAAAAATTCAATGTTTTGGAAGTAAAAGTGAGGTTAGAGTAT
CCCCTCCAAAGTG
Found at i:241214 original size:26 final size:27
Alignment explanation
Indices: 241174--241230 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
241164 GCCCTCTTGC
* *
241174 TCAAAGTATAAATTGACGAGGAATTAG
1 TCAAAGTATAAATTGACAAGCAATTAG
*
241201 TCAAA-TATATATTGACAAGCAATTAG
1 TCAAAGTATAAATTGACAAGCAATTAG
241227 TCAA
1 TCAA
241231 CGCCACGACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAAAGTATAAATTGACAAGCAATTAG
Found at i:250625 original size:22 final size:20
Alignment explanation
Indices: 250600--250650 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
250590 AGGAAATGTT
250600 TCGATACATGCTTCAAATTGTA
1 TCGATACAT--TTCAAATTGTA
**
250622 TCGATACATTTCTCATTGTA
1 TCGATACATTTCAAATTGTA
250642 TCGATACAT
1 TCGATACAT
250651 CTAGGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
22 9 0.33
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (20 bp):
TCGATACATTTCAAATTGTA
Found at i:267650 original size:55 final size:56
Alignment explanation
Indices: 267576--267729 Score: 195
Period size: 55 Copynumber: 2.8 Consensus size: 56
267566 AGTGGCATTT
* * *
267576 CTTTTCAAAGTCCACAACTCTGTGGCAACCTTTT-AATTCCACAACTCCATGGCATC
1 CTTTT-AAAGTCCACAACTCAGTGGCACCCTTTTAAAGTCCACAACTCCATGGCATC
* * **
267632 CTTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAAGTCCACAACTCCATGGCATC
* * *
267688 CTTTT-AAGTCCACAAATCAGTGGCACCCTTTCAAAGCCCACA
1 CTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAAGTCCACA
267730 CAAGTCGGTG
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
55 57 0.66
56 29 0.34
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (56 bp):
CTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAAGTCCACAACTCCATGGCATC
Found at i:268200 original size:28 final size:28
Alignment explanation
Indices: 267625--268225 Score: 549
Period size: 28 Copynumber: 20.8 Consensus size: 28
267615 CACAACTCCA
* * * * * *
267625 TGGCATCCTTTTAAAGTCCATAACTCCG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * * *
267653 TGGCACCCTTTTAAAGTCCACAACTCTG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * * *
267681 TGGCATCCTTT-TAAGTCCACAAATCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*
267708 TGGCACCCTTTCAAAGCCCACACAAGTCGG
1 TGGCACCCTTTCAAAG-CC-CACAAGTCAG
* *
267738 TGGCAACTCATTTGAAAGCCCACAGAAGTCAG
1 TGGC-AC-CCTTTCAAAGCCCAC--AAGTCAG
*
267770 TGGCAACCCATTTCAAAGCCCACACAAGTCGG
1 TGGC-ACCC-TTTCAAAG-CC-CACAAGTCAG
* *
267802 TGACAACCTATTTCAAAGCCCACAAGTCAG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTCAG
*** *
267832 TGGCATAATTTCAAAGCTCACACAAGTCGG
1 TGGCACCCTTTCAAAGC-C-CACAAGTCAG
* *
267862 TGACAACCTATTTCAAAGCCCACAAGTCAG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTCAG
***
267892 TGGCATAATTTCAAAGCTCACACAAGTCAG
1 TGGCACCCTTTCAAAGC-C-CACAAGTCAG
267922 TGGCAACCCATTTCAAAGCCCACAAGTCAG
1 TGGC-ACCC-TTTCAAAGCCCACAAGTCAG
*
267952 TGGCACCCTTTCAAAGCCCATAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
* * *
267980 TGGCACCCTTCCAAATCCCATAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
268008 TGGCACCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*
268036 TGGCACCCTTTCAAATCCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
** * * **
268064 TGGCATTCTTTCAAAGTCCATAAGTTGG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*
268092 TGGCATCCTTTTCAAAGCCCACAAGTC-G
1 TGGCA-CCCTTTCAAAGCCCACAAGTCAG
* * *
268120 ATGGCATCTTTTCAAAGCCCACAAATCAG
1 -TGGCACCCTTTCAAAGCCCACAAGTCAG
268149 TGGCACCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
** * *
268177 TGGCATTCTTTCAAAGTCCACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAG
*
268205 TGACACCCTTTCAAAGCCCAC
1 TGGCACCCTTTCAAAGCCCAC
268226 GCAAGTCGAT
Statistics
Matches: 483, Mismatches: 68, Indels: 44
0.81 0.11 0.07
Matches are distributed among these distances:
27 23 0.05
28 267 0.55
29 30 0.06
30 79 0.16
31 11 0.02
32 68 0.14
33 2 0.00
34 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TGGCACCCTTTCAAAGCCCACAAGTCAG
Found at i:268387 original size:48 final size:48
Alignment explanation
Indices: 268317--268533 Score: 326
Period size: 48 Copynumber: 4.5 Consensus size: 48
268307 GTACCTTTAC
* *
268317 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
1 TAGCTCGATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* *
268365 TAGCTCGATGTCGTTGGACTTGAATCAGCACTTTGTCCACTTTTCCCT
1 TAGCTCGATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* * *
268413 TAGCTCGATGTCGTTGGCCTTGAATCAACACATTGTTCGCTTTTCCCT
1 TAGCTCGATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
** * *
268461 TAGCTCGATGTCCCTGGTCTTGAATCAGCACATTGTCCATTTTTCCCT
1 TAGCTCGATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
*
268509 TAGCACGATGTCGTTGGCCTTGAAT
1 TAGCTCGATGTCGTTGGCCTTGAAT
268534 TGGCATATTG
Statistics
Matches: 149, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 149 1.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.36
Consensus pattern (48 bp):
TAGCTCGATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
Found at i:268868 original size:10 final size:10
Alignment explanation
Indices: 268853--268888 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
268843 GACTCTTTTT
268853 AAAAAAACAA
1 AAAAAAACAA
268863 AAAAAAACAA
1 AAAAAAACAA
*
268873 AAAAAAGAGAA
1 AAAAAA-ACAA
268884 AAAAA
1 AAAAA
268889 GAGGTGCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:274329 original size:20 final size:19
Alignment explanation
Indices: 274275--274330 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
274265 AAAACCCTTA
*
274275 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
274295 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
274315 AATGTATCGATACATG
1 AAAGTATCGATACATG
274331 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:274424 original size:20 final size:20
Alignment explanation
Indices: 274381--274432 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
274371 GTAGCCAAAC
*
274381 TTGTATCGATACACAAAATA
1 TTGTATCGATACACAAAAAA
274401 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
274420 TTGTATCGATACA
1 TTGTATCGATACA
274433 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:278492 original size:15 final size:16
Alignment explanation
Indices: 278472--278506 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
278462 TAAAAATGTC
*
278472 CAAAATGAGGAAGC-T
1 CAAAATGAAGAAGCTT
278487 CAAAATGAAGAAGCTT
1 CAAAATGAAGAAGCTT
278503 CAAA
1 CAAA
278507 CGAAATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.51, C:0.14, G:0.20, T:0.14
Consensus pattern (16 bp):
CAAAATGAAGAAGCTT
Found at i:282704 original size:20 final size:19
Alignment explanation
Indices: 282650--282705 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
282640 AAAACCCTTA
*
282650 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
282670 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
282690 AATGTATCGATACATG
1 AAAGTATCGATACATG
282706 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:282799 original size:20 final size:20
Alignment explanation
Indices: 282756--282807 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
282746 GTAGCCAAAC
* *
282756 TTGTATTGATACACAAAATA
1 TTGTATCGATACACAAAAAA
282776 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
282795 TTGTATCGATACA
1 TTGTATCGATACA
282808 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:287540 original size:49 final size:51
Alignment explanation
Indices: 287468--287581 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
287458 TGAAGAGTAG
* *
287468 ATGTATCGATACATTCTG-TTTTTTA-CCAGATGTATTGATACACTTTTGA
1 ATGTATCGATACATTCTGTTTTTTTACCCAGATGTATCGATACACTTTTCA
* *
287517 ATGTATTGATACATTCTGTTTTTTTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTGTTTTTTTACCCAGATGTATCGATACACTTTTCA
*
287568 ATATATCGATACAT
1 ATGTATCGATACAT
287582 CTAGTTAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 17 0.30
50 7 0.12
51 33 0.58
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (51 bp):
ATGTATCGATACATTCTGTTTTTTTACCCAGATGTATCGATACACTTTTCA
Found at i:292874 original size:72 final size:72
Alignment explanation
Indices: 292757--292931 Score: 332
Period size: 72 Copynumber: 2.4 Consensus size: 72
292747 TCCTGTAGCT
*
292757 ATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAGCAGTTTATAGCCGTT
1 ATGTACCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAGCAGTTTATAGCCGTT
292822 TAAAGCA
66 TAAAGCA
292829 ATGTACCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAGCAGTTTATAGCCGTT
1 ATGTACCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAGCAGTTTATAGCCGTT
292894 TAAAGCA
66 TAAAGCA
*
292901 ATGTACCGATACAATTCATCATGTATCGATA
1 ATGTACCGATACAATTCATAATGTATCGATA
292932 TAATGTATTG
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 101 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (72 bp):
ATGTACCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAGCAGTTTATAGCCGTT
TAAAGCA
Found at i:293028 original size:20 final size:20
Alignment explanation
Indices: 293005--293053 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
292995 TCATGTATTG
*
293005 ATACAATTGTCCATGTATCA
1 ATACAATTGTACATGTATCA
* *
293025 ATACAA-TGAACATGTATCT
1 ATACAATTGTACATGTATCA
293044 ATAC-ATTGTA
1 ATACAATTGTA
293054 TCGATACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.71
20 6 0.25
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (20 bp):
ATACAATTGTACATGTATCA
Found at i:295761 original size:25 final size:24
Alignment explanation
Indices: 295733--295783 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
295723 AGGCAAAAAG
295733 AATGAAACAGTCACATTTTTGTTTA
1 AATGAAACAGT-ACATTTTTGTTTA
* *
295758 AATGTATCAGTACATTTTTGTTTA
1 AATGAAACAGTACATTTTTGTTTA
295782 AA
1 AA
295784 GTCCCAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (24 bp):
AATGAAACAGTACATTTTTGTTTA
Found at i:309367 original size:20 final size:20
Alignment explanation
Indices: 309342--309380 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
309332 ACTACCCTAA
*
309342 GTAAAATGTATCGATACATG
1 GTAAAAAGTATCGATACATG
309362 GTAAAAAGTATCGATACAT
1 GTAAAAAGTATCGATACAT
309381 TATGCCCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (20 bp):
GTAAAAAGTATCGATACATG
Found at i:309803 original size:23 final size:23
Alignment explanation
Indices: 309777--309820 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
309767 GCATTCAACC
*
309777 TTGGGTTATAATCTCTT-AAGAAT
1 TTGGGGTATAAT-TCTTGAAGAAT
309800 TTGGGGTATAATTCTTGAAGA
1 TTGGGGTATAATTCTTGAAGA
309821 GATTGTGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (23 bp):
TTGGGGTATAATTCTTGAAGAAT
Found at i:315266 original size:19 final size:19
Alignment explanation
Indices: 315242--315292 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
315232 TAGCGATACA
315242 ATGTATCGATACAAAACTT
1 ATGTATCGATACAAAACTT
*
315261 ATGTATCGATACAACACTT
1 ATGTATCGATACAAAACTT
315280 ATGTATCGATACA
1 ATGTATCGATACA
315293 GTTATACATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAAAACTT
Found at i:315950 original size:31 final size:31
Alignment explanation
Indices: 315909--316359 Score: 245
Period size: 31 Copynumber: 14.4 Consensus size: 31
315899 GAGTTAGGGA
* * *
315909 CACCCTAGTCAAAGCTCGTACAAGTTGGTGG
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
* *
315940 CACCCGAGTCAAAGCCCACACAAGCTGGTGG
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
* *
315971 CACCCGAGTCAAAGCCTGCACAAGTTGGCGG
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
* * *
316002 CACCCTAGTCAAAGCCCACACAAGTAGGTGG
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
* * * * ***
316033 CACTCAAGTCAAAGCTCGCACAAGCTGGCAA
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
* * * * *
316064 CACCTGAGTCTAAGCCCACACGAGTTGGTAG
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
* * * * ***
316095 CACCTGAGTCTAAGCCGACACACAGAAGTCGACAG
1 CACCCGAGTCAAAGCC--CGCAC--AAGTTGGTGG
* ** * * * *
316130 CACCCGAGTCCAAGCTTGTACGAGCTGGCGG
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
** * * * *
316161 CACCAAAGTCAAAGCTCGCACAAGTTAGCGA
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
* * *
316192 CACTCGAGTCAAAGCCCACACAAGCTGGCTGG
1 CACCCGAGTCAAAGCCCGCACAAGTTGG-TGG
** * ***
316224 CACCCGAGTCAAAGCTGGCACAAGCTGCCAG
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
* * ** * * *
316255 CACCCGAGTCTAAGCCTGCATGAGTTAGCGA
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
* * * * *
316286 CACCCTAGTCAAAGCCCACAAAAGCTAGTGG
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
** * *
316317 CACCCGAGTCAAAGCCCATACGAGTTAGTGG
1 CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
*
316348 CACCCTAGTCAA
1 CACCCGAGTCAA
316360 GTCCACATTA
Statistics
Matches: 317, Mismatches: 98, Indels: 10
0.75 0.23 0.02
Matches are distributed among these distances:
31 267 0.84
32 24 0.08
33 7 0.02
35 19 0.06
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (31 bp):
CACCCGAGTCAAAGCCCGCACAAGTTGGTGG
Found at i:315994 original size:62 final size:62
Alignment explanation
Indices: 315909--316359 Score: 314
Period size: 62 Copynumber: 7.2 Consensus size: 62
315899 GAGTTAGGGA
* * * * *
315909 CACCCTAGTCAAAGCTCGTACAAGTTGGTGGCACCCGAGTCAAAGCCCACACAAGCTGGTGG
1 CACCCGAGTCAAAGCTCGCACAAGCTGGCGGCACCCGAGTCAAAGCCCACACGAGCTGGTGG
* * *
315971 CACCCGAGTCAAAGC-CTGCACAAGTTGGCGGCACCCTAGTCAAAGCCCACACAAG-TAGGTGG
1 CACCCGAGTCAAAGCTC-GCACAAGCTGGCGGCACCCGAGTCAAAGCCCACACGAGCT-GGTGG
* * ** * * * *
316033 CACTCAAGTCAAAGCTCGCACAAGCTGGCAACACCTGAGTCTAAGCCCACACGAGTTGGTAG
1 CACCCGAGTCAAAGCTCGCACAAGCTGGCGGCACCCGAGTCAAAGCCCACACGAGCTGGTGG
* * * * * * **** *
316095 CACCTGAGTCTAAGC-CGACACACAGAAGTCGACAGCACCCGAGTCCAAGCTTGTACGAGCTGGC
1 CACCCGAGTCAAAGCTCG-CACA-AG--CT-GGCGGCACCCGAGTCAAAGCCCACACGAGCTGGT
316159 GG
61 GG
** * * * * *
316161 CACCAAAGTCAAAGCTCGCACAAGTTAGCGACACTCGAGTCAAAGCCCACACAAGCTGGCTGG
1 CACCCGAGTCAAAGCTCGCACAAGCTGGCGGCACCCGAGTCAAAGCCCACACGAGCTGG-TGG
* * * * ** * * * * *
316224 CACCCGAGTCAAAGCTGGCACAAGCTGCCAGCACCCGAGTCTAAGCCTGCATGAGTTAGCGA
1 CACCCGAGTCAAAGCTCGCACAAGCTGGCGGCACCCGAGTCAAAGCCCACACGAGCTGGTGG
* * * * * * * * *
316286 CACCCTAGTCAAAGCCCACAAAAGCTAGTGGCACCCGAGTCAAAGCCCATACGAGTTAGTGG
1 CACCCGAGTCAAAGCTCGCACAAGCTGGCGGCACCCGAGTCAAAGCCCACACGAGCTGGTGG
*
316348 CACCCTAGTCAA
1 CACCCGAGTCAA
316360 GTCCACATTA
Statistics
Matches: 298, Mismatches: 80, Indels: 22
0.75 0.20 0.05
Matches are distributed among these distances:
61 4 0.01
62 198 0.66
63 50 0.17
65 3 0.01
66 41 0.14
67 2 0.01
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (62 bp):
CACCCGAGTCAAAGCTCGCACAAGCTGGCGGCACCCGAGTCAAAGCCCACACGAGCTGGTGG
Found at i:316016 original size:93 final size:93
Alignment explanation
Indices: 315900--316331 Score: 372
Period size: 93 Copynumber: 4.6 Consensus size: 93
315890 GCCCACACTG
* * ** * * *
315900 AGTTAGGGACACCCTAGTCAAAGCTCGTACAAGTTGGTGGCACCCGAGTCAAAGCCCACACAAGC
1 AGTTAGCGACACCCTAGTCAAAGCCCACACAAGCTGGTGGCACCCGAGTCAAAGCTCGCACAAGC
*
315965 TGGTGGCACCCGAGTCAAAGCCTGCACA
66 TGGCGGCACCCGAGTCAAAGCCTGCACA
* * * *
315993 AGTTGGCGGCACCCTAGTCAAAGCCCACACAAG-TAGGTGGCACTCAAGTCAAAGCTCGCACAAG
1 AGTTAGCGACACCCTAGTCAAAGCCCACACAAGCT-GGTGGCACCCGAGTCAAAGCTCGCACAAG
** * * ** *
316057 CTGGCAACACCTGAGTCTAAGCCCACACG
65 CTGGCGGCACCCGAGTCAAAGCCTGCACA
* *** * *
316086 AGTT-G-GTAGCA-CCTGAGTCTAAGCCGACACACAGAAG-TCGACAGCACCCGAGTCCAAGCTT
1 AGTTAGCG-A-CACCCT-AGTCAAAGCC--CACAC--AAGCT-GGTGGCACCCGAGTCAAAGCTC
* * **
316147 GTACGAGCTGGCGGCACCAAAGTCAAAG-CTCGCACA
58 GCACAAGCTGGCGGCACCCGAGTCAAAGCCT-GCACA
* * *
316183 AGTTAGCGACACTCGAGTCAAAGCCCACACAAGCTGGCTGGCACCCGAGTCAAAGCTGGCACAAG
1 AGTTAGCGACACCCTAGTCAAAGCCCACACAAGCTGG-TGGCACCCGAGTCAAAGCTCGCACAAG
* * * **
316248 CTGCCAGCACCCGAGTCTAAGCCTGCATG
65 CTGGCGGCACCCGAGTCAAAGCCTGCACA
* *
316277 AGTTAGCGACACCCTAGTCAAAGCCCACAAAAGCTAGTGGCACCCGAGTCAAAGC
1 AGTTAGCGACACCCTAGTCAAAGCCCACACAAGCTGGTGGCACCCGAGTCAAAGC
316332 CCATACGAGT
Statistics
Matches: 265, Mismatches: 59, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
91 1 0.00
92 5 0.02
93 110 0.42
94 74 0.28
95 12 0.05
96 1 0.00
97 58 0.22
98 3 0.01
99 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.14
Consensus pattern (93 bp):
AGTTAGCGACACCCTAGTCAAAGCCCACACAAGCTGGTGGCACCCGAGTCAAAGCTCGCACAAGC
TGGCGGCACCCGAGTCAAAGCCTGCACA
Found at i:318226 original size:24 final size:24
Alignment explanation
Indices: 318198--318277 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 24
318188 ATCGATACAT
318198 TCTTTAATGTATCGATGCATTTTG
1 TCTTTAATGTATCGATGCATTTTG
*
318222 TCTTTTTACCTAGATGTATCGATACA---T-
1 TC---TT---TA-ATGTATCGATGCATTTTG
318249 TCTTTAATGTATCGATGCATTTTG
1 TCTTTAATGTATCGATGCATTTTG
318273 TCTTT
1 TCTTT
318278 TTACCTAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 22
0.64 0.03 0.33
Matches are distributed among these distances:
20 12 0.28
21 2 0.05
23 1 0.02
24 9 0.21
27 4 0.09
28 1 0.02
30 2 0.05
31 12 0.28
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (24 bp):
TCTTTAATGTATCGATGCATTTTG
Found at i:318248 original size:51 final size:51
Alignment explanation
Indices: 318123--318311 Score: 301
Period size: 51 Copynumber: 3.7 Consensus size: 51
318113 AAAAGTCACA
* * *
318123 TTTTTACCCAAATGTATCGATACATT-TTTCAATGTATCGATACATTCTGTC
1 TTTTTACCCAGATGTATCGATACATTCTTT-AATGTATCGATGCATTTTGTC
318174 -TTTTACCCAGATGTATCGATACATTCTTTAATGTATCGATGCATTTTGTC
1 TTTTTACCCAGATGTATCGATACATTCTTTAATGTATCGATGCATTTTGTC
*
318224 TTTTTACCTAGATGTATCGATACATTCTTTAATGTATCGATGCATTTTGTC
1 TTTTTACCCAGATGTATCGATACATTCTTTAATGTATCGATGCATTTTGTC
* *
318275 TTTTTACCTAGATGTATCGATACATTTTTTAATGTAT
1 TTTTTACCCAGATGTATCGATACATTCTTTAATGTAT
318312 TGATACATCT
Statistics
Matches: 131, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
50 43 0.33
51 88 0.67
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.46
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCGATACATTCTTTAATGTATCGATGCATTTTGTC
Found at i:323771 original size:32 final size:30
Alignment explanation
Indices: 323735--323793 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
323725 GAAATCAAAT
323735 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
323767 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
323794 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:326677 original size:13 final size:13
Alignment explanation
Indices: 326659--326683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
326649 ATAATCTCCC
326659 TGTATCGATACAG
1 TGTATCGATACAG
326672 TGTATCGATACA
1 TGTATCGATACA
326684 AAGAAAAATG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:328783 original size:15 final size:15
Alignment explanation
Indices: 328763--328793 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
328753 CAATCGTTTG
*
328763 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
328778 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
328793 G
1 G
328794 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:330623 original size:21 final size:21
Alignment explanation
Indices: 330594--330638 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
330584 AAGTTTTTAT
*
330594 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
330614 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
330636 TTT
1 TTT
330639 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:332875 original size:13 final size:13
Alignment explanation
Indices: 332857--332882 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
332847 AATTTTTTTG
332857 TGTATCGATACAT
1 TGTATCGATACAT
332870 TGTATCGATACAT
1 TGTATCGATACAT
332883 ACTTTGTGGA
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):
TGTATCGATACAT
Found at i:334649 original size:20 final size:20
Alignment explanation
Indices: 334624--334780 Score: 107
Period size: 20 Copynumber: 7.8 Consensus size: 20
334614 TTTTCACAAT
*
334624 TTGTATCGATACATTGTTCG
1 TTGTATCGATACATTGTTCA
334644 TTGTATCGATACATTCTGGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
334672 GTTGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
334693 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
334713 TTATATCGAT--A----T-A
1 TTGTATCGATACATTGTTCA
*
334726 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
334746 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
334766 ATGTATCGATACATT
1 TTGTATCGATACATT
334781 CAGGCATTTT
Statistics
Matches: 112, Mismatches: 7, Indels: 36
0.72 0.05 0.23
Matches are distributed among these distances:
13 10 0.09
14 1 0.01
15 1 0.01
18 1 0.01
19 2 0.02
20 71 0.63
21 4 0.04
22 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
27 1 0.01
28 2 0.02
29 13 0.12
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:334734 original size:33 final size:33
Alignment explanation
Indices: 334692--334756 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
334682 TACATTTTGC
334692 ATTGTATCGATACATTGCTCATTATATCGATAT
1 ATTGTATCGATACATTGCTCATTATATCGATAT
*
334725 ATTGTATCGATACATTGCTCATTGTATCGATA
1 ATTGTATCGATACATTGCTCATTATATCGATA
334757 CATTTTACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
ATTGTATCGATACATTGCTCATTATATCGATAT
Found at i:337140 original size:51 final size:51
Alignment explanation
Indices: 337063--337226 Score: 163
Period size: 51 Copynumber: 3.2 Consensus size: 51
337053 TTTCATCTCA
* * * * * *
337063 GGGATACTCCGA-TCCCGGTTTCATTTCCAAAACATCAATATTT-CTTAATTG
1 GGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAAT-TTTCCATAATCG
* *
337114 GGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCG
* * * * *
337165 GGGATACTCCAACTACGATTTTATTTTCAAAACACTGACTTTT-CACAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACAC-CAATTTTCCATAATCG
337216 GGGATACTCCA
1 GGGATACTCCA
337227 TCCCTGTTAT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
50 3 0.03
51 87 0.92
52 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAATCG
Found at i:337255 original size:79 final size:79
Alignment explanation
Indices: 337164--337569 Score: 443
Period size: 79 Copynumber: 5.2 Consensus size: 79
337154 TTCCATAATC
** * *
337164 GGGGATACTCCAACTACGATTTTATTT-TCAAAACA-CTGACTTTTCACAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACATC-AATTTTTCACAATCGGGGATACTCCA
* *
337227 TCCCTGTTATTTTCAA
64 ACCCTGTTATTTTCGA
* * * * *
337243 GGGGACACTCCAACCCCTG-TTTCATTTCAAAAACATCAAGTTTT--C-AT-TGGGATACTCCAA
1 GGGGATACTCCAACCCC-GATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAA
337303 CCCTGTTATTTTCGA
65 CCCTGTTATTTTCGA
* ** * * * *
337318 GGGGATACCCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
*
337383 CCCGTTA-TTTCTGA
66 CCTGTTATTTTC-GA
** * * *
337397 GGAAATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAGTCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
*
337462 CCTGTTATTTCCGA
66 CCTGTTATTTTCGA
* * *
337476 GGGGATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAA-
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
337540 CCTCGTTATTTTCGA
66 CCT-GTTATTTTCGA
*
337555 GGGGATACTCTAACC
1 GGGGATACTCCAACC
337570 TCGTTATTAT
Statistics
Matches: 271, Mismatches: 45, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
74 1 0.00
75 58 0.21
76 2 0.01
77 1 0.00
78 9 0.03
79 195 0.72
80 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
CCTGTTATTTTCGA
Found at i:337533 original size:158 final size:154
Alignment explanation
Indices: 337164--337552 Score: 450
Period size: 154 Copynumber: 2.5 Consensus size: 154
337154 TTCCATAATC
* *
337164 GGGGATACTCCAACTACGATTTTATTT-TCAAAA-CA-CTGACTTTTCACAATCGGGGATACTCC
1 GGGGATACTCCAAC-CCGATTTTATTTCT-AAAATCATC-GATTTTTCACAATCGGGGATACTCC
* * **
337226 ATCCCTGTTATTTTCAAGGGGACACTCCAACCCCTGTTTCATTTCAAAAACATCAAGTTTTCATT
63 AACCCCGTTATTTTCAAGGAAACACTCCAACCCCTGTTTCATTTCAAAAACATCAAGTTTTCATT
*
337291 GGGATACTCCAACCCTGTTATTTTCGA
128 GGGATACTCCAACCCTGTTATTTCCGA
* ** ** * *
337318 GGGGATACCCCAACCCCGGCTTTATTTCTAAAAT-ATTAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAATCATCGATTTTTCACAATCGGGGATACTCCAA
* * * * *
337382 CCCCGTTA-TTTCTGAGGAAATACTCCAACCCC-GATTTTATTTCTAAAACATCAATTTTTCATA
65 CCCCGTTATTTTC-AAGGAAACACTCCAACCCCTG-TTTCATTTCAAAAACATCAAGTTTTCAT-
337445 GTCGAGGATACTCCAACCCTGTTATTTCCGA
127 -T-G-GGATACTCCAACCCTGTTATTTCCGA
337476 GGGGATACTCCAATCCCGATTTTATTTCT-AAATCATCGATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAATCATCGATTTTTCACAATCGGGGATACTCCAA
*
337540 CCTCGTTATTTTC
65 CCCCGTTATTTTC
337553 GAGGGGATAC
Statistics
Matches: 195, Mismatches: 28, Indels: 19
0.81 0.12 0.08
Matches are distributed among these distances:
153 5 0.03
154 95 0.49
155 2 0.01
156 1 0.01
157 5 0.03
158 83 0.43
159 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (154 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCAAGGAAACACTCCAACCCCTGTTTCATTTCAAAAACATCAAGTTTTCATTGGG
ATACTCCAACCCTGTTATTTCCGA
Found at i:339542 original size:27 final size:27
Alignment explanation
Indices: 339486--339560 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
339476 TCCCTTCTCA
*
339486 AAGTCCACAAGTTAGTGGTACCTCTTCG
1 AAGTCCACAA-TTAGTGGCACCTCTTCG
* * *
339514 AAGTCCACAATCAATGGCACCTTTTCG
1 AAGTCCACAATTAGTGGCACCTCTTCG
339541 AAGTCCACAATTAGTGGCAC
1 AAGTCCACAATTAGTGGCAC
339561 TTGCTGTGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 31 0.76
28 10 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (27 bp):
AAGTCCACAATTAGTGGCACCTCTTCG
Found at i:339771 original size:33 final size:33
Alignment explanation
Indices: 339734--339921 Score: 168
Period size: 33 Copynumber: 5.8 Consensus size: 33
339724 CCAGTGGATA
*
339734 AACCTTTCTCAAAAGCCCACACAAGTTAGTGGC
1 AACCTTTCTCAAAAGCCCACACAAGTTGGTGGC
* * *
339767 AACCTTTTTCCAAAGCCCACACAAGCTGGTGGC
1 AACCTTTCTCAAAAGCCCACACAAGTTGGTGGC
* * * * **
339800 AACCTTTTTCCAAAGCCAACACAAGCTGGTGAT
1 AACCTTTCTCAAAAGCCCACACAAGTTGGTGGC
* *
339833 AACC-TTCTTC-AAAGGCCACACAAGTTGGTGGT
1 AACCTTTC-TCAAAAGCCCACACAAGTTGGTGGC
* * * * * * *
339865 AACCTTT-TCTAAAGCTCACATAAATCGATGCC
1 AACCTTTCTCAAAAGCCCACACAAGTTGGTGGC
339897 AACC-TTCTCAAAAGCCCACACAAGT
1 AACCTTTCTCAAAAGCCCACACAAGT
339922 CGATGGCATC
Statistics
Matches: 127, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
31 4 0.03
32 56 0.44
33 67 0.53
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (33 bp):
AACCTTTCTCAAAAGCCCACACAAGTTGGTGGC
Found at i:339901 original size:32 final size:32
Alignment explanation
Indices: 339865--339926 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
339855 AGTTGGTGGT
* * * *
339865 AACCTTTTCTAAAGCTCACATAAATCGATGCC
1 AACCTTCTCAAAAGCCCACACAAATCGATGCC
*
339897 AACCTTCTCAAAAGCCCACACAAGTCGATG
1 AACCTTCTCAAAAGCCCACACAAATCGATG
339927 GCATCTCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.35, C:0.31, G:0.11, T:0.23
Consensus pattern (32 bp):
AACCTTCTCAAAAGCCCACACAAATCGATGCC
Found at i:340086 original size:53 final size:53
Alignment explanation
Indices: 340009--340144 Score: 134
Period size: 52 Copynumber: 2.6 Consensus size: 53
339999 GTCCAATGTT
* * * * *
340009 GCTA-GCCTTGAATTAGCACATTGGCA-CTTTTTTCTTTCTTAAATCTAATATC
1 GCTAGGCCTTGAATCAGCATATTGGCAGCTTTGTTATCTC-TAAATCTAATATC
* * *
340061 GCTAGGCCTTGAATCAGCATTTTGGCAGCTTTGTTATCTCTAAGTCTGATATC
1 GCTAGGCCTTGAATCAGCATATTGGCAGCTTTGTTATCTCTAAATCTAATATC
* * * *
340114 -ATCGGTCTTGAATCAGCATATTGGCATCTTT
1 GCTAGGCCTTGAATCAGCATATTGGCAGCTTT
340145 ATCACTCCTA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
52 30 0.43
53 30 0.43
54 9 0.13
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (53 bp):
GCTAGGCCTTGAATCAGCATATTGGCAGCTTTGTTATCTCTAAATCTAATATC
Found at i:349542 original size:20 final size:20
Alignment explanation
Indices: 349519--349593 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
349509 AAGTTCCCAG
349519 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*** *
349539 ATGTATCGATACATGCATAA
1 ATGTATCGATACATTTTTCA
349559 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
349579 ATGTATCGATACATT
1 ATGTATCGATACATT
349594 CTGTCTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:363857 original size:18 final size:17
Alignment explanation
Indices: 363836--363891 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
363826 AAAAAAACCC
*
363836 AAAAAAATAAAAAAATAA
1 AAAAAAACAAAAAAA-AA
* *
363854 AAAAAAACAAACCAAGAA
1 AAAAAAACAAA-AAAAAA
*
363872 AAAATAACAAAAAAAAA
1 AAAAAAACAAAAAAAAA
363889 AAA
1 AAA
363892 GAAAGAGGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 7 0.23
18 22 0.71
19 2 0.06
ACGTcount: A:0.86, C:0.07, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAA
Found at i:365142 original size:28 final size:28
Alignment explanation
Indices: 365101--365847 Score: 792
Period size: 28 Copynumber: 26.1 Consensus size: 28
365091 CGTTCATCTC
*
365101 TTCAAAGCCAACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
365129 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
365157 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * **
365186 TTCAAAGCCTACACGAGTCGGTGGCAACTTGT
1 TTCAAAGCC--CACAAGTCAGTGGC-AC-CCT
* *
365218 TTTAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
365246 TTCAAAGCCCACGAGTCGGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* ** *
365276 TTCAAAGGCCACAAGTTGGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
365304 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
365332 TTCAAAGCCCATAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
365361 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
365389 TTCAAAGCCCACAAGTTAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * **
365418 TTCAAAGCCTACACGAGTCGGTGGTAACTTTT
1 TTCAAAGCC--CACAAGTCAGTGG-CAC-CCT
* * * *
365450 TTCAAAGCCTAGAAGTCAGTGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
365478 TTCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
*
365508 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
365536 TTCAAAGCCCATAATTTATTAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
365564 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
365593 TTAAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
365621 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
365649 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
365677 TTCAAAGCCTACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
*
365706 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
365734 TTCAATGCCCACAAGTGAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
365762 TTCAAAGTCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
365790 TTCAAAGCTCACAAGACAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
365818 TTCAAAGCCCAGAAGTTAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
365846 TT
1 TT
365848 TCGAGGCCCA
Statistics
Matches: 601, Mismatches: 103, Indels: 30
0.82 0.14 0.04
Matches are distributed among these distances:
28 387 0.64
29 104 0.17
30 63 0.10
31 21 0.03
32 26 0.04
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:365391 original size:85 final size:85
Alignment explanation
Indices: 365101--365847 Score: 843
Period size: 85 Copynumber: 8.7 Consensus size: 85
365091 CGTTCATCTC
* * *
365101 TTCAAAGCCAACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
365166 CACAAGTCAGTGGCACTCTT
66 CACAAGTCAGTGGCACTCTT
* * ** * *
365186 TTCAAAGCCTACACGAGTCGGTGGCAACTTGTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAA
1 TTCAAAGCC--CACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* * *
365251 AGCCCACGAGTCGGTGGTAACTCTT
62 AGCCCACAAGTCAGTGG-CACTCTT
* **
365276 TTCAAAGGCCACAAGTTGGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* *
365341 CATAAGTTAGTGGCACTCTT
66 CACAAGTCAGTGGCACTCTT
* * * *
365361 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAATGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* * * *
365426 CTACACGAGTCGGTGGTAACTTTT
65 C--CACAAGTCAGTGG-CACTCTT
* * * * * *
365450 TTCAAAGCCTAGAAGTCAGTGACATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAG
* *
365515 CCCACAAGTTAGTGGCAC-CCT
64 CCCACAAGTCAGTGGCACTCTT
* * * * * * * * *
365536 TTCAAAGCCCATAATTTATTAGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTAAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
365601 CCACAAGTCAGTGGCA-TCCT
65 CCACAAGTCAGTGGCACTCTT
* * *
365621 TTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* *
365686 TACAAGTCAGTGGCACCCTT
66 CACAAGTCAGTGGCACTCTT
* * *
365706 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAATGCCCACAAGTGAGTGGCACCCTTTCAAAGTC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* *
365771 CACAAGTCAATGGCAC-CCT
66 CACAAGTCAGTGGCACTCTT
* * * * *
365790 TTCAAAGCTCACAAGACAGTGGCATCCTTTCAAAGCCCAGAAGTTAGTGGCACTCTTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
365848 TCGAGGCCCA
Statistics
Matches: 561, Mismatches: 89, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
84 78 0.14
85 216 0.39
86 98 0.17
87 14 0.02
88 32 0.06
89 94 0.17
90 29 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCACTCTT
Found at i:365539 original size:232 final size:232
Alignment explanation
Indices: 365101--365939 Score: 1029
Period size: 232 Copynumber: 3.6 Consensus size: 232
365091 CGTTCATCTC
* *
365101 TTCAAAGCCAACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
* * *
365165 CCACAAGTCAGTGGCACTCTTTTCAAAGCCTACACGAGTCGGTGGCAACT-TGTTTTAAAGCCCA
66 CCACAAGTCAATGGCACTCTTTTCAAAGCCTACACGAGTCGGTGGCAACTCT-TTTCAAAGCCTA
* * *
365229 CAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGTAACTCTTTTCAAAGGCCACAAGTTG
130 CAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTA
* *
365294 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
195 GTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCT
* * *
365332 TTCAAAGCCCATAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
* * * *
365397 CCACAAGTTAATGGCACTCTTTTCAAAGCCTACACGAGTCGGTGGTAACTTTTTTCAAAGCCTAG
66 CCACAAGTCAATGGCACTCTTTTCAAAGCCTACACGAGTCGGTGGCAACTCTTTTCAAAGCCTAC
*
365462 AAGTCAGTGACATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAG
131 AAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAG
* * * * *
365527 TGGCACCCTTTCAAAGCCCATAATTTATTAGCACCCT
196 TGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCT
* * * *
365564 TTCAAAGCCCACAAGTTAGTGGCACTCTTTTAAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
* * ** *
365629 CCACAAGTCAATGGCAC-CCTTTCAAAGCC--CACAAGTCAATGGC-AC-CCTTTCAAAGCCTAC
66 CCACAAGTCAATGGCACTCTTTTCAAAGCCTACACGAGTCGGTGGCAACTCTTTTCAAAGCCTAC
* * * * * *
365689 AAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAATGCCCACAAGTGA
131 AAGTCAGTGGCATCC-TTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTA
*
365752 GTGGCACCCTTTCAAAGTCCACAAGTCAATGGCACCCT
195 GTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCT
* * * * * *
365790 TTCAAAGCTCACAAGACAGTGGCA-TCCTTTCAAAGCCCAGAAGTTAGTGGCACTCTTTTCGAGG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAG
* * * * * * *
365854 CCCATAA-ACTAGTGGTAACAT-TTTTCGAAGCCCACACGAGTCGGGGGCAACTCTTTTCAAAGC
65 CCCACAAGTC-AATGG-CAC-TCTTTTCAAAGCCTACACGAGTCGGTGGCAACTCTTTTCAAAG-
* *
365917 CCACACAAGTTAGTGGCA-CCTTT
126 CC-TACAAGTCAGTGGCATCCTTT
365940 TTAGAAAAAA
Statistics
Matches: 525, Mismatches: 69, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
225 25 0.05
226 90 0.17
227 28 0.05
228 33 0.06
229 10 0.02
230 10 0.02
231 35 0.07
232 276 0.53
233 5 0.01
234 13 0.02
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (232 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
CCACAAGTCAATGGCACTCTTTTCAAAGCCTACACGAGTCGGTGGCAACTCTTTTCAAAGCCTAC
AAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAG
TGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCT
Found at i:366805 original size:20 final size:20
Alignment explanation
Indices: 366780--366837 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
366770 TGGAGGCAAG
*
366780 GTATCGATACATTTTTCAAC
1 GTATCGATACATTTATCAAC
* * *
366800 GTATCGATACATGTATGAAT
1 GTATCGATACATTTATCAAC
366820 GTATCGATACATTCTATC
1 GTATCGATACATT-TATC
366838 TTTTAACCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTTATCAAC
Found at i:370491 original size:168 final size:167
Alignment explanation
Indices: 370317--370623 Score: 388
Period size: 168 Copynumber: 1.8 Consensus size: 167
370307 AACCCGAGGG
* * * * *
370317 ACTTCTTTATCCTTTGTCTGCCTATCAGTTTTGACCCTA-GAGACTTCTTTACCTTTTGTTTACC
1 ACTTCTTTATCCTTTGTCTGCCAATCAGCTTTGA-CATAGGAGACTTCTTGACCTTTTGTCTACC
* * * * * * *
370381 CGTCGGCTTTGACCC-GAGAGA-TTTTTTATCCTATGTTTGCTTGTTAGCTTTTGACCTT-GTAG
65 CATCAGCTTTAACCCAG-GAGACTTCTTTA-CCTATGTCTGCCTGTTAGC-TTTGA-CTTAGAAG
370443 ACTTCTTTACCTTTCTTCTACCAGTCGGCTTTGACCCAAGAA
126 ACTTCTTTACCTTTCTTCTACCAGTCGGCTTTGACCCAAGAA
* *
370485 ACTTCTTTATCTTTTGTCTGCCAATCGGCTTTGACATAGGAGACTTCTTGACCTTTTGTCTACCC
1 ACTTCTTTATCCTTTGTCTGCCAATCAGCTTTGACATAGGAGACTTCTTGACCTTTTGTCTACCC
* * *
370550 ATCAGCTTTAACCCAGGAGACTTCTTTACCTTTGTCTGCCTGTTGGCTTTGACTTAGAAGACTTT
66 ATCAGCTTTAACCCAGGAGACTTCTTTACCTATGTCTGCCTGTTAGCTTTGACTTAGAAGACTTC
370615 TTTACCTTT
131 TTTACCTTT
370624 GTCCTACTCG
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
166 3 0.03
167 24 0.20
168 84 0.71
169 7 0.06
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.42
Consensus pattern (167 bp):
ACTTCTTTATCCTTTGTCTGCCAATCAGCTTTGACATAGGAGACTTCTTGACCTTTTGTCTACCC
ATCAGCTTTAACCCAGGAGACTTCTTTACCTATGTCTGCCTGTTAGCTTTGACTTAGAAGACTTC
TTTACCTTTCTTCTACCAGTCGGCTTTGACCCAAGAA
Found at i:370850 original size:85 final size:84
Alignment explanation
Indices: 370656--370850 Score: 205
Period size: 85 Copynumber: 2.3 Consensus size: 84
370646 CGGAAACATT
* * *
370656 TTTACCCTTTGTCTGCTCGTCGGCTTTGACTCAGGCAATTTCTTTATACTTTGTATGCCCATCGG
1 TTTACCCTTTGTCTGCCCGTCGGCTTTGACTCAGGCAACTTCTTTATACTTTGTATGCCCATCGA
**
370721 CTTTGACCTGGGAGACTTC
66 CTTTGACCTCAGAGACTTC
* * ** * * * * * *
370740 TTTATCCTTTGTCTACCTATTGGCTTTGA-TCTTGGGAGACTTCTTTATCCTTT-TCTTGCTCAT
1 TTTACCCTTTGTCTGCCCGTCGGCTTTGACTC-AGGCA-ACTTCTTTATACTTTGT-ATGCCCAT
*
370803 CGACTTTGACCTCAGAGATTTC
63 CGACTTTGACCTCAGAGACTTC
370825 TTTACCCTTTGTCTGCCCGTCGGCTT
1 TTTACCCTTTGTCTGCCCGTCGGCTT
370851 AGACCTAGGA
Statistics
Matches: 87, Mismatches: 21, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
83 2 0.02
84 27 0.31
85 58 0.67
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.43
Consensus pattern (84 bp):
TTTACCCTTTGTCTGCCCGTCGGCTTTGACTCAGGCAACTTCTTTATACTTTGTATGCCCATCGA
CTTTGACCTCAGAGACTTC
Found at i:370856 original size:42 final size:42
Alignment explanation
Indices: 370116--370856 Score: 314
Period size: 42 Copynumber: 17.8 Consensus size: 42
370106 TGGAGATTTT
* * *
370116 TTTA-CCTTTGTCTACCCATCGACTTTGACCT-GGAGACTTC
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTCAGAGACTTC
* * * *
370156 TTTA-CCTTTGTTTGCCCGTCAGCTTTGA-CTCGAGAGACTTT
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTC-AGAGACTTC
* *** *
370197 TTTA-CCTTTGTTTGCTTGTAGGCTTTGACC-CAAGAGACTTC
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTC-AGAGACTTC
* * * * * * *
370238 TTTACCCTTTGTCTACCCATTGGTTTTGACC-C-GGGTAATTTT
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTCAGAG--ACTTC
* * * * * * * *
370280 TTTATCCTTTGTATGCTCGTTGACTCTAACC-CGAGGGACTTC
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTC-AGAGACTTC
* * *
370322 TTTATCCTTTGTCTGCCTATCAGTTTTGACC-CTAGAGACTTC
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTC-AGAGACTTC
* * * *
370364 TTTA-CCTTTTGTTTACCCGTCGGCTTTGACC-CGAGAGA-TTT
1 TTTATCC-TTTGTCTGCCCATCGGCTTTGACCTC-AGAGACTTC
* * *** ** *
370405 TTTATCCTATGTTTGCTTGTTAGCTTTTGACCT-TGTAGACTTC
1 TTTATCCTTTGTCTGCCCATCGGC-TTTGACCTCAG-AGACTTC
* * *
370448 TTTA-CCTTTCTTCT-ACCAGTCGGCTTTGACC-CAAGAAACTTC
1 TTTATCCTTT-GTCTGCCCA-TCGGCTTTGACCTC-AGAGACTTC
* * *
370490 TTTATCTTTTGTCTGCCAATCGGCTTTGACAT-AGGAGACTTC
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTCA-GAGACTTC
* * * *
370532 TTGA-CCTTTTGTCTACCCATCAGCTTTAACC-CAGGAGACTTC
1 TTTATCC-TTTGTCTGCCCATCGGCTTTGACCTCA-GAGACTTC
** * * *
370574 TTTA-CCTTTGTCTGCCTGTTGGCTTTGA-CTTAGAAGACTTT
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTCAG-AGACTTC
* * * ** * * *
370615 TTTA-CCTTTGTCCTACTCGTCATCTTT-AACTCGGAAACATT-
1 TTTATCCTTTGT-CTGCCCATCGGCTTTGACCTCAGAGAC-TTC
* * * *
370656 TTTACCCTTTGTCTGCTCGTCGGCTTTGA-CTCAG-GCAATTTC
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTCAGAG--ACTTC
* * **
370698 TTTATACTTTGTATGCCCATCGGCTTTGACCTGGGAGACTTC
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCTCAGAGACTTC
* * * * **
370740 TTTATCCTTTGTCTACCTATTGGCTTTGATCTTGGGAGACTTC
1 TTTATCCTTTGTCTGCCCATCGGCTTTGA-CCTCAGAGACTTC
* * *
370783 TTTATCCTTT-TCTTGCTCATCGACTTTGACCTCAGAGATTTC
1 TTTATCCTTTGTC-TGCCCATCGGCTTTGACCTCAGAGACTTC
* * *
370825 TTTACCCTTTGTCTGCCCGTCGGCTTAGACCT
1 TTTATCCTTTGTCTGCCCATCGGCTTTGACCT
370857 AGGAGAGTCA
Statistics
Matches: 524, Mismatches: 138, Indels: 76
0.71 0.19 0.10
Matches are distributed among these distances:
39 2 0.00
40 27 0.05
41 126 0.24
42 309 0.59
43 56 0.11
44 4 0.01
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.41
Consensus pattern (42 bp):
TTTATCCTTTGTCTGCCCATCGGCTTTGACCTCAGAGACTTC
Found at i:372615 original size:27 final size:27
Alignment explanation
Indices: 372542--372595 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
372532 TGAAGGAATT
372542 TTAGGAATTTCATTATTATTGTTATAC
1 TTAGGAATTTCATTATTATTGTTATAC
372569 TTAGGAATTTCATTATTATTGTTATAC
1 TTAGGAATTTCATTATTATTGTTATAC
372596 ATATATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (27 bp):
TTAGGAATTTCATTATTATTGTTATAC
Found at i:374529 original size:17 final size:17
Alignment explanation
Indices: 374507--374541 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
374497 CCAAATAATC
*
374507 AATGCATGAAGGTATGA
1 AATGCATGAAGGCATGA
*
374524 AATGCATGGAGGCATGA
1 AATGCATGAAGGCATGA
374541 A
1 A
374542 GGCATGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.09, G:0.31, T:0.20
Consensus pattern (17 bp):
AATGCATGAAGGCATGA
Found at i:375309 original size:42 final size:42
Alignment explanation
Indices: 375258--376466 Score: 563
Period size: 42 Copynumber: 29.3 Consensus size: 42
375248 AGTAAAAAAG
* * *
375258 AAAGGAGTCTCCTAGGTCTAAGCTGACAGGCAGACAAAGGGT
1 AAAGAAGTCTCCTAGGTCAAAGCTGACAGGCAGACAAAAGGT
* * * ** * *
375300 AACGAAGTCTCC-CGAGTCAAAGCCGATGGGCATACAAAAGTT
1 AAAGAAGTCTCCTAG-GTCAAAGCTGACAGGCAGACAAAAGGT
* ** * *
375342 AAAGAAGTCTTCC-GGGTCAAAG-TCGATGGGTAAACAAAAGGT
1 AAAGAAGTC-TCCTAGGTCAAAGCT-GACAGGCAGACAAAAGGT
* * *
375384 AAAGAAATCT-TTAGGGTCAAAG-TCGACAGGCAGACAAATGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCT-GACAGGCAGACAAAAGGT
* * * *
375426 AATGAAGTC-CTTAGGGTCAAAGATGACAGGCAAACAAAAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACAGGCAGACAAAAGGT
** **
375468 AAAGAAGTC-CCTCAGGTCAAAGCCAACAGGCAGAC-TGAGGT
1 AAAGAAGTCTCCT-AGGTCAAAGCTGACAGGCAGACAAAAGGT
* * *
375509 AAAGAAGTCT-CTAAGGTCAAAGCCGATAGGCAGATAAAAGGT
1 AAAGAAGTCTCCT-AGGTCAAAGCTGACAGGCAGACAAAAGGT
* *
375551 AAAGAAGTCTCC-AGGGTCAAAGCTGAAAGGTAGA-ATAAAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACAGGCAGACA-AAAGGT
* * *
375593 AAAGAAGT-TTCTAGGGTCAAAGCCGACTA-GCAGACTAAAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGAC-AGGCAGACAAAAGGT
* * * ** *
375635 AAAGAAGTTTCTTGGGTCAAAG-TCGGTAGGCAGCCAAAAGGT
1 AAAGAAGTCTCCTAGGTCAAAGCT-GACAGGCAGACAAAAGGT
* * * *
375677 AAAGAAGTCTCTTAGGGTCAAAGCCGACATGTAGACAAAAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACAGGCAGACAAAAGGT
* * *
375720 AAAGAAGTCT-CTAGGGTCAAAG-TCA-ATGAGCAAACAAAA-AT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACA-G-GCAGACAAAAGGT
* * * *
375761 AAAGAAGTCTCCCAGGTCAAAGTTGACAGGCAAACTAAAGGT
1 AAAGAAGTCTCCTAGGTCAAAGCTGACAGGCAGACAAAAGGT
* * * *
375803 AAAGAAGTCTCCAAGGTCAAACCTGACAAGCAGACTAAAGGT
1 AAAGAAGTCTCCTAGGTCAAAGCTGACAGGCAGACAAAAGGT
* * * * *
375845 AAAGAACTCT-CTAAGGTCAAAGCCGATAGGCAAACTAAAGGT
1 AAAGAAGTCTCCT-AGGTCAAAGCTGACAGGCAGACAAAAGGT
* * * * * *
375887 AAAGAAATCT-CTAAGGTCAAAGCCGATAGGTAAACTAAAGGT
1 AAAGAAGTCTCCT-AGGTCAAAGCTGACAGGCAGACAAAAGGT
* * * * * *
375929 AAAGAAGTCT-C--GGGC-AAGC-AAAATGTA-A-AAAAGTCT
1 AAAGAAGTCTCCTAGGTCAAAGCTGACAGGCAGACAAAAG-GT
** * * * *
375965 CCAG--G-GT-CTA------AGCCGACAGGTAAACAAATA--T
1 AAAGAAGTCTCCTAGGTCAAAGCTGACAGGCAGACAAA-AGGT
* * *
375996 AAAGAAGTCT-CAAGGTTCAAAGCCGACAAGCA-ACCAAAAGGT
1 AAAGAAGTCTCCTAGG-TCAAAGCTGACAGGCAGA-CAAAAGGT
* *
376038 AAAGAAGTCT-CAAGGTTCAAAG-TCGACAAGCA-ACCAAAAGGT
1 AAAGAAGTCTCCTAGG-TCAAAGCT-GACAGGCAGA-CAAAAGGT
* **
376080 AAAGAAGTCT-CTAGGATCAAAGCCGACAAACAGA-ATAAAGGT
1 AAAGAAGTCTCCTAGG-TCAAAGCTGACAGGCAGACA-AAAGGT
* ** * *
376122 AAAGAAGTCT-CGAGGGTCAAAGCCAATAGGCAGATAAAAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACAGGCAGACAAAAGGT
* * * ** * * *
376164 AAAGAAATCTCC-ACTGTCAAAACCAATAGCCA-AAAAAAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACAGGCAGACAAAAGGT
* * * * *
376205 AAAAAAGT-TTCTAGGGTCAAAGCTGACATGTAGATAAAAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACAGGCAGACAAAAGGT
* * *
376247 AAAGAATTCTCC-AGGGTCAAAGCCGACAGGCAGATAAAAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACAGGCAGACAAAAGGT
* * *
376289 AAAGAAGTCTCCT-GAGTCAATG-TCA-ATGAGCAGAC-AAAGAT
1 AAAGAAGTCTCCTAG-GTCAAAGCTGACA-G-GCAGACAAAAGGT
* * *
376330 AAAGAAGTCTCTTAGGTCAAAG-TCGATAGGCAGACTAAAGGT
1 AAAGAAGTCTCCTAGGTCAAAGCT-GACAGGCAGACAAAAGGT
* * * *
376372 AAAGAAGTCTCC-AGGGTCAAAGCCGACAAGCAGACTACAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACAGGCAGACAAAAGGT
* * * **
376414 AAAGAAATCT-CTAGGGTCAAAGCCGACAGACAGACTGAAGGT
1 AAAGAAGTCTCCTA-GGTCAAAGCTGACAGGCAGACAAAAGGT
*
376456 AAAGAGGTCTC
1 AAAGAAGTCTC
376467 GGGCAGACAA
Statistics
Matches: 930, Mismatches: 167, Indels: 139
0.75 0.14 0.11
Matches are distributed among these distances:
30 3 0.00
31 8 0.01
32 1 0.00
33 6 0.01
34 5 0.01
35 4 0.00
36 4 0.00
37 5 0.01
38 4 0.00
39 3 0.00
40 6 0.01
41 146 0.16
42 685 0.74
43 50 0.05
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (42 bp):
AAAGAAGTCTCCTAGGTCAAAGCTGACAGGCAGACAAAAGGT
Found at i:375404 original size:84 final size:84
Alignment explanation
Indices: 375285--376466 Score: 664
Period size: 84 Copynumber: 14.3 Consensus size: 84
375275 CTAAGCTGAC
* * * ** * * * *
375285 AGGCAGACAAAGGGTAACGAAGTCTCCCGAGTCAAAGCCGATGGGCATACAAAAGTTAAAGAAGT
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACAAAAGGTAAAGAAGT
* *
375350 CTTCCGGGTCAAAGTCGAT
66 CTTCAGGGTCAAAGCCGAT
* * * * * * * *
375369 GGGTAAACAAAAGGTAAAGAAATCTTTAGGGTCAAAGTCGACAGGCAGACAAATGGTAATGAAGT
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACAAAAGGTAAAGAAGT
** *
375434 CCTT-AGGGTCAAAGATGAC
66 -CTTCAGGGTCAAAGCCGAT
* * * **
375453 AGGCAAACAAAAGGTAAAGAAGTCCCTCA-GGTCAAAGCCAACAGGCAGAC-TGAGGTAAAGAAG
1 AGGCAAACAAAAGGTAAAGAAGTCTCT-AGGGTCAAAGCCGATAGGCAGACAAAAGGTAAAGAAG
*
375516 TC-TCTAAGGTCAAAGCCGAT
65 TCTTC-AGGGTCAAAGCCGAT
* * * * * *
375536 AGGCAGATAAAAGGTAAAGAAGTCTCCAGGGTCAAAGCTGAAAGGTAGA-ATAAAGGTAAAGAAG
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACA-AAAGGTAAAGAAG
375600 T-TTCTAGGGTCAAAGCCGACT
65 TCTTC-AGGGTCAAAGCCGA-T
* * * * * * *
375621 A-GCAGACTAAAGGTAAAGAAGTTTCTTGGGTCAAAGTCGGTAGGCAGCCAAAAGGTAAAGAAGT
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACAAAAGGTAAAGAAGT
* *
375685 CTCTTAGGGTCAAAGCCGAC
66 CT-TCAGGGTCAAAGCCGAT
* * * * * * *
375705 ATGTAGACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGTCAAT-GAGCAAACAAAA-ATAAAGAAG
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAG-GCAGACAAAAGGTAAAGAAG
* ** *
375768 TCTCCCA-GGTCAAAGTTGAC
65 TCT-TCAGGGTCAAAGCCGAT
* * * * * * *
375788 AGGCAAACTAAAGGTAAAGAAGTCTCCAAGGTCAAA-CCTGACAAGCAGACTAAAGGTAAAGAAC
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCC-GATAGGCAGACAAAAGGTAAAGAAG
*
375852 TC-TCTAAGGTCAAAGCCGAT
65 TCTTC-AGGGTCAAAGCCGAT
* * * * * *
375872 AGGCAAACTAAAGGTAAAGAAATCTCTAAGGTCAAAGCCGATAGGTAAACTAAAGGTAAAGAAGT
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACAAAAGGTAAAGAAGT
* *
375937 C-TC-GGG-C-AAG-CAAA
66 CTTCAGGGTCAAAGCCGAT
* * * ** * * * *
375951 ATG-TAA-AAAAGTCTCCAG--G-GTCTA-------AGCCGACAGGTAAACAAATA--TAAAGAA
1 AGGCAAACAAAAG-GTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACAAA-AGGTAAAGAA
* *
376002 GTC-TCAAGGTTCAAAGCCGAC
64 GTCTTC-AGGGTCAAAGCCGAT
* * * * * * *
376023 AAGCAACCAAAAGGTAAAGAAGTCTCAAGGTTCAAAGTCGACAAGCA-ACCAAAAGGTAAAGAAG
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGA-CAAAAGGTAAAGAAG
* *
376087 TC-TCTAGGATCAAAGCCGAC
65 TCTTC-AGGGTCAAAGCCGAT
** * * * * *
376107 AAACAGAA-TAAAGGTAAAGAAGTCTCGAGGGTCAAAGCCAATAGGCAGATAAAAGGTAAAGAAA
1 AGGCA-AACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACAAAAGGTAAAGAAG
* ** * *
376171 TCTCCACTGTCAAAACCAAT
65 TCTTCAGGGTCAAAGCCGAT
* * * * * * * * *
376191 AGCCAAA-AAAAGGTAAAAAAGTTTCTAGGGTCAAAGCTGACATGTAGATAAAAGGTAAAGAATT
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACAAAAGGTAAAGAAGT
* *
376255 CTCCAGGGTCAAAGCCGAC
66 CTTCAGGGTCAAAGCCGAT
* * * * * * *
376274 AGGCAGATAAAAGGTAAAGAAGTCTCCT-GAGTCAATGTCAAT-GAGCAGAC-AAAGATAAAGAA
1 AGGCAAACAAAAGGTAAAGAAGTCT-CTAGGGTCAAAGCCGATAG-GCAGACAAAAGGTAAAGAA
* *
376336 GTCTCTTA-GGTCAAAGTCGAT
64 GTCT-TCAGGGTCAAAGCCGAT
* * * * * * * *
376357 AGGCAGACTAAAGGTAAAGAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTACAGGTAAAGAAAT
1 AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACAAAAGGTAAAGAAGT
*
376422 C-TCTAGGGTCAAAGCCGAC
66 CTTC-AGGGTCAAAGCCGAT
* * ** *
376441 AGACAGACTGAAGGTAAAGAGGTCTC
1 AGGCAAACAAAAGGTAAAGAAGTCTC
376467 GGGCAGACAA
Statistics
Matches: 845, Mismatches: 199, Indels: 108
0.73 0.17 0.09
Matches are distributed among these distances:
67 12 0.01
68 16 0.02
69 3 0.00
70 1 0.00
71 3 0.00
72 4 0.00
73 4 0.00
74 5 0.01
75 5 0.01
76 3 0.00
77 4 0.00
78 5 0.01
79 4 0.00
80 3 0.00
81 2 0.00
82 10 0.01
83 256 0.30
84 433 0.51
85 71 0.08
86 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (84 bp):
AGGCAAACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCGATAGGCAGACAAAAGGTAAAGAAGT
CTTCAGGGTCAAAGCCGAT
Found at i:375567 original size:125 final size:125
Alignment explanation
Indices: 375258--376764 Score: 894
Period size: 125 Copynumber: 12.3 Consensus size: 125
375248 AGTAAAAAAG
* * * * * * * *
375258 AAAGGAGTCTCCTA-GGTCTAAGCTGACAGGCAGACAAAGGGTAACGAAGTCTCCCGAGTCAAAG
1 AAAGAAGTCTCC-AGGGTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTCCAGGGTCAAAG
* ** * * ** * ** * * *
375322 CCGATGGGCATACAAAAGTTAAAGAAGTCTTCCGGGTCAAAGTCGATGGGTAAACAAAAGGT
65 CTGACAGGCAAACAAAAGGTAAAGAAGTC-TCTAGGTCAAAGCCGACAGGCAGACTAAAGGT
* ** * * * * *
375384 AAAGAAATCTTTAGGGTCAAAGTCGACAGGCAGACAAATGGTAATGAAGTC-CTTAGGGTCAAAG
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTC-CAGGGTCAAAG
* * * *
375448 ATGACAGGCAAACAAAAGGTAAAGAAGTCCCTCAGGTCAAAGCCAACAGGCAGACT-GAGGT
65 CTGACAGGCAAACAAAAGGTAAAGAAGTCTCT-AGGTCAAAGCCGACAGGCAGACTAAAGGT
* * *
375509 AAAGAAGTCTCTAAGGTCAAAGCCGATAGGCAGATAAAAGGTAAAGAAGTCTCCAGGGTCAAAGC
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTCCAGGGTCAAAGC
* * * *
375574 TGAAAGGTAGAA-TAAAGGTAAAGAAGTTTCTAGGGTCAAAGCCGACTA-GCAGACTAAAGGT
66 TGACAGGCA-AACAAAAGGTAAAGAAGTCTCTA-GGTCAAAGCCGAC-AGGCAGACTAAAGGT
* ** * ** ** *
375635 AAAGAAGTTTCTTGGGTCAAAGTCGGTAGGCAGCCAAAAGGTAAAGAAGTCTCTTAGGGTCAAAG
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTC-CAGGGTCAAAG
* * * * * * **
375700 CCGACATGTAGACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGTC-A-ATGAGCAAAC-AAAAAT
65 CTGACAGGCAAACAAAAGGTAAAGAAGTCTCTA-GGTCAAAGCCGACA-G-GCAGACTAAAGGT
** * *
375761 AAAGAAGTCTCCCA-GGTCAAAGTTGACAGGCAAACT-AAAGGTAAAGAAGTCTCCAAGGTCAAA
1 AAAGAAGTCT-CCAGGGTCAAAGCCGACAGGCAGA-TAAAAGGTAAAGAAGTCTCCAGGGTCAAA
* * * * * * *
375824 CCTGACAAGCAGACTAAAGGTAAAGAACTCTCTAAGGTCAAAGCCGATAGGCAAACTAAAGGT
64 GCTGACAGGCAAACAAAAGGTAAAGAAGTCTCT-AGGTCAAAGCCGACAGGCAGACTAAAGGT
* * * * * *
375887 AAAGAAATCTCTAAGGTCAAAGCCGATAGGTAAACT-AAAGGTAAAGAAGTCT-C--GG-----G
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGA-TAAAAGGTAAAGAAGTCTCCAGGGTCAAAG
* * * * * * **
375943 C--A-A-G----CAAAATGTAAAAAAGTCTCCAGGGTCTAAGCCGACAGGTAAAC-AAATAT
65 CTGACAGGCAAACAAAAGGTAAAGAAGTCTCTA-GGTCAAAGCCGACAGGCAGACTAAAGGT
* * * * * *
375996 AAAGAAGTCTCAAGGTTCAAAGCCGACAAGCA-ACCAAAAGGTAAAGAAGTCTCAAGGTTCAAAG
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGA-TAAAAGGTAAAGAAGTCTCCAGGGTCAAAG
* * ** *
376060 -TCGACAAGCAACCAAAAGGTAAAGAAGTCTCTAGGATCAAAGCCGACAAACAGAATAAAGGT
65 CT-GACAGGCAAACAAAAGGTAAAGAAGTCTCTAGG-TCAAAGCCGACAGGCAGACTAAAGGT
* * * * ** *
376122 AAAGAAGTCTCGAGGGTCAAAGCCAATAGGCAGATAAAAGGTAAAGAAATCTCCACTGTCAAAAC
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTCCAGGGTCAAAGC
** * * * * * * *
376187 CAATAGCCAAA-AAAAGGTAAAAAAGTTTCTAGGGTCAAAGCTGACATGTAGA-TAAAAGGT
66 TGACAGGCAAACAAAAGGTAAAGAAGTCTCTA-GGTCAAAGCCGACAGGCAGACT-AAAGGT
* * * *
376247 AAAGAATTCTCCAGGGTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTCCTGAGTCAATG-
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTCCAGGGTCAAAGC
* * * * *
376311 TCA-ATGAGCAGAC-AAAGATAAAGAAGTCTCTTAGGTCAAAGTCGATAGGCAGACTAAAGGT
66 TGACA-G-GCAAACAAAAGGTAAAGAAGTCTC-TAGGTCAAAGCCGACAGGCAGACTAAAGGT
* * * *
376372 AAAGAAGTCTCCAGGGTCAAAGCCGACAAGCAGACT-ACAGGTAAAGAAATCTCTAGGGTCAAAG
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGA-TAAAAGGTAAAGAAGTCTCCAGGGTCAAAG
* * * ** * *
376436 CCGACAGACAGACTGAAGGT--A-AAG-----AGGTC----TCG---GGCAGACAAAAGGT
65 CTGACAGGCAAACAAAAGGTAAAGAAGTCTCTAGGTCAAAGCCGACAGGCAGACTAAAGGT
* * * * * * *
376482 CAAGAAGTCTCTAGGGTCAAAGCCGACGGGCA-A-ACAAAGATAAAGAAGTTTCGAAGGTCAAAG
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGATA-AAAGGTAAAGAAGTCTCCAGGGTCAAAG
* * * * *
376545 -TCGACAGACAACCTAAAGGT-AAGAAAGTCTCTGGGGTCAAAGCCAACAGGCAGACTAAAGGT
65 CT-GACAGGCAAACAAAAGGTAAAG-AAGTCTCT-AGGTCAAAGCCGACAGGCAGACTAAAGGT
* * * * * * *
376607 AAAGAAGTCTCCAGGGTTAAAGCCGACAAGCAGACAAAAGGTAAAAAAATCTCTAAGGTCAAAGC
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTCCAGGGTCAAAGC
* * * * * * * * ** *
376672 CGATAGGTAGATAAAAGGTAAAAAAGTCTCCATGTCAAAGCCGATGGGCAGAC-AAAGAT
66 TGACAGGCAAACAAAAGGTAAAGAAGTCTCTAGGTCAAAGCCGACAGGCAGACTAAAGGT
* * * *
376731 AAAAAAGTCTCCAAGATCAAAGCTGACAGGCAGA
1 AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGA
376765 CAGAGATGAA
Statistics
Matches: 1072, Mismatches: 232, Indels: 156
0.73 0.16 0.11
Matches are distributed among these distances:
108 2 0.00
109 84 0.08
110 75 0.07
112 4 0.00
113 3 0.00
114 1 0.00
115 1 0.00
116 1 0.00
117 6 0.01
118 5 0.00
119 1 0.00
120 1 0.00
121 1 0.00
122 1 0.00
123 6 0.01
124 41 0.04
125 432 0.40
126 350 0.33
127 57 0.05
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.16
Consensus pattern (125 bp):
AAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTCCAGGGTCAAAGC
TGACAGGCAAACAAAAGGTAAAGAAGTCTCTAGGTCAAAGCCGACAGGCAGACTAAAGGT
Found at i:375803 original size:252 final size:252
Alignment explanation
Indices: 375356--376762 Score: 766
Period size: 235 Copynumber: 5.7 Consensus size: 252
375346 AAGTCTTCCG
* * * * *
375356 GGTCAAAGTCGATGGGTAAACAAAAGGTAAAGAAATCTT-TAGGGTCAAAGTCGACAGGCAGACA
1 GGTCAAAGCCGATAGGCAAACTAAAGGTAAAGAAAT-TTCTAGGGTCAAAGTCGATAGGCAGACA
* * *
375420 AATGGTAATGAAGTC-CTTAGGGTCAAAGATGACAGGCAAACAAAAGGTAAAGAAGTCCCTCAGG
65 AAAGGTAAAGAAGTCTCTTAGGGTCAAAGACGACAGGCAAACAAAAGGTAAAGAAGTCCCTCAGG
* ** ** * * *
375484 TCAAAGCCAACAGGCAGACTGAGGTAAAGAAGTCTCTAAGGTCAAAGCCGATAGGCAGATAAAAG
130 TCAAAGCCAACAGGCAAACAAAAATAAAGAAGTCTCCAAGGTCAAAGCCGACAGGCAAATAAAAG
* * * * * *
375549 GTAAAGAAGTCTCCAGGGTCAAAGCTGA-AAGGTAGAATAAAGGTAAAGAAGTTTCTAG
195 GTAAAGAAGTCTCCAAGGTCAAACCTGACAA-GCAGAATAAAGGTAAAGAACTCTCTAA
* * * * *
375607 GGTCAAAGCCGACTA-GCAGACTAAAGGTAAAGAAGTTTCTTGGGTCAAAGTCGGTAGGCAGCCA
1 GGTCAAAGCCGA-TAGGCAAACTAAAGGTAAAGAAATTTCTAGGGTCAAAGTCGATAGGCAGACA
* * * * *
375671 AAAGGTAAAGAAGTCTCTTAGGGTCAAAGCCGACATGTAGACAAAAGGTAAAGAAGTCTCT-AGG
65 AAAGGTAAAGAAGTCTCTTAGGGTCAAAGACGACAGGCAAACAAAAGGTAAAGAAGTCCCTCA-G
* * * **
375735 GTCAAAGTCAA-TGAGCAAACAAAAATAAAGAAGTCTCCCAGGTCAAAGTTGACAGGCAAACT-A
129 GTCAAAGCCAACAG-GCAAACAAAAATAAAGAAGTCTCCAAGGTCAAAGCCGACAGGCAAA-TAA
*
375798 AAGGTAAAGAAGTCTCCAAGGTCAAACCTGACAAGCAGACTAAAGGTAAAGAACTCTCTAA
192 AAGGTAAAGAAGTCTCCAAGGTCAAACCTGACAAGCAGAATAAAGGTAAAGAACTCTCTAA
* * * * * *
375859 GGTCAAAGCCGATAGGCAAACTAAAGGTAAAGAAATCTCTAAGGTCAAAGCCGATAGGTAAACTA
1 GGTCAAAGCCGATAGGCAAACTAAAGGTAAAGAAATTTCTAGGGTCAAAGTCGATAGGCAGACAA
* * *
375924 AAGGTAAAGAAGTCTC----GG-----G-C-A-A-G----CAAAATGTAAAAAAGTCTC-CAGGG
66 AAGGTAAAGAAGTCTCTTAGGGTCAAAGACGACAGGCAAACAAAAGGTAAAGAAGTCCCTCA-GG
* * * * * **
375971 TCTAAGCCGACAGGTAAACAAATATAAAGAAGTCT-CAAGGTTCAAAGCCGACAAGCAACCAAAA
130 TCAAAGCCAACAGGCAAACAAAAATAAAGAAGTCTCCAAGG-TCAAAGCCGACAGGCAAATAAAA
* *
376035 GGTAAAGAAGTCT-CAAGGTTCAAA-GTCGACAAGCA-ACCA-AAAGGTAAAGAAGTCTCT-A
194 GGTAAAGAAGTCTCCAAGG-TCAAACCT-GACAAGCAGA--ATAAAGGTAAAGAACTCTCTAA
* ** * * * * * *
376093 GGATCAAAGCCGACAAACAGAA-TAAAGGTAAAGAAGTCTCGAGGGTCAAAGCCAATAGGCAGAT
1 GG-TCAAAGCCGATAGGCA-AACTAAAGGTAAAGAAATTTCTAGGGTCAAAGTCGATAGGCAGAC
* * ** * * * * **
376157 AAAAGGTAAAGAAATCTC-CACTGTCAAA-ACCAATAGCCAAA-AAAAGGTAAAAAAGTTTCT-A
64 AAAAGGTAAAGAAGTCTCTTAGGGTCAAAGA-CGACAGGCAAACAAAAGGTAAAGAAGTCCCTCA
** * * * * * * * *
376218 GGGTCAAAGCTGACATGTAGATAAAAGGTAAAGAATTCTCCAGGGTCAAAGCCGACAGGCAGATA
128 -GGTCAAAGCCAACAGGCAAACAAAA-ATAAAGAAGTCTCCAAGGTCAAAGCCGACAGGCAAATA
* * * * * *
376283 AAAGGTAAAGAAGTCTCC-TGAGTC-AA--TGTCAATG-AGCAGACAAAGATAAAGAAGTCTCTT
191 AAAGGTAAAGAAGTCTCCAAG-GTCAAACCTGACAA-GCAG-A-ATAAAGGTAAAGAACTCTCTA
376343 A
252 A
* * * * * * * * *
376344 GGTCAAAGTCGATAGGCAGACTAAAGGTAAAGAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTA
1 GGTCAAAGCCGATAGGCAAACTAAAGGTAAAGAAATTTCTAGGGTCAAAGTCGATAGGCAGACAA
* * * * * ** *
376409 CAGGTAAAGAAATCTC-TAGGGTCAAAGCCGACAGACAGACTGAAGGTAAAGAGGT--CTC-GG-
66 AAGGTAAAGAAGTCTCTTAGGGTCAAAGACGACAGGCAAACAAAAGGTAAAGAAGTCCCTCAGGT
* * * * * *
376469 ----G----CA-G---ACAAAAGGTCAAGAAGTCTCTAGGGTCAAAGCCGACGGGCAAA-CAAAG
131 CAAAGCCAACAGGCAAACAAAA-ATAAAGAAGTCTCCAAGGTCAAAGCCGACAGGCAAATAAAAG
* * * * * * **
376521 ATAAAGAAGTTTCGAAGGTCAAA-GTCGAC-AGACA-ACCTAAAGGT-AAGAAAGTCTCTGG
195 GTAAAGAAGTCTCCAAGGTCAAACCT-GACAAG-CAGA-ATAAAGGTAAAG-AACTCTCTAA
* * * * * * * * * *
376579 GGTCAAAGCCAACAGGCAGACTAAAGGTAAAGAAGTCTCCAGGGTTAAAGCCGACAAGCAGACAA
1 GGTCAAAGCCGATAGGCAAACTAAAGGTAAAGAAATTTCTAGGGTCAAAGTCGATAGGCAGACAA
* * * * * * * * * * *
376644 AAGGTAAAAAAATCTC-TAAGGTCAAAGCCGATAGGTAGATAAAAGGTAAAAAAGTCTC-CATGT
66 AAGGTAAAGAAGTCTCTTAGGGTCAAAGACGACAGGCAAACAAAAGGTAAAGAAGTCCCTCAGGT
* ** * * * * *
376707 CAAAGCCGATGGGCAGACAAAGATAAAAAAGTCTCCAAGATCAAAGCTGACAGGCA
131 CAAAGCCAACAGGCAAACAAAAATAAAGAAGTCTCCAAGGTCAAAGCCGACAGGCA
376763 GACAGAGATG
Statistics
Matches: 915, Mismatches: 169, Indels: 146
0.74 0.14 0.12
Matches are distributed among these distances:
234 35 0.04
235 331 0.36
236 6 0.01
237 5 0.01
238 2 0.00
239 3 0.00
240 1 0.00
241 1 0.00
242 2 0.00
243 2 0.00
244 1 0.00
245 1 0.00
246 1 0.00
247 1 0.00
248 9 0.01
249 32 0.03
250 143 0.16
251 125 0.14
252 211 0.23
253 3 0.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.16
Consensus pattern (252 bp):
GGTCAAAGCCGATAGGCAAACTAAAGGTAAAGAAATTTCTAGGGTCAAAGTCGATAGGCAGACAA
AAGGTAAAGAAGTCTCTTAGGGTCAAAGACGACAGGCAAACAAAAGGTAAAGAAGTCCCTCAGGT
CAAAGCCAACAGGCAAACAAAAATAAAGAAGTCTCCAAGGTCAAAGCCGACAGGCAAATAAAAGG
TAAAGAAGTCTCCAAGGTCAAACCTGACAAGCAGAATAAAGGTAAAGAACTCTCTAA
Found at i:376289 original size:167 final size:168
Alignment explanation
Indices: 376031--376467 Score: 449
Period size: 167 Copynumber: 2.6 Consensus size: 168
376021 ACAAGCAACC
* * * * * *
376031 AAAAGGTAAAGAAGTCTCAAGGTTCAAAGTCGACAAGCA-ACCAAAAGGTAAAGAAGTCTCTAGG
1 AAAAGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAAGGTAAAGAAATCTCTAGG
* * *
376095 ATCAAAGCCGACAAACAGA-ATAAAGGTAAAGAAGTCTCGAGGGTCAAAGCCAAT-AGGCAGATA
66 GTCAAAGCCGACAGACAGATA-AAAGGTAAAGAAGTCTCGAGAGTCAAAGCCAATGA-GCAGA-A
* *
376158 AAAGGTAAAGAAATCTC-CACTGTCAAAACCAATAGCCA-AA
128 AAAGATAAAGAAATCTCTCA-GGTCAAAACCAATAGCCAGAA
* * * * * * *
376198 AAAAGGTAAAAAAGTTTCTAGGGTCAAAGCTGACATGTAGA-TAAAAGGTAAAGAATTCTCCAGG
1 AAAAGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAAGGTAAAGAAATCTCTAGG
* ** * * *
376262 GTCAAAGCCGACAGGCAGATAAAAGGTAAAGAAGTCTCCTGAGTCAATGTCAATGAGCAGACAAA
66 GTCAAAGCCGACAGACAGATAAAAGGTAAAGAAGTCTCGAGAGTCAAAGCCAATGAGCAGAAAAA
* * ** * * *
376327 GATAAAGAAGTCTCTTAGGTCAAAGTCGATAGGCAGAC
131 GATAAAGAAATCTCTCAGGTCAAAACCAATAGCCAGAA
* * *
376365 TAAAGGTAAAGAAGTCTCCAGGGTCAAAGCCGACAAGCAGACT-ACAGGTAAAGAAATCTCTAGG
1 AAAAGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAAGGTAAAGAAATCTCTAGG
* *
376429 GTCAAAGCCGACAGACAGACT-GAAGGTAAAGAGGTCTCG
66 GTCAAAGCCGACAGACAGA-TAAAAGGTAAAGAAGTCTCG
376468 GGCAGACAAA
Statistics
Matches: 220, Mismatches: 43, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
166 28 0.13
167 187 0.85
168 5 0.02
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (168 bp):
AAAAGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAAGGTAAAGAAATCTCTAGG
GTCAAAGCCGACAGACAGATAAAAGGTAAAGAAGTCTCGAGAGTCAAAGCCAATGAGCAGAAAAA
GATAAAGAAATCTCTCAGGTCAAAACCAATAGCCAGAA
Found at i:376457 original size:527 final size:527
Alignment explanation
Indices: 375412--376741 Score: 1385
Period size: 527 Copynumber: 2.5 Consensus size: 527
375402 AAAGTCGACA
* ** * ** *
375412 GGCAGACAAATGGTAATGAAGTC-CTTAGGGTCAAAGATGACAGGCAAACAAAAGGTAAAGAAGT
1 GGCAGACAAAAGGTAAAAAAGTCTC-CAGGGTCAAAGCCGACAGGCAAAC-AAAGATAAAGAAGT
* ** * * ** *
375476 CCCTCAGGTCAAAGCCAACAGGCAGA-C-TGAGGTAAAGAAGTCTCTAAGGTCAAAGCCGATAGG
64 CTCGAAGGTCAAAGCCGACAGACA-ACCAAAAGGTAAAGAAGTCTC-AAGGTCAAAGCCGACAGG
* * * *
375539 CAGATAAAAGGTAAAGAAGTCTCCAGGGTCAAAGCTGA-AAGGTAGAATAAAGGTAAAGAAGTTT
127 CAGACAAAAGGTAAAGAAGTCTCCAGGGTCAAAGCCGACAA-GCAGAATAAAGGTAAAGAAGTCT
* * * * ** ** *
375603 CTAGGGTCAAAGCCGACTA-GCAGACT-AAAGGTAAAGAAGT-TTCTTGGGTCAAAGTCGGTAGG
191 CTAGGGTCAAAGCC-AATAGGCAGA-TAAAAGGTAAAGAAATCTCCAT--GTCAAAACCAATAGC
** *
375665 CAGCCAAAAGGTAAAGAAGTCTCTTAGGGTCAAAGCCGACATGTAGACAAAAGGTAAAGAAGTCT
252 CAGAAAAAAGGTAAAAAAGTCTCTTAGGGTCAAAGCCGACATGTAGACAAAAGGTAAAGAAGTCT
* * *
375730 CTAGGGTCAAAGTCAATGAGCAAACAAAAATAAAGAAGTCTCCCAGGTCAAAGTTGACAGGCAAA
317 CCAGGGTCAAAGCCAATGAGCAAACAAAAATAAAGAAGTCTCCCAGGTCAAAGTTCACAGGCAAA
* *
375795 CTAAAGGTAAAGAAGTCTCCAAGGTCAAACCTGACAAGCAGACTAAAGGTAAAGAACTCTCTAAG
382 CTAAAGATAAAGAAGTCTCCAAGGTCAAACCTGACAAGCAGACTAAAGGTAAAGAACTCTCCAAG
* * * **
375860 GTCAAAGCCGATAGGCAAACTAAAGGTAAAGAAATCTCTAAGGTCAAAGCCGATAGGTAAACTAA
447 GTCAAAGCCGACAAGCAAACTAAAGGTAAAGAAATCTCTAAGGTCAAAGCCGACAGACAAACTAA
375925 AGGTAAAGAAGTCTCG
512 AGGTAAAGAAGTCTCG
* * * *
375941 GGCA-AGCAAAATGTAAAAAAGTCTCCAGGGTCTAAGCCGACAGGTAAACAAATATAAAGAAGTC
1 GGCAGA-CAAAAGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAGGCAAACAAAGATAAAGAAGTC
* *
376005 TC-AAGGTTCAAAGCCGACA-AGCAACCAAAAGGTAAAGAAGTCTCAAGGTTCAAAGTCGACAAG
65 TCGAAGG-TCAAAGCCGACAGA-CAACCAAAAGGTAAAGAAGTCTCAAGG-TCAAAGCCGACAGG
* * *
376068 CA-ACCAAAAGGTAAAGAAGTCTCTAGGATCAAAGCCGACAAACAGAATAAAGGTAAAGAAGTCT
127 CAGA-CAAAAGGTAAAGAAGTCTCCAGGGTCAAAGCCGACAAGCAGAATAAAGGTAAAGAAGTCT
*
376132 CGAGGGTCAAAGCCAATAGGCAGATAAAAGGTAAAGAAATCTCCACTGTCAAAACCAATAGCCA-
191 CTAGGGTCAAAGCCAATAGGCAGATAAAAGGTAAAGAAATCTCCA-TGTCAAAACCAATAGCCAG
* * * *
376196 AAAAAAGGTAAAAAAGTTTC-TAGGGTCAAAGCTGACATGTAGATAAAAGGTAAAGAATTCTCCA
255 AAAAAAGGTAAAAAAGTCTCTTAGGGTCAAAGCCGACATGTAGACAAAAGGTAAAGAAGTCTCCA
* * * * *
376260 GGGTCAAAGCCGACA-G-GCAGATAAAAGGTAAAGAAGTCT-CCTGAGTCAATG-TCA-ATGAGC
320 GGGTCAAAGCC-A-ATGAGCAAACAAAA-ATAAAGAAGTCTCCCAG-GTCAAAGTTCACA-G-GC
* ** * * * *
376320 AGAC-AAAGATAAAGAAGTCTCTTAGGTCAAA-GTCGATAGGCAGACTAAAGGTAAAGAAGTCTC
379 AAACTAAAGATAAAGAAGTCTCCAAGGTCAAACCT-GACAAGCAGACTAAAGGTAAAGAACTCTC
* * * * *
376383 CAGGGTCAAAGCCGACAAGCAGACTACAGGTAAAGAAATCTCTAGGGTCAAAGCCGACAGACAGA
443 CAAGGTCAAAGCCGACAAGCAAACTAAAGGTAAAGAAATCTCTAAGGTCAAAGCCGACAGACAAA
* *
376448 CTGAAGGTAAAGAGGTCTCG
508 CTAAAGGTAAAGAAGTCTCG
* * * * *
376468 GGCAGACAAAAGGTCAAGAAGTCTCTAGGGTCAAAGCCGACGGGCAAACAAAGATAAAGAAGTTT
1 GGCAGACAAAAGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAGGCAAACAAAGATAAAGAAGTCT
* * ** *
376533 CGAAGGTCAAAGTCGACAGACAACCTAAAGGT-AAGAAAGTCTCTGGGGTCAAAGCCAACAGGCA
66 CGAAGGTCAAAGCCGACAGACAACCAAAAGGTAAAG-AAGTCTC-AAGGTCAAAGCCGACAGGCA
* * * *
376597 GACTAAAGGTAAAGAAGTCTCCAGGGTTAAAGCCGACAAGCAGACA-AAAGGTAAAAAAATCTCT
129 GACAAAAGGTAAAGAAGTCTCCAGGGTCAAAGCCGACAAGCAGA-ATAAAGGTAAAGAAGTCTCT
* * * * * * *
376661 AAGGTCAAAGCCGATAGGTAGATAAAAGGTAAA-AAAGTCTCCATGTCAAAGCCGATGGGCAG-A
193 AGGGTCAAAGCCAATAGGCAGATAAAAGGTAAAGAAA-TCTCCATGTCAAAACCAATAGCCAGAA
* *
376724 CAAAGATAAAAAAGTCTC
257 AAAAGGTAAAAAAGTCTC
376742 CAAGATCAAA
Statistics
Matches: 665, Mismatches: 107, Indels: 61
0.80 0.13 0.07
Matches are distributed among these distances:
526 38 0.06
527 375 0.56
528 88 0.13
529 158 0.24
530 5 0.01
531 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.16
Consensus pattern (527 bp):
GGCAGACAAAAGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAGGCAAACAAAGATAAAGAAGTCT
CGAAGGTCAAAGCCGACAGACAACCAAAAGGTAAAGAAGTCTCAAGGTCAAAGCCGACAGGCAGA
CAAAAGGTAAAGAAGTCTCCAGGGTCAAAGCCGACAAGCAGAATAAAGGTAAAGAAGTCTCTAGG
GTCAAAGCCAATAGGCAGATAAAAGGTAAAGAAATCTCCATGTCAAAACCAATAGCCAGAAAAAA
GGTAAAAAAGTCTCTTAGGGTCAAAGCCGACATGTAGACAAAAGGTAAAGAAGTCTCCAGGGTCA
AAGCCAATGAGCAAACAAAAATAAAGAAGTCTCCCAGGTCAAAGTTCACAGGCAAACTAAAGATA
AAGAAGTCTCCAAGGTCAAACCTGACAAGCAGACTAAAGGTAAAGAACTCTCCAAGGTCAAAGCC
GACAAGCAAACTAAAGGTAAAGAAATCTCTAAGGTCAAAGCCGACAGACAAACTAAAGGTAAAGA
AGTCTCG
Found at i:376599 original size:151 final size:151
Alignment explanation
Indices: 376318--376617 Score: 367
Period size: 151 Copynumber: 2.0 Consensus size: 151
376308 ATGTCAATGA
* * * *
376318 GCAGACAAAGATAAAGAAGTCTCTTAGGTCAAAGTCGATAGGCAGACTAAAGGTAAAGAAGTCTC
1 GCAGACAAAGATAAAGAAGTCTCTTAGGTCAAAGCCGACAGGCAAACTAAAGATAAAGAAGTCTC
* * *
376383 CAGGGTCAAAGCCGACAAGCAGACTACAGGTAAAGAAATCTCTAGGGTCAAAGCCGACAGACAGA
66 CAAGGTCAAAGCCGACAAGCAGACTAAAGGTAAAGAAATCTCTAGGGTCAAAGCCAACAGACAGA
* *
376448 CTGAAGGTAAAGAGGTCTCGG
131 CTAAAGGTAAAGAAGTCTCGG
* * * *
376469 GCAGACAAAAGGTCAAGAAGTCTC-TAGGGTCAAAGCCGACGGGCAAAC-AAAGATAAAGAAGTT
1 GCAGAC-AAAGATAAAGAAGTCTCTTA-GGTCAAAGCCGACAGGCAAACTAAAGATAAAGAAGTC
* * *
376532 TCGAAGGTCAAAGTCGAC-AGACA-ACCTAAAGGT-AAGAAAGTCTCTGGGGTCAAAGCCAACAG
64 TCCAAGGTCAAAGCCGACAAG-CAGA-CTAAAGGTAAAGAAA-TCTCTAGGGTCAAAGCCAACAG
*
376594 GCAGACTAAAGGTAAAGAAGTCTC
126 ACAGACTAAAGGTAAAGAAGTCTC
376618 CAGGGTTAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
150 9 0.07
151 86 0.68
152 32 0.25
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.15
Consensus pattern (151 bp):
GCAGACAAAGATAAAGAAGTCTCTTAGGTCAAAGCCGACAGGCAAACTAAAGATAAAGAAGTCTC
CAAGGTCAAAGCCGACAAGCAGACTAAAGGTAAAGAAATCTCTAGGGTCAAAGCCAACAGACAGA
CTAAAGGTAAAGAAGTCTCGG
Found at i:376673 original size:42 final size:42
Alignment explanation
Indices: 376468--376766 Score: 255
Period size: 42 Copynumber: 7.2 Consensus size: 42
376458 AGAGGTCTCG
* * * *
376468 GGCAGACAAAAGGTCAAGAAGTCTCTAGGGTCAAAGCCGACG
1 GGCAGACAAAAGGTAAAAAAGTCTCTAAGGTCAAAGCCGACA
* * * * * *
376510 GGCAAAC-AAAGATAAAGAAGTTTCGAAGGTCAAAGTCGACA
1 GGCAGACAAAAGGTAAAAAAGTCTCTAAGGTCAAAGCCGACA
* * * ** *
376551 GACA-ACCTAAAGGTAAGAAAGTCTCTGGGGTCAAAGCCAACA
1 GGCAGA-CAAAAGGTAAAAAAGTCTCTAAGGTCAAAGCCGACA
* * * * *
376593 GGCAGACTAAAGGTAAAGAAGTCTCCAGGGTTAAAGCCGACA
1 GGCAGACAAAAGGTAAAAAAGTCTCTAAGGTCAAAGCCGACA
* * *
376635 AGCAGACAAAAGGTAAAAAAATCTCTAAGGTCAAAGCCGATA
1 GGCAGACAAAAGGTAAAAAAGTCTCTAAGGTCAAAGCCGACA
* * * * **
376677 GGTAGATAAAAGGTAAAAAAGTCTC-CATGTCAAAGCCGATG
1 GGCAGACAAAAGGTAAAAAAGTCTCTAAGGTCAAAGCCGACA
* * * *
376718 GGCAGAC-AAAGATAAAAAAGTCTCCAAGATCAAAGCTGACA
1 GGCAGACAAAAGGTAAAAAAGTCTCTAAGGTCAAAGCCGACA
376759 GGCAGACA
1 GGCAGACA
376767 GAGATGAAAA
Statistics
Matches: 203, Mismatches: 49, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
40 17 0.08
41 66 0.33
42 119 0.59
43 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (42 bp):
GGCAGACAAAAGGTAAAAAAGTCTCTAAGGTCAAAGCCGACA
Found at i:376928 original size:47 final size:46
Alignment explanation
Indices: 376870--376983 Score: 156
Period size: 47 Copynumber: 2.4 Consensus size: 46
376860 GACTAATGCT
*
376870 AATACATTCAAACAATGGTAAGAAAAGTTTGACCAGGTCCTAACACC
1 AATACAGTCAAACAATGGTAA-AAAAGTTTGACCAGGTCCTAACACC
* * * *
376917 AATACAGTCAAACAATAGTGAAAAGAGTTTGGCCAGGTCCTAACGCC
1 AATACAGTCAAACAATGGT-AAAAAAGTTTGACCAGGTCCTAACACC
*
376964 AGTACAGTCAAACAATGGTA
1 AATACAGTCAAACAATGGTA
376984 TTAAGCTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 1 0.02
47 56 0.95
48 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (46 bp):
AATACAGTCAAACAATGGTAAAAAAGTTTGACCAGGTCCTAACACC
Found at i:377335 original size:20 final size:19
Alignment explanation
Indices: 377287--377337 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
377277 CACCCAGATA
377287 TATCGATACATATTCATTG
1 TATCGATACATATTCATTG
*
377306 AATC-ACTACATCATAT-ATTG
1 TATCGA-TACAT-AT-TCATTG
377326 TATCGATACATA
1 TATCGATACATA
377338 AAACTGGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
18 1 0.04
19 9 0.35
20 14 0.54
21 2 0.08
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (19 bp):
TATCGATACATATTCATTG
Found at i:378369 original size:47 final size:47
Alignment explanation
Indices: 378235--378673 Score: 328
Period size: 47 Copynumber: 9.3 Consensus size: 47
378225 TAAATGCTAT
* *
378235 AAAAAGTTTGACTAGGTCCTAATA-CCAATGCAGTTAAACAA-GAGTGAA
1 AAAAAGTTTGACTAGGTCCTAA-AGCCAATACAGTCAAACAATG-GTG-A
* * * * * * ** *
378283 ATAAAGAGTTTGACCAAG-CCTAATGCTAGTATAGTCAAATGAGGGTGA
1 A-AAA-AGTTTGACTAGGTCCTAAAGCCAATACAGTCAAACAATGGTGA
* * *
378331 AAAAAGTTTGACTAGGTCCTAAAGCTAATACA-AC-CA-AATGAG-GA
1 AAAAAGTTTGACTAGGTCCTAAAGCCAATACAGTCAAACAATG-GTGA
* * * **
378375 AAAAGAATTTGACTAGGTCTTAACGTTAATACAGTCAAACAA-GAGTGA
1 AAAA-AGTTTGACTAGGTCCTAAAGCCAATACAGTCAAACAATG-GTGA
* * * * * *
378423 AAAGAGTTTTACCAAGTCTTAACA-CCAATATAGTCAAACAATGGT-A
1 AAAAAGTTTGACTAGGTCCTAA-AGCCAATACAGTCAAACAATGGTGA
* * * *
378469 TAAAGAGTTTGACCAGGTCCTAATGCCAATACAGCCAAACAATGGTGA
1 -AAAAAGTTTGACTAGGTCCTAAAGCCAATACAGTCAAACAATGGTGA
*
378517 AAATAAGTTTGACTAGGTCCTAACA-CCAATACAGTCAAACAATAGT-A
1 AAA-AAGTTTGACTAGGTCCTAA-AGCCAATACAGTCAAACAATGGTGA
* *
378564 AAAAGAGTTTGACTAGGTCCTAACGTCAATACAGTCAAACAATGGT-A
1 AAAA-AGTTTGACTAGGTCCTAAAGCCAATACAGTCAAACAATGGTGA
* * **
378611 TAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAATGATGGTGA
1 -AAAAAGTTTGACTAGGTCCTAAAGCCAATACAGTCAAACAATGGTGA
*
378659 AAAAAGTTTAACTAG
1 AAAAAGTTTGACTAG
378674 ATGCAAATAC
Statistics
Matches: 314, Mismatches: 55, Indels: 45
0.76 0.13 0.11
Matches are distributed among these distances:
44 8 0.03
45 26 0.08
46 14 0.04
47 182 0.58
48 52 0.17
49 21 0.07
50 11 0.04
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.24
Consensus pattern (47 bp):
AAAAAGTTTGACTAGGTCCTAAAGCCAATACAGTCAAACAATGGTGA
Found at i:378569 original size:142 final size:141
Alignment explanation
Indices: 378235--378673 Score: 501
Period size: 142 Copynumber: 3.1 Consensus size: 141
378225 TAAATGCTAT
* * *
378235 AAAAAGTTTGACTAGGTCCTAATACCAATGCAGTTAAACAAGAGTGAAATAAAGAGTTTGACCAA
1 AAAAAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAAGAGT--AA-AAAGAGTTTGACCAA
* * * ** * * * *
378300 G-CCTAATGCTAGTATAGTCAAATGAGGGTGA-AAAAAGTTTGACTAGGTCCTAAAGCTAATACA
63 GTCCTAACGCCAATATAGTCAAACAATGGT-ATAAAGAGTTTGACTAGGTCCTAATGCCAATACA
*
378363 ACCAAATGA--G-GA
127 GCCAAATGATGGTGA
* * *** * *
378375 AAAAGAATTTGACTAGGTCTTAACGTTAATACAGTCAAACAAGAGTGAAAAGAGTTTTACCAAGT
1 AAAA-AGTTTGACTAGGTCCTAACACCAATACAGTCAAACAAGAGTAAAAAGAGTTTGACCAAGT
* * *
378440 CTTAACACCAATATAGTCAAACAATGGTATAAAGAGTTTGACCAGGTCCTAATGCCAATACAGCC
65 CCTAACGCCAATATAGTCAAACAATGGTATAAAGAGTTTGACTAGGTCCTAATGCCAATACAGCC
**
378505 AAACAATGGTGA
130 AAATGATGGTGA
* * *
378517 AAATAAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAATAGTAAAAAGAGTTTGACTAGGT
1 AAA-AAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAAGAGTAAAAAGAGTTTGACCAAGT
* * *
378582 CCTAACGTCAATACAGTCAAACAATGGTATAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTC
65 CCTAACGCCAATATAGTCAAACAATGGTATAAAGAGTTTGACTAGGTCCTAATGCCAATACAGCC
378647 AAATGATGGTGA
130 AAATGATGGTGA
*
378659 AAAAAGTTTAACTAG
1 AAAAAGTTTGACTAG
378674 ATGCAAATAC
Statistics
Matches: 248, Mismatches: 44, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
138 16 0.06
139 55 0.22
140 4 0.02
141 45 0.18
142 127 0.51
143 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.24
Consensus pattern (141 bp):
AAAAAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAAGAGTAAAAAGAGTTTGACCAAGTC
CTAACGCCAATATAGTCAAACAATGGTATAAAGAGTTTGACTAGGTCCTAATGCCAATACAGCCA
AATGATGGTGA
Found at i:378673 original size:94 final size:94
Alignment explanation
Indices: 378235--378673 Score: 385
Period size: 95 Copynumber: 4.7 Consensus size: 94
378225 TAAATGCTAT
* * * *
378235 AAAA-AGTTTGACTAGGTCCTAATACCAATGCAGTTAAACAA-GAGTGAAATAAAGAGTTTGACC
1 AAAAGAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAATG-GT--AA-AAAGAGTTTGACT
* * * * ** *
378298 AAG-CCTAATG-CTAGTATAGTCAAATGAGGGTG
62 AGGTCCTAACGTC-AATACAGTCAAACAATGGTG
* * ** ** *
378330 AAAAAAGTTTGACTAGGTCCTAA-AGCTAATACAACCAAATGA-GG-AAAAAGAATTTGACTAGG
1 AAAAGAGTTTGACTAGGTCCTAACA-CCAATACAGTCAAACAATGGTAAAAAGAGTTTGACTAGG
* *
378392 TCTTAACGTTAATACAGTCAAACAA-GAGTG
65 TCCTAACGTCAATACAGTCAAACAATG-GTG
* * * * * * *
378422 AAAAGAGTTTTACCAAGTCTTAACACCAATATAGTCAAACAATGGTATAAAGAGTTTGACCAGGT
1 AAAAGAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAATGGTAAAAAGAGTTTGACTAGGT
* * *
378487 CCTAATGCCAATACAGCCAAACAATGGTG
66 CCTAACGTCAATACAGTCAAACAATGGTG
* *
378516 AAAATAAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAATAGTAAAAAGAGTTTGACTAGG
1 AAAA-GAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAATGGTAAAAAGAGTTTGACTAGG
378581 TCCTAACGTCAATACAGTCAAACAATGGT-
65 TCCTAACGTCAATACAGTCAAACAATGGTG
** ** *
378610 ATAAAGAGTTTGACTAGGTCCTAATGCCAATACAGTCAAATGATGGTGAAAAA-AGTTTAACTAG
1 A-AAAGAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAATGGT-AAAAAGAGTTTGACTAG
378674 ATGCAAATAC
Statistics
Matches: 277, Mismatches: 55, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
91 14 0.05
92 50 0.18
93 3 0.01
94 89 0.32
95 92 0.33
96 29 0.10
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.24
Consensus pattern (94 bp):
AAAAGAGTTTGACTAGGTCCTAACACCAATACAGTCAAACAATGGTAAAAAGAGTTTGACTAGGT
CCTAACGTCAATACAGTCAAACAATGGTG
Found at i:382054 original size:20 final size:20
Alignment explanation
Indices: 382029--382104 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
382019 ATTTGCCTGC
382029 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
*
382049 ATGTATCGATACAATTTGAAGC
1 ATGTATCGATAC-A-TTGAAGA
* **
382071 ATGTATCGATACATTTACTA
1 ATGTATCGATACATTGAAGA
*
382091 ATGTATCGGTACAT
1 ATGTATCGATACAT
382105 GTCCTTGGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 28 0.58
21 2 0.04
22 18 0.38
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:382074 original size:22 final size:21
Alignment explanation
Indices: 382027--382083 Score: 89
Period size: 22 Copynumber: 2.7 Consensus size: 21
382017 AAATTTGCCT
382027 GCATGTATCGATAC-ATTGAA
1 GCATGTATCGATACAATTGAA
*
382047 GAATGTATCGATACAATTTGAA
1 GCATGTATCGATACAA-TTGAA
382069 GCATGTATCGATACA
1 GCATGTATCGATACA
382084 TTTACTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.39
21 1 0.03
22 19 0.58
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (21 bp):
GCATGTATCGATACAATTGAA
Found at i:385638 original size:16 final size:16
Alignment explanation
Indices: 385617--385651 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
385607 CCCGACCAAG
385617 CCTGACTTAAAATGGC
1 CCTGACTTAAAATGGC
385633 CCTGACTTAAAATGGC
1 CCTGACTTAAAATGGC
385649 CCT
1 CCT
385652 TGATTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (16 bp):
CCTGACTTAAAATGGC
Found at i:388358 original size:50 final size:52
Alignment explanation
Indices: 388230--388361 Score: 144
Period size: 57 Copynumber: 2.5 Consensus size: 52
388220 ATGTAATAAT
* * * *
388230 AAAAAAAACAAAGGAAAA-CAAGCAATGGAGACAAGCTTACGACATAAAGAAAG
1 AAAAACAACAAAGGAAAATCAAGCAATGAAAACAAGCTCACGACAT--AGAAAG
* *
388283 AAAACATGCAACAAAAGAAAATCAAGCAATGAAAACAAGCTCATGACAT-G-AAG
1 AAAA-A--CAACAAAGGAAAATCAAGCAATGAAAACAAGCTCACGACATAGAAAG
388336 AAAAACAACAAAGGAAAATCAAGCAA
1 AAAAACAACAAAGGAAAATCAAGCAA
388362 AAACAATACC
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
50 20 0.29
52 1 0.01
53 11 0.16
54 2 0.03
56 11 0.16
57 23 0.34
ACGTcount: A:0.61, C:0.15, G:0.16, T:0.08
Consensus pattern (52 bp):
AAAAACAACAAAGGAAAATCAAGCAATGAAAACAAGCTCACGACATAGAAAG
Found at i:388806 original size:25 final size:25
Alignment explanation
Indices: 388747--388817 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
388737 GCTTTGATTG
*
388747 CTTTCTTCATTGCAGCTGTTTCATTT
1 CTTTCTTCATTGCAGCT-ATTCATTT
**
388773 CTTTCTTCATTGCAGCTATTGGTTT
1 CTTTCTTCATTGCAGCTATTCATTT
*
388798 C-TTCTTTCATTGTAGCTATT
1 CTTTC-TTCATTGCAGCTATT
388818 TCTCTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 3 0.08
25 20 0.50
26 17 0.43
ACGTcount: A:0.13, C:0.21, G:0.13, T:0.54
Consensus pattern (25 bp):
CTTTCTTCATTGCAGCTATTCATTT
Found at i:388828 original size:23 final size:24
Alignment explanation
Indices: 388778--388836 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
388768 CATTTCTTTC
* *
388778 TTCATTGCAGCTATTGGTTTCTTCT
1 TTCATTGCAGCTATT-GTCTCTTAT
*
388803 TTCATTGTAGCTATT-TCTCTTAT
1 TTCATTGCAGCTATTGTCTCTTAT
*
388826 TTCATTTCAGC
1 TTCATTGCAGC
388837 AACTACCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 15 0.52
25 14 0.48
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.53
Consensus pattern (24 bp):
TTCATTGCAGCTATTGTCTCTTAT
Found at i:390242 original size:19 final size:19
Alignment explanation
Indices: 390206--390240 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
390196 TAGAGCCTCT
390206 TTTTTTTCCATTTTTTTTC
1 TTTTTTTCCATTTTTTTTC
390225 TTTTTTT-C-TTTTTTTT
1 TTTTTTTCCATTTTTTTT
390241 TTATTTCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTCCATTTTTTTTC
Found at i:402249 original size:13 final size:13
Alignment explanation
Indices: 402231--402255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
402221 CAATTCTTCA
402231 TGTATCGATACAT
1 TGTATCGATACAT
402244 TGTATCGATACA
1 TGTATCGATACA
402256 ATGTGCCATG
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:402253 original size:33 final size:33
Alignment explanation
Indices: 402211--402273 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
402201 TTTGAGACAA
402211 TGTATCGATACAAT-T-CTTCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
402244 TGTATCGATACAATGTGCCATGTATCGATA
1 TGTATCGATACAATGTGCCATGTATCGATA
402274 TAATAGTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:402348 original size:19 final size:18
Alignment explanation
Indices: 402303--402360 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
402293 ACTGCTAGTT
*
402303 TCATGTATTGATACAATTG
1 TCATGTATCGATACAA-TG
402322 TGCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
402341 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
402360 T
1 T
402361 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.56
20 15 0.42
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:402362 original size:13 final size:13
Alignment explanation
Indices: 402344--402370 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
402334 TACAATGATC
402344 ATGTATCGATACA
1 ATGTATCGATACA
402357 ATGTATCGATACA
1 ATGTATCGATACA
402370 A
1 A
402371 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:402386 original size:33 final size:32
Alignment explanation
Indices: 402325--402389 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
402315 ACAATTGTGC
* *
402325 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
402357 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
402390 TCTAGATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:405025 original size:14 final size:14
Alignment explanation
Indices: 405006--405032 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
404996 TTTTATCATC
405006 ATTAAATATTTTTA
1 ATTAAATATTTTTA
405020 ATTAAATATTTTT
1 ATTAAATATTTTT
405033 GATTTAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTAAATATTTTTA
Found at i:407781 original size:20 final size:21
Alignment explanation
Indices: 407756--407813 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
407746 CTGCCAAGGG
407756 AATATATCGATACATTATTA-
1 AATATATCGATACATTATTAC
**
407776 AATATATCGATACATGCTTAC
1 AATATATCGATACATTATTAC
*
407797 AATTGTATCGATACATT
1 AA-TATATCGATACATT
407814 TTCATTGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (21 bp):
AATATATCGATACATTATTAC
Found at i:407822 original size:19 final size:19
Alignment explanation
Indices: 407760--407834 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
407750 CAAGGGAATA
* * *
407760 TATCGATACATTATTAAATA
1 TATCGATACATT-TTCATTG
*
407780 TATCGATACATGCTTACAATTG
1 TATCGATACAT--TTTC-ATTG
407802 TATCGATACATTTTCATTG
1 TATCGATACATTTTCATTG
* *
407821 TATCAATAAATTTT
1 TATCGATACATTTT
407835 GGGTTTTTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 16 0.36
20 14 0.31
21 1 0.02
22 14 0.31
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (19 bp):
TATCGATACATTTTCATTG
Found at i:409696 original size:13 final size:13
Alignment explanation
Indices: 409658--409698 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
409648 CCGTTGGGCT
409658 CAATGTATCGATA
1 CAATGTATCGATA
* * *
409671 CAGTGTGTTGATA
1 CAATGTATCGATA
409684 CAATGTATCGATA
1 CAATGTATCGATA
409697 CA
1 CA
409699 TGAATAGTGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:409712 original size:14 final size:14
Alignment explanation
Indices: 409693--409723 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
409683 ACAATGTATC
*
409693 GATACATGAATAGT
1 GATACATGAACAGT
409707 GATACATGAACAGT
1 GATACATGAACAGT
409721 GAT
1 GAT
409724 GAACAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.26
Consensus pattern (14 bp):
GATACATGAACAGT
Found at i:409850 original size:33 final size:32
Alignment explanation
Indices: 409792--409854 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
409782 ACAATTCATG
409792 ATGTATCGATACCAAGAACATGTATCGATATA
1 ATGTATCGATACCAAGAACATGTATCGATATA
* * *
409824 ATGTGTCGATACTAAGCAATATGTATCGATA
1 ATGTATCGATACCAAG-AACATGTATCGATA
409855 CATCTAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACCAAGAACATGTATCGATATA
Found at i:410865 original size:7 final size:7
Alignment explanation
Indices: 410853--410878 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
410843 TTCATTTATG
410853 AAAATAA
1 AAAATAA
410860 AAAATAA
1 AAAATAA
410867 AAAATAA
1 AAAATAA
410874 AAAAT
1 AAAAT
410879 GGGATTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:411023 original size:20 final size:21
Alignment explanation
Indices: 410985--411029 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
410975 TGTAGAAAAT
410985 AGCAAGACAAACATTCATGAA
1 AGCAAGACAAACATTCATGAA
411006 AGCAA-ACATAAC-TTCATGAA
1 AGCAAGACA-AACATTCATGAA
411026 AGCA
1 AGCA
411030 TGAATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.51, C:0.20, G:0.13, T:0.16
Consensus pattern (21 bp):
AGCAAGACAAACATTCATGAA
Found at i:413021 original size:21 final size:21
Alignment explanation
Indices: 412983--413027 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
412973 AAATTTTTAC
** *
412983 TTTTATTAGTTAACTCATTAT
1 TTTTATTAGCCAACTCATCAT
*
413004 TTTTATTAGCCAATTCATCAT
1 TTTTATTAGCCAACTCATCAT
413025 TTT
1 TTT
413028 CTAGTTGCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTATTAGCCAACTCATCAT
Found at i:413065 original size:21 final size:21
Alignment explanation
Indices: 413039--413093 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
413029 TAGTTGCAAC
*
413039 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
413060 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
413081 TCATGTAATTTCT
1 TCATTTATTTTCT
413094 TTTTAAGAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:413094 original size:21 final size:21
Alignment explanation
Indices: 413054--413096 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
413044 TCTTTTCTCC
* *
413054 TCTAATTCATTTATTTTCTTT
1 TCTAATTCATGTAATTTCTTT
413075 TCTAATTCATGTAATTTCTTT
1 TCTAATTCATGTAATTTCTTT
413096 T
1 T
413097 TAAGAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (21 bp):
TCTAATTCATGTAATTTCTTT
Found at i:415179 original size:13 final size:13
Alignment explanation
Indices: 415159--415198 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
415149 TATTGGGCTT
415159 AATGTATCGATAC
1 AATGTATCGATAC
*
415172 AGTGTATCGATAC
1 AATGTATCGATAC
*
415185 AATGTATGGATAC
1 AATGTATCGATAC
415198 A
1 A
415199 TGAACAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:415226 original size:24 final size:24
Alignment explanation
Indices: 415193--415238 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
415183 ACAATGTATG
415193 GATACATGAACAGTGATGAATAAT
1 GATACATGAACAGTGATGAATAAT
*
415217 GATACGTGAACAGTGATGAATA
1 GATACATGAACAGTGATGAATA
415239 GTAATGTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (24 bp):
GATACATGAACAGTGATGAATAAT
Found at i:420213 original size:17 final size:16
Alignment explanation
Indices: 420185--420216 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
420175 GTCTATGTGC
420185 ATTCATACATGCATTG
1 ATTCATACATGCATTG
420201 ATTCATGACATGCATT
1 ATTCAT-ACATGCATT
420217 TCGTAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
ATTCATACATGCATTG
Found at i:423676 original size:21 final size:22
Alignment explanation
Indices: 423645--423697 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
423635 ACAAAATTAC
423645 AAAATGAAAAAAAATTCTAAA-G
1 AAAA-GAAAAAAAATTCTAAAGG
*
423667 AAAAGAAAAAAAATTGTAAAGG
1 AAAAGAAAAAAAATTCTAAAGG
*
423689 GAAAGAAAA
1 AAAAGAAAA
423698 GATGAGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.70, C:0.02, G:0.15, T:0.13
Consensus pattern (22 bp):
AAAAGAAAAAAAATTCTAAAGG
Found at i:424960 original size:88 final size:89
Alignment explanation
Indices: 424845--425092 Score: 302
Period size: 89 Copynumber: 2.8 Consensus size: 89
424835 TTTGCATCTA
* * * * * * * * *
424845 CATTATTT-TCATGCATTTTCCTTTTCACTGATACTCGTATTTGCATTATTTCATATACTTCTGC
1 CATTATTTCACATGCATTTACCTCTTCACTGACACTTGCATTTGCATCATTTCACATACATCTGC
*
424909 ACCATTAAAT-GCATTGGCATTTG
66 ACCATTAAATGGCATTGGAATTTG
* * * * *
424932 CATTATTTCACATGCATTTGCCTCTTCACTAACACTTGCATTTGCATCGTTTCACATGCATCTAC
1 CATTATTTCACATGCATTTACCTCTTCACTGACACTTGCATTTGCATCATTTCACATACATCTGC
424997 ACCATTAAATGGCATTGGAATTTG
66 ACCATTAAATGGCATTGGAATTTG
* * * * *
425021 CATTGTTTCACAAGCATTTACTTCTTTACTGACATTTGCATTTGCATCATTTCACATACATCTGC
1 CATTATTTCACATGCATTTACCTCTTCACTGACACTTGCATTTGCATCATTTCACATACATCTGC
425086 ACCATTA
66 ACCATTA
425093 CCAATACCTG
Statistics
Matches: 135, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
87 8 0.06
88 53 0.39
89 74 0.55
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.41
Consensus pattern (89 bp):
CATTATTTCACATGCATTTACCTCTTCACTGACACTTGCATTTGCATCATTTCACATACATCTGC
ACCATTAAATGGCATTGGAATTTG
Found at i:425074 original size:44 final size:44
Alignment explanation
Indices: 424920--425077 Score: 138
Period size: 44 Copynumber: 3.6 Consensus size: 44
424910 CCATTAAATG
* * * * *
424920 CATTGGCATTTGCATTATTTCACATGCATTTGCCTCTTCACTAA
1 CATTGGCATTTGCATCATTTCACATGCATTTACATCTTAACTGA
* * * * *
424964 CACTT-GCATTTGCATCGTTTCACATGCATCTACACCATTAAATGG
1 CA-TTGGCATTTGCATCATTTCACATGCATTTACATC-TTAACTGA
* ** * * *
425009 CATTGGAATTTGCATTGTTTCACAAGCATTTACTTCTTTACTGA
1 CATTGGCATTTGCATCATTTCACATGCATTTACATCTTAACTGA
*
425053 CATTTGCATTTGCATCATTTCACAT
1 CATTGGCATTTGCATCATTTCACAT
425078 ACATCTGCAC
Statistics
Matches: 87, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
44 54 0.62
45 33 0.38
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (44 bp):
CATTGGCATTTGCATCATTTCACATGCATTTACATCTTAACTGA
Found at i:425941 original size:55 final size:54
Alignment explanation
Indices: 425830--425941 Score: 136
Period size: 55 Copynumber: 2.1 Consensus size: 54
425820 TTATGAATCT
* * **
425830 AAAGCTTCTGGTAATGGTAACAAAATAATTTTCAAAATTTTTGGTGGTGCATCC
1 AAAGCTTCTGGTAATGGTAACAAAATAATGTTCAAAATCTTTAATGGTGCATCC
* * *
425884 AAAGCTTCTGGTAATGGTAATCAGAATAAATGTT-AAAGTCTTTAATGGTGTATCC
1 AAAGCTTCTGGTAATGGTAA-CAAAAT-AATGTTCAAAATCTTTAATGGTGCATCC
425939 AAA
1 AAA
425942 AACTTTTGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 20 0.41
55 24 0.49
56 5 0.10
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (54 bp):
AAAGCTTCTGGTAATGGTAACAAAATAATGTTCAAAATCTTTAATGGTGCATCC
Found at i:426158 original size:33 final size:32
Alignment explanation
Indices: 426097--426159 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
426087 AAACAAGTCA
*
426097 AAAAGTTAAACTTGTACTCTTTTGAGTAAACC
1 AAAAGTTAAACTTGTACTCTTTTAAGTAAACC
426129 AAAAGTTAAGACTTGTA-TCTTTTCAAGTAAA
1 AAAAGTTAA-ACTTGTACTCTTTT-AAGTAAA
426160 ATGATAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (32 bp):
AAAAGTTAAACTTGTACTCTTTTAAGTAAACC
Found at i:426481 original size:30 final size:31
Alignment explanation
Indices: 426404--426530 Score: 118
Period size: 30 Copynumber: 4.2 Consensus size: 31
426394 TTTTGTTTTG
* * *
426404 GTCATCTTTTTGATTGA-AGGTTTCA-CCTA
1 GTCACCTTTTTGACTAATAGGTTTCACCCTA
* * * * *
426433 GTTATCTTATTGAGTAATAAGTTT-ACCCTA
1 GTCACCTTTTTGACTAATAGGTTTCACCCTA
* *
426463 GTCACCTTTTTGACTAATAGGTTTCACCTTG
1 GTCACCTTTTTGACTAATAGGTTTCACCCTA
*
426494 GTCAACCTTTTTGACT-TTAGGTTTCACCCTA
1 GTC-ACCTTTTTGACTAATAGGTTTCACCCTA
426525 GTCACC
1 GTCACC
426531 ATTCTCAACT
Statistics
Matches: 79, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
29 14 0.18
30 31 0.39
31 22 0.28
32 12 0.15
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (31 bp):
GTCACCTTTTTGACTAATAGGTTTCACCCTA
Found at i:432659 original size:154 final size:154
Alignment explanation
Indices: 432359--432636 Score: 375
Period size: 154 Copynumber: 1.8 Consensus size: 154
432349 AAAAACGATC
* * * * *
432359 ATAAAAAGATAAACCTATCCTAGAGGGACACCTTTGGCATAAAAGCGAGCCCGGTGGTAATCTAA
1 ATAAAAAGATAAACCTATCCTAAAGGCAAACCTTTGGCATAAAAGAGAGCCCGGTGGTAACCTAA
* * *
432424 GATTCAGCTCTAAGAAATTTACAAAAATGACCCTATGAGATACCTTTGACGTAGAAGTACCCAGT
66 GACTCAGCTATAAGAAATTTACAAAAATGACCCTAGGAGATACCTTTGACGTAGAAGTACCCAGT
432489 ATCCCTAAAAGATTTAACAGTGAT
131 ATCCCTAAAAGATTTAACAGTGAT
* *
432513 ATAAAATGATGAACCTATCCTAAAGGCAAACCTTTGGCATAAAAGTAGA-CCCGGTGGTAACCTA
1 ATAAAAAGATAAACCTATCCTAAAGGCAAACCTTTGGCATAAAAG-AGAGCCCGGTGGTAACCTA
* * *
432577 GGACTC-GATTATATAGAAA-TTACAAAAAT-ACCCTTAGGGGATACCTTTGACGTAGAAGTA
65 AGACTCAG-CTATA-AGAAATTTACAAAAATGACCC-TAGGAGATACCTTTGACGTAGAAGTA
432637 TTTAGTACTC
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
153 5 0.05
154 95 0.89
155 7 0.07
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (154 bp):
ATAAAAAGATAAACCTATCCTAAAGGCAAACCTTTGGCATAAAAGAGAGCCCGGTGGTAACCTAA
GACTCAGCTATAAGAAATTTACAAAAATGACCCTAGGAGATACCTTTGACGTAGAAGTACCCAGT
ATCCCTAAAAGATTTAACAGTGAT
Found at i:433118 original size:140 final size:139
Alignment explanation
Indices: 432865--433232 Score: 467
Period size: 140 Copynumber: 2.6 Consensus size: 139
432855 AAATATGATT
* * *
432865 AATAATTTTTATTTAATTTTTTAATTTTTAAAAAATTGATTTTGTACCTTAATGAAAAACC-AAA
1 AATAA-TTTTATTTAA-TTTTTAATTTTAAAAAAATTCATTTTGTACCTTAATG-GAAACCGAAA
* * *
432929 GAGATACAGAAAAGTTTTGAAGATTTTTATAACCTTACCGAAAACCATAGGAATATTAAAAATTT
63 -AGATAC-GAAAAGTTTTGAAGATCTCTATAACCCTACCGAAAACCATAGGAATATTAAAAATTT
432994 TGAAAAATTA-AGAG
126 TGAAAAATTACA-AG
* *
433008 AATAATATTTA-TTAATTTTTAATTTTAAAAAAATTCATTTCGTACCTTAATAGGGAACCGAAAA
1 AATAAT-TTTATTTAATTTTTAATTTTAAAAAAATTCATTTTGTACCTTAAT-GGAAACCGAAAA
*
433072 GATACGAAAAGTTTTGAAGATCTCTAT-ACCACTA-CGAAAAATCATAGGAATATTAAAAATTTT
64 GATACGAAAAGTTTTGAAGATCTCTATAACC-CTACCG-AAAACCATAGGAATATTAAAAATTTT
433135 GAAAAATTACAAG
127 GAAAAATTACAAG
* *
433148 AATAATTTTCATTTAATTTTTAATTTCCAAAAAAAATTTATTTTGTACCTTAATGGACAACCGAA
1 AATAATTTT-ATTTAATTTTTAATTT--TAAAAAAATTCATTTTGTACCTTAATGGA-AACCGAA
*
433213 ATGATACGAAAAGTTTTGAA
62 AAGATACGAAAAGTTTTGAA
433233 AATTTTCATA
Statistics
Matches: 200, Mismatches: 14, Indels: 22
0.85 0.06 0.09
Matches are distributed among these distances:
139 8 0.04
140 65 0.32
141 58 0.29
142 11 0.05
143 58 0.29
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (139 bp):
AATAATTTTATTTAATTTTTAATTTTAAAAAAATTCATTTTGTACCTTAATGGAAACCGAAAAGA
TACGAAAAGTTTTGAAGATCTCTATAACCCTACCGAAAACCATAGGAATATTAAAAATTTTGAAA
AATTACAAG
Found at i:433269 original size:143 final size:140
Alignment explanation
Indices: 432865--433252 Score: 480
Period size: 143 Copynumber: 2.7 Consensus size: 140
432855 AAATATGATT
* * *
432865 AATAATTTTTATTTAATTTTTTAATTTTTAAAAAATTGATTTTGTACCTTAATGAAAAACC-AAA
1 AATAA-TTTTATTTAA-TTTTTAATTTTAAAAAAATTCATTTTGTACCTTAATGGAAAACCGAAA
* * * *
432929 GAGATACAGAAAAGTTTTGAAGATTTTTATAACCTTACCGAAAACCATAGGAATATTAAAAATTT
64 -AGATAC-GAAAAGTTTTGAAGATTTTCATACCCCTACGGAAAACCATAGGAATATTAAAAATTT
432994 TGAAAAATTAAGAG
127 TGAAAAATTAAGAG
* *
433008 AATAATATTTA-TTAATTTTTAATTTTAAAAAAATTCATTTCGTACCTTAATAGG-GAACCGAAA
1 AATAAT-TTTATTTAATTTTTAATTTTAAAAAAATTCATTTTGTACCTTAAT-GGAAAACCGAAA
* * * *
433071 AGATACGAAAAGTTTTGAAGA-TCTCTATACCACTACGAAAAATCATAGGAATATTAAAAATTTT
64 AGATACGAAAAGTTTTGAAGATTTTC-ATACCCCTACGGAAAACCATAGGAATATTAAAAATTTT
433135 GAAAAATTACA-AG
128 GAAAAATTA-AGAG
* * *
433148 AATAATTTTCATTTAATTTTTAATTTCCAAAAAAAATTTATTTTGTACCTTAATGGACAACCGAA
1 AATAATTTT-ATTTAATTTTTAATTT--TAAAAAAATTCATTTTGTACCTTAATGGAAAACCGAA
* *
433213 ATGATACGAAAAGTTTTGAAAATTTTCATACCCCTACGGA
63 AAGATACGAAAAGTTTTGAAGATTTTCATACCCCTACGGA
433253 TACCCATGAA
Statistics
Matches: 212, Mismatches: 22, Indels: 22
0.83 0.09 0.09
Matches are distributed among these distances:
139 5 0.02
140 65 0.31
141 58 0.27
142 11 0.05
143 70 0.33
144 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (140 bp):
AATAATTTTATTTAATTTTTAATTTTAAAAAAATTCATTTTGTACCTTAATGGAAAACCGAAAAG
ATACGAAAAGTTTTGAAGATTTTCATACCCCTACGGAAAACCATAGGAATATTAAAAATTTTGAA
AAATTAAGAG
Found at i:436535 original size:47 final size:47
Alignment explanation
Indices: 436436--436900 Score: 405
Period size: 47 Copynumber: 10.1 Consensus size: 47
436426 ACTGATATAA
* ** *
436436 TCAAATGAGGATGAAAAGAGTTTGACCA-GAACTAACGCTAATACAG
1 TCAAACGAGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
* * * *
436482 TCAAACAATGATGAAAAGAGTTTGATCAGGTCCTAACGCCAATATAG
1 TCAAACGAGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
* * * * *
436529 TCAAACAATGATGAAAAGAGTTTGACCAGGTCCTAACGTCAGTATAG
1 TCAAACGAGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
* * * * *
436576 TCAAACGGGGGTGAAAAGAGTTTGACGAGGTCCTAATGCGAATACAG
1 TCAAACGAGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
* * * *
436623 TCAAATGAGGGTGAAATGAATTTG---A---CC-AA--CCAATACAG
1 TCAAACGAGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
*** *
436661 TCAAA-GAAGGGCAAAAAGAGTTTGACCAGGTCCTAATGCCAATACAG
1 TCAAACG-AGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
* * * *
436708 TTAAACGA-GAGCGAAAAGAGTTTGACCAGGTCCTAACACCAATATAG
1 TCAAACGAGGA-TGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
* * * * * *
436755 TCAAACGAGGGTGAAAAGTGTTTAACTAGGTCTTAACGCCAATACAA
1 TCAAACGAGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
* * * * * *
436802 TCAAACAAGGGTGAAAAAAGTTTGACCAGATCCTAATGCAAATACAG
1 TCAAACGAGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
* ** * *
436849 TCAAATGAGGATGAAAAGAGTTTGATGAGGTCCTATCGCCAATACAT
1 TCAAACGAGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
436896 TCAAA
1 TCAAA
436901 AAAAGGTGAG
Statistics
Matches: 338, Mismatches: 67, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
37 1 0.00
38 26 0.08
40 2 0.01
41 3 0.01
44 3 0.01
45 2 0.01
46 25 0.07
47 274 0.81
48 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (47 bp):
TCAAACGAGGATGAAAAGAGTTTGACCAGGTCCTAACGCCAATACAG
Found at i:436680 original size:179 final size:179
Alignment explanation
Indices: 436495--436817 Score: 459
Period size: 179 Copynumber: 1.8 Consensus size: 179
436485 AACAATGATG
* * *
436495 AAAAGAGTTTGATCAGGTCCTAACGCCAATATAGTCAAACAATGA-TGAAAAGAGTTTGACCAGG
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAA-GAGCGAAAAGAGTTTGACCAGG
** * * * * * *
436559 TCCTAACGTCAGTATAGTCAAACGGGGGTGAAAAGAGTTTGACGAGGTCCTAATGCGAATACAGT
65 TCCTAACACCAATATAGTCAAACGAGGGTGAAAAGAGTTTAACGAGGTCCTAACGCCAATACAAT
**
436624 CAAATGAGGGTGAAATGAATTTGACCAACCAATACAGTCAAAGAAGGGCA
130 CAAACAAGGGTGAAATGAATTTGACCAACCAATACAGTCAAAGAAGGGCA
* * *
436674 AAAAGAGTTTGACCAGGTCCTAATGCCAATACAGTTAAACGAGAGCGAAAAGAGTTTGACCAGGT
1 AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAGCGAAAAGAGTTTGACCAGGT
* * *
436739 CCTAACACCAATATAGTCAAACGAGGGTGAAAAGTGTTTAACTAGGTCTTAACGCCAATACAATC
66 CCTAACACCAATATAGTCAAACGAGGGTGAAAAGAGTTTAACGAGGTCCTAACGCCAATACAATC
436804 AAACAAGGGTGAAA
131 AAACAAGGGTGAAA
436818 AAAGTTTGAC
Statistics
Matches: 124, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
178 2 0.02
179 122 0.98
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.20
Consensus pattern (179 bp):
AAAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAGCGAAAAGAGTTTGACCAGGT
CCTAACACCAATATAGTCAAACGAGGGTGAAAAGAGTTTAACGAGGTCCTAACGCCAATACAATC
AAACAAGGGTGAAATGAATTTGACCAACCAATACAGTCAAAGAAGGGCA
Found at i:436685 original size:38 final size:38
Alignment explanation
Indices: 436616--436688 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
436606 TCCTAATGCG
** *
436616 AATACAGTCAAATGAGGGTGAAATGAATTTGACCAACC
1 AATACAGTCAAATGAGGGCAAAAAGAATTTGACCAACC
*
436654 AATACAGTCAAA-GAAGGGCAAAAAGAGTTTGACCA
1 AATACAGTCAAATG-AGGGCAAAAAGAATTTGACCA
436689 GGTCCTAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 1 0.03
38 29 0.97
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (38 bp):
AATACAGTCAAATGAGGGCAAAAAGAATTTGACCAACC
Found at i:438491 original size:2 final size:2
Alignment explanation
Indices: 438484--438513 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
438474 TTTAGGTTGG
438484 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
438514 TATTTTAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:448839 original size:13 final size:13
Alignment explanation
Indices: 448821--448846 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
448811 ACAAGGATCT
448821 TTGTATCGATACA
1 TTGTATCGATACA
448834 TTGTATCGATACA
1 TTGTATCGATACA
448847 CTATATTGAT
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:451362 original size:19 final size:19
Alignment explanation
Indices: 451338--451393 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
451328 TGTATCGATA
451338 CATTGTATTGATACATGTT
1 CATTGTATTGATACATGTT
** **
451357 CATTGTATCAATACACACTT
1 CATTGTATTGATACA-TGTT
*
451377 AATTGTATTGATACATG
1 CATTGTATTGATACATG
451394 AAACTGGCAG
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (19 bp):
CATTGTATTGATACATGTT
Found at i:453396 original size:31 final size:31
Alignment explanation
Indices: 453359--453440 Score: 130
Period size: 31 Copynumber: 2.7 Consensus size: 31
453349 AAAAATCTAT
453359 GTCTTATGGCTTTTGAAGAATCGGTGGTAAA
1 GTCTTATGGCTTTTGAAGAATCGGTGGTAAA
453390 GTCTTATGGCTTTTGAAGAATCGGTGGTAAA
1 GTCTTATGGCTTTTGAAGAATCGGTGGTAAA
* * *
453421 TTCTTAT-ACCTTTGAAGAAT
1 GTCTTATGGCTTTTGAAGAAT
453441 TACAAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 11 0.23
31 37 0.77
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (31 bp):
GTCTTATGGCTTTTGAAGAATCGGTGGTAAA
Found at i:458531 original size:32 final size:33
Alignment explanation
Indices: 458495--458559 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
458485 CAATTTTCCC
* *
458495 ATGTATCAATATAATG-AACATGTATCGATACA
1 ATGTATCAATACAAAGCAACATGTATCGATACA
*
458527 ATGTATCAATACAAAGCAGCATGTATCGATACA
1 ATGTATCAATACAAAGCAACATGTATCGATACA
458560 TCAGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (33 bp):
ATGTATCAATACAAAGCAACATGTATCGATACA
Found at i:461679 original size:10 final size:10
Alignment explanation
Indices: 461664--461730 Score: 62
Period size: 10 Copynumber: 6.3 Consensus size: 10
461654 AGTATCGATA
461664 CATCACTGTT
1 CATCACTGTT
461674 CATCACTGTT
1 CATCACTGTT
* *
461684 CATAACTATT
1 CATCACTGTT
*
461694 CACATATCACTATT
1 --C--ATCACTGTT
*
461708 CATAACTGTT
1 CATCACTGTT
461718 CATCACTGTT
1 CATCACTGTT
461728 CAT
1 CAT
461731 GTATCGATAC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 37 0.79
12 2 0.04
14 8 0.17
ACGTcount: A:0.28, C:0.27, G:0.06, T:0.39
Consensus pattern (10 bp):
CATCACTGTT
Found at i:461710 original size:34 final size:34
Alignment explanation
Indices: 461665--461729 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
461655 GTATCGATAC
* *
461665 ATCACTGTTCATCACTGTTCATAACTATTCACAT
1 ATCACTATTCATAACTGTTCATAACTATTCACAT
* *
461699 ATCACTATTCATAACTGTTCATCACTGTTCA
1 ATCACTATTCATAACTGTTCATAACTATTCA
461730 TGTATCGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.38
Consensus pattern (34 bp):
ATCACTATTCATAACTGTTCATAACTATTCACAT
Found at i:461748 original size:13 final size:13
Alignment explanation
Indices: 461730--461754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
461720 TCACTGTTCA
461730 TGTATCGATACAG
1 TGTATCGATACAG
461743 TGTATCGATACA
1 TGTATCGATACA
461755 TTATGAATAG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:463511 original size:13 final size:13
Alignment explanation
Indices: 463493--463518 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
463483 TACAGCAAGT
463493 ATGTATCGATACA
1 ATGTATCGATACA
463506 ATGTATCGATACA
1 ATGTATCGATACA
463519 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:466866 original size:20 final size:20
Alignment explanation
Indices: 466787--466866 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
466777 AATGTCCAAA
*
466787 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
466807 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
466832 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
466852 TTGTATCGATACATT
1 ATGTATCGATACATT
466867 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:466870 original size:13 final size:13
Alignment explanation
Indices: 466852--466890 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
466842 ACATTTTTCT
466852 TTGTATCGATACA
1 TTGTATCGATACA
466865 TTGTATCGATACA
1 TTGTATCGATACA
*
466878 CTGTATCGATACA
1 TTGTATCGATACA
466891 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:467035 original size:21 final size:21
Alignment explanation
Indices: 467011--467057 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
467001 AAATCTTTTG
467011 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
467032 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
467052 CAAAAT
1 CAAAAT
467058 CAGCATTAAA
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:467054 original size:20 final size:19
Alignment explanation
Indices: 467013--467055 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
467003 ATCTTTTGCA
467013 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
467033 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
467053 AAA
1 AAA
467056 ATCAGCATTA
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
Found at i:469428 original size:13 final size:13
Alignment explanation
Indices: 469410--469435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
469400 TACAGCAAGT
469410 ATGTATCGATACA
1 ATGTATCGATACA
469423 ATGTATCGATACA
1 ATGTATCGATACA
469436 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
Done.