Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold9
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: 3883850
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 144036 characters in sequence are not A, C, G, or T
File 21 of 24
Found at i:3285968 original size:32 final size:33
Alignment explanation
Indices: 3285927--3285990 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3285917 TAGCCAAACT
**
3285927 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
3285959 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
3285991 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:3290104 original size:13 final size:13
Alignment explanation
Indices: 3290088--3290118 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3290078 ACATTTCATC
3290088 ATGTATCGATACA
1 ATGTATCGATACA
3290101 ATGTATCGATACA
1 ATGTATCGATACA
*
3290114 TTGTA
1 ATGTA
3290119 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3290106 original size:33 final size:33
Alignment explanation
Indices: 3290068--3290131 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
3290058 GTTACAAGCT
*
3290068 ATGTATCAATACATT-TCATCATGTATCGATACA
1 ATGTATCAATACATTGT-ACCATGTATCGATACA
*
3290101 ATGTATCGATACATTGTACCATGTATCGATA
1 ATGTATCAATACATTGTACCATGTATCGATA
3290132 TAAATAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCAATACATTGTACCATGTATCGATACA
Found at i:3290217 original size:19 final size:19
Alignment explanation
Indices: 3290163--3290217 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
3290153 CTGCCAGTTT
**
3290163 CATGTA-TGATACAATTGTC
1 CATGTATTGATACAA-TGAA
*
3290182 CATGTATCGATACAATGAA
1 CATGTATTGATACAATGAA
3290201 CATGTATTGATACAATG
1 CATGTATTGATACAATG
3290218 TATCGAGACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (19 bp):
CATGTATTGATACAATGAA
Found at i:3290246 original size:33 final size:32
Alignment explanation
Indices: 3290183--3290247 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
3290173 ACAATTGTCC
* * *
3290183 ATGTATCGATACAATGAACATGTATTGATACA
1 ATGTATCGAGACAAAGAACATGTATCGATACA
*
3290215 ATGTATCGAGACAAAGCAAGATGTATCGATACA
1 ATGTATCGAGACAAAG-AACATGTATCGATACA
3290248 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (32 bp):
ATGTATCGAGACAAAGAACATGTATCGATACA
Found at i:3290499 original size:19 final size:19
Alignment explanation
Indices: 3290475--3290516 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
3290465 TTGTTTACGG
3290475 TTTTTCAAACATTTTTCGA
1 TTTTTCAAACATTTTTCGA
*
3290494 TTTTTCAAACATTTTTCGG
1 TTTTTCAAACATTTTTCGA
3290513 TTTT
1 TTTT
3290517 ATTCAATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTTTCAAACATTTTTCGA
Found at i:3290931 original size:77 final size:76
Alignment explanation
Indices: 3290797--3290941 Score: 195
Period size: 77 Copynumber: 1.9 Consensus size: 76
3290787 TTTTTCTGTT
*
3290797 TTTTTCCTTTGTCCTTAAGGAGTAGGACACACTTCATTTCCTTTTTCCTTTGTCCTCAAAGAGTA
1 TTTTTCCTTTGTCCTTAAGGAGTAGGACACACTTCATTTCCTATTTCCTTTGTCCTCAAAGAGTA
3290862 GGATGTACTTC
66 GGATGTACTTC
* * * * *
3290873 TTTTTCTTTTTTCCTT-AGGAAGTAGGACGCACCTT-AGTTTTCTATTTCCTTTGTCCTCAAGGA
1 TTTTTCCTTTGTCCTTAAGG-AGTAGGACACA-CTTCA-TTTCCTATTTCCTTTGTCCTCAAAGA
3290936 GTAGGA
63 GTAGGA
3290942 CCCATTTCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
75 3 0.05
76 25 0.42
77 32 0.53
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (76 bp):
TTTTTCCTTTGTCCTTAAGGAGTAGGACACACTTCATTTCCTATTTCCTTTGTCCTCAAAGAGTA
GGATGTACTTC
Found at i:3290966 original size:42 final size:42
Alignment explanation
Indices: 3290917--3291072 Score: 141
Period size: 42 Copynumber: 3.5 Consensus size: 42
3290907 TAGTTTTCTA
*
3290917 TTTCCTTTGTCCTCAAGGAGTAGGACCCATTTCATTCTCCTT
1 TTTCCTTTGTCCTCAAGGAGCAGGACCCATTTCATTCTCCTT
* * * * *
3290959 TTCCCTTTTTCCTCAAGGAGCAGGACACATTCTTTTTTTCCTTTTTCCTT
1 TTTCCTTTGTCCTCAAGGAGCAGGAC-C---C---ATTT-CATTCTCCTT
* * *
3291009 TTTCCTTTGTCCTCAATGAGCATGACCCATTTCATTCTTCTT
1 TTTCCTTTGTCCTCAAGGAGCAGGACCCATTTCATTCTCCTT
* *
3291051 TTTCTTTTGTCCTCAAAGAGCA
1 TTTCCTTTGTCCTCAAGGAGCA
3291073 AGAGGTACTC
Statistics
Matches: 90, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
42 50 0.56
43 4 0.04
46 2 0.02
49 4 0.04
50 30 0.33
ACGTcount: A:0.17, C:0.28, G:0.12, T:0.44
Consensus pattern (42 bp):
TTTCCTTTGTCCTCAAGGAGCAGGACCCATTTCATTCTCCTT
Found at i:3291258 original size:62 final size:62
Alignment explanation
Indices: 3291181--3291450 Score: 177
Period size: 62 Copynumber: 4.3 Consensus size: 62
3291171 TCTAAGCTTG
* * *
3291181 CACAAGCTGGCGGCACCCGAATCTAAGCCCACATGAGTTAGTGGCACTTAAGTCAAAGCCCA
1 CACAAGCTGGTGGCACCCGAATCTAAGCCCACACGAGTTAGTGGCACCTAAGTCAAAGCCCA
* * * * * *
3291243 CACAAGCTGGTGGCACCTAAGTCTGAGTTTAAGCCGACATGAGTTGGTGGCACCCT-AGTTAAAG
1 CACAAGCTGGTGGCACC-----C-GAATCTAAGCCCACACGAGTTAGTGGCA-CCTAAGTCAAAG
* *
3291307 CTCG
59 CCCA
* * ** * * * ***
3291311 CACAAGTTGG-CGCACCC-AAGTCTAAGGTCGCACGGGCTAGCATCACCTAAGTCAAAGCCCA
1 CACAAGCTGGTGGCACCCGAA-TCTAAGCCCACACGAGTTAGTGGCACCTAAGTCAAAGCCCA
* * * * * * * * *
3291372 CATAAGCTAGTGGCACTCGAGTCTAAGCCCGCACAAGTTAATGGCACTTGAGTCAAAGCCCA
1 CACAAGCTGGTGGCACCCGAATCTAAGCCCACACGAGTTAGTGGCACCTAAGTCAAAGCCCA
3291434 CACAAGCTGGTGGCACC
1 CACAAGCTGGTGGCACC
3291451 TAAGTCTAAG
Statistics
Matches: 150, Mismatches: 47, Indels: 22
0.68 0.21 0.10
Matches are distributed among these distances:
60 4 0.03
61 29 0.19
62 66 0.44
63 1 0.01
67 6 0.04
68 42 0.28
69 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (62 bp):
CACAAGCTGGTGGCACCCGAATCTAAGCCCACACGAGTTAGTGGCACCTAAGTCAAAGCCCA
Found at i:3291276 original size:68 final size:67
Alignment explanation
Indices: 3291202--3291530 Score: 195
Period size: 68 Copynumber: 5.0 Consensus size: 67
3291192 GGCACCCGAA
*
3291202 TCTAAGCCCACATGAGTTAGTGGCACTTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTCT
1 TCTAAGCCCACA-GAGTTAGTGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTCT
3291267 GAG
65 GAG
* * * * * * * * *
3291270 TTTAAGCCGACATGAGTTGGTGGCACCCT-AGTTAAAGCTCGCACAAGTTGG-CGCACCCAAGTC
1 TCTAAGCCCACA-GAGTTAGTGGCA-CCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTC
*
3291333 TAAGG
64 TGA-G
* * *** * *
3291338 TC---G--CAC-GGGCTAGCATCACCTAAGTCAAAGCCCACATAAGCTAGTGGCA-C----TC-G
1 TCTAAGCCCACAGAGTTAGTGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTCTG
3291391 AG
66 AG
* * *
3291393 TCTAAGCCCGCACA-AGTTAATGGCACTTGAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTC
1 TCTAAG-CC-CACAGAGTTAGTGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTC
*
3291457 TAAG
64 TGAG
* * * * * * * * *
3291461 TCAAAACTCGCACA-AGCTGGTAGCGCCCAAGTCAAAGCCCACACAAGCTAGTGGCACCTAAGTT
1 TCTAAGC-C-CACAGAGTTAGTGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTC
3291525 TGAG
64 TGAG
3291529 TC
1 TC
3291531 AAGTCCTTAT
Statistics
Matches: 191, Mismatches: 51, Indels: 38
0.68 0.18 0.14
Matches are distributed among these distances:
55 3 0.02
56 1 0.01
57 2 0.01
58 1 0.01
60 3 0.02
61 23 0.12
62 38 0.20
63 3 0.02
65 1 0.01
67 15 0.08
68 99 0.52
69 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.19
Consensus pattern (67 bp):
TCTAAGCCCACAGAGTTAGTGGCACCTAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTCTG
AG
Found at i:3291400 original size:31 final size:31
Alignment explanation
Indices: 3291360--3291517 Score: 118
Period size: 31 Copynumber: 4.9 Consensus size: 31
3291350 GCATCACCTA
*
3291360 AGTCAAAGCCCACATAAGCTAGTGGCACTCG
1 AGTCAAAGCCCACACAAGCTAGTGGCACTCG
* * * * *
3291391 AGTCTAAGCCCGCACAAGTTAATGGCACTTG
1 AGTCAAAGCCCACACAAGCTAGTGGCACTCG
* *
3291422 AGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTCTA
1 AGTCAAAGCCCACACAAGCTAGTGGCA-C----TC-G
* * * * * * * *
3291459 AGTCAAAACTCGCACAAGCTGGTAGCGCCCA
1 AGTCAAAGCCCACACAAGCTAGTGGCACTCG
3291490 AGTCAAAGCCCACACAAGCTAGTGGCAC
1 AGTCAAAGCCCACACAAGCTAGTGGCAC
3291518 CTAAGTTTGA
Statistics
Matches: 96, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
31 70 0.73
32 2 0.02
36 2 0.02
37 22 0.23
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (31 bp):
AGTCAAAGCCCACACAAGCTAGTGGCACTCG
Found at i:3291600 original size:52 final size:52
Alignment explanation
Indices: 3291510--3291615 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 52
3291500 CACACAAGCT
* **
3291510 AGTGGCACCTAAGTTTGAGTCAAGTCCTTATTTATTGGCACCTGTCTAAGGA
1 AGTGGCACCTAAGTCTGAGTCAAGTCCTTATTTATTGGCACCTAACTAAGGA
3291562 AGTGGCACCTAAGTCTGAGTCAAGT-C-TATATTAGTTGGCACCTAACTAAGGA
1 AGTGGCACCTAAGTCTGAGTCAAGTCCTTAT-TTA-TTGGCACCTAACTAAGGA
3291614 AG
1 AG
3291616 CCAAGCCTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
50 3 0.06
51 4 0.08
52 42 0.86
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (52 bp):
AGTGGCACCTAAGTCTGAGTCAAGTCCTTATTTATTGGCACCTAACTAAGGA
Found at i:3297464 original size:13 final size:13
Alignment explanation
Indices: 3297446--3297471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3297436 CAATTTTTTG
3297446 TGTATCGATACAT
1 TGTATCGATACAT
3297459 TGTATCGATACAT
1 TGTATCGATACAT
3297472 ACTTGCTGTA
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:3297556 original size:20 final size:20
Alignment explanation
Indices: 3297531--3297604 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
3297521 CATCTTTTTT
3297531 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3297551 ATGTATCGATACATTTTTTTTC
1 ATGTATCGATACA--TTGCAAC
3297573 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3297593 ATGTATCGATAC
1 ATGTATCGATAC
3297605 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 28 0.64
22 16 0.36
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3297570 original size:41 final size:42
Alignment explanation
Indices: 3297510--3297604 Score: 174
Period size: 42 Copynumber: 2.3 Consensus size: 42
3297500 CTGCCAAGAA
3297510 ATGTATCGATACATCTTTTTT-ATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
*
3297551 ATGTATCGATACATTTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
3297593 ATGTATCGATAC
1 ATGTATCGATAC
3297605 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 20 0.38
42 32 0.62
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:3300068 original size:13 final size:13
Alignment explanation
Indices: 3300050--3300088 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3300040 ATAATCACCC
*
3300050 TGTATCGATACAG
1 TGTATCGATACAA
3300063 TGTATCGATACAA
1 TGTATCGATACAA
3300076 TGTATCGATACAA
1 TGTATCGATACAA
3300089 GGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3302187 original size:15 final size:15
Alignment explanation
Indices: 3302167--3302197 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3302157 ATTTCGTTTG
*
3302167 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3302182 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3302197 G
1 G
3302198 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:3306279 original size:13 final size:13
Alignment explanation
Indices: 3306261--3306286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3306251 CAATTTTTTG
3306261 TGTATCGATACAT
1 TGTATCGATACAT
3306274 TGTATCGATACAT
1 TGTATCGATACAT
3306287 ACTTGCTGTA
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:3306353 original size:22 final size:21
Alignment explanation
Indices: 3306325--3306403 Score: 88
Period size: 22 Copynumber: 3.7 Consensus size: 21
3306315 CTGCCAAGAA
3306325 ATGTATCGATACATCTTTTTTT
1 ATGTATCGATACAT-TTTTTTT
*****
3306347 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTT
3306367 ATGTATCGATACATTTTTTTT
1 ATGTATCGATACATTTTTTTT
3306388 CATGTATCGATACATT
1 -ATGTATCGATACATT
3306404 GCAACATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 15 0.33
21 2 0.04
22 28 0.62
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTT
Found at i:3306372 original size:20 final size:20
Alignment explanation
Indices: 3306347--3306420 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
3306337 ATCTTTTTTT
3306347 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3306367 ATGTATCGATACATTTTTTTTC
1 ATGTATCGATACA--TTGCAAC
3306389 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3306409 ATGTATCGATAC
1 ATGTATCGATAC
3306421 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 28 0.64
22 16 0.36
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3306386 original size:42 final size:42
Alignment explanation
Indices: 3306325--3306420 Score: 174
Period size: 42 Copynumber: 2.3 Consensus size: 42
3306315 CTGCCAAGAA
*
3306325 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
*
3306367 ATGTATCGATACATTTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
3306409 ATGTATCGATAC
1 ATGTATCGATAC
3306421 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:3314314 original size:14 final size:14
Alignment explanation
Indices: 3314295--3314322 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3314285 TCCTTCGTAC
3314295 CAAGAAAAAACAAA
1 CAAGAAAAAACAAA
3314309 CAAGAAAAAACAAA
1 CAAGAAAAAACAAA
3314323 AAAAAAGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.14, G:0.07, T:0.00
Consensus pattern (14 bp):
CAAGAAAAAACAAA
Found at i:3315579 original size:28 final size:28
Alignment explanation
Indices: 3315545--3316059 Score: 557
Period size: 28 Copynumber: 18.5 Consensus size: 28
3315535 CATTCATCTC
*
3315545 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
3315573 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3315601 TTCAAAGCCCATAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
3315629 TTCAAAGCCAACAAGTCAGTGACATCCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
3315657 TTCAAAGCCCATAAGTCAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
3315686 TT-AAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
3315713 TTCAAAGCCAATAAGTTAGTGGTATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3315741 TTCCAAGCCCACAAGTCAGTGGTAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3315768 TTTACAAGCCCACAAGTCAATGGCA-CCTT
1 TTCA-AAGCCCACAAGTCAGTGGCATCC-T
* * * *
3315797 TTCAAAGTCCACAAGTTAGTAGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
3315825 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
3315853 TTTAAATCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
3315881 TTCAAAGCCCACATGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3315909 TTTAAAGCCCACAAGTCAGTGACAT-C-
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
3315935 --C---GCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3315958 TTCAAAAGCCCATAAGTCAATGGCA-CCAT
1 TTC-AAAGCCCACAAGTCAGTGGCATCC-T
3315987 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
3316015 TTCAAAGCCCACACAAGTCGGTGGCAACTT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
3316045 TCTCTAAAGCCCACA
1 T-TC-AAAGCCCACA
3316060 CAAGTTGGTG
Statistics
Matches: 403, Mismatches: 64, Indels: 38
0.80 0.13 0.08
Matches are distributed among these distances:
21 18 0.04
22 1 0.00
25 1 0.00
27 8 0.02
28 314 0.78
29 32 0.08
30 21 0.05
31 4 0.01
32 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:3315941 original size:21 final size:21
Alignment explanation
Indices: 3315915--3315956 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3315905 CCCTTTTAAA
3315915 GCCCACAAGTCAGTGACATCC
1 GCCCACAAGTCAGTGACATCC
*
3315936 GCCCACAAGTCAGTGGCATCC
1 GCCCACAAGTCAGTGACATCC
3315957 TTTCAAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.38, G:0.21, T:0.14
Consensus pattern (21 bp):
GCCCACAAGTCAGTGACATCC
Found at i:3315995 original size:78 final size:77
Alignment explanation
Indices: 3315860--3316013 Score: 245
Period size: 78 Copynumber: 2.0 Consensus size: 77
3315850 CCTTTTAAAT
* * *
3315860 CCCACAAGTCAGTGGCATCATTTCAAAGCCCACATGTCAATGGCACCCTTTTAAAGCCCACAAGT
1 CCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGT
3315925 CAGTGACATCCG
66 CAGTGACATCCG
* *
3315937 CCCACAAGTCAGTGGCATCCTTTCAAAAGCCCATAAGTCAATGGCACCATTTCAAAGCCCACAAG
1 CCCACAAGTCAGTGGCATCATTTC-AAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAG
*
3316002 TCAGTGGCATCC
65 TCAGTGACATCC
3316014 TTTCAAAGCC
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 23 0.33
78 47 0.67
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (77 bp):
CCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAATGGCACCATTTCAAAGCCCACAAGT
CAGTGACATCCG
Found at i:3316059 original size:32 final size:30
Alignment explanation
Indices: 3315939--3316075 Score: 122
Period size: 28 Copynumber: 4.6 Consensus size: 30
3315929 GACATCCGCC
* *
3315939 CACAAGTCAGTGGCATCCTTTCAAAAG-CC-
1 CACAAGTCGGTGGCAACCTTTC-AAAGCCCA
* **
3315968 CATAAGTCAATGGC-ACCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACC-TTTCAAAGCCCA
* *
3315996 CACAAGTCAGTGGCATCCTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTCAAAGCCCA
*
3316026 CACAAGTCGGTGGCAACTTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTT-TC-AAAGCCCA
*
3316058 CACAAGTTGGTGGCAACC
1 CACAAGTCGGTGGCAACC
3316076 CTTCTAAACC
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
28 28 0.31
29 20 0.22
30 17 0.19
31 2 0.02
32 24 0.26
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (30 bp):
CACAAGTCGGTGGCAACCTTTCAAAGCCCA
Found at i:3318407 original size:174 final size:174
Alignment explanation
Indices: 3318117--3318468 Score: 677
Period size: 174 Copynumber: 2.0 Consensus size: 174
3318107 CAACAGGCTG
3318117 TTTCATCGTCCTAAACTACTTCGAGACTGTGTAAATGAGTTCGTGATGCTCATACCACTTTTTCC
1 TTTCATCGTCCTAAACTACTTCGAGACTGTGTAAATGAGTTCGTGATGCTCATACCACTTTTTCC
3318182 CTTCTATCATAGACATTCAGATGTCCATGACTCGAGTTTAGACCTGTAAACATTTAGAAAACCGA
66 CTTCTATCATAGACATTCAGATGTCCATGACTCGAGTTTAGACCTGTAAACATTTAGAAAACCGA
*
3318247 AACCTTCCCCTGTTTTACTATGTTCCCTACTGGCAGCAACTCTA
131 AACCTTCCCCTATTTTACTATGTTCCCTACTGGCAGCAACTCTA
3318291 TTTCATCGTCCTAAACTACTTCGAGACTGTGTAAATGAGTTCGTGATGCTCATACCACTTTTTCC
1 TTTCATCGTCCTAAACTACTTCGAGACTGTGTAAATGAGTTCGTGATGCTCATACCACTTTTTCC
*
3318356 CTTCTATCATGGACATTCAGATGTCCATGACTCGAGTTTAGACCTGTAAACATTTAGAAAACCGA
66 CTTCTATCATAGACATTCAGATGTCCATGACTCGAGTTTAGACCTGTAAACATTTAGAAAACCGA
*
3318421 AACCTTCCCCTATTTTACTATGTTCCCTATTGGCAGCAACTCTA
131 AACCTTCCCCTATTTTACTATGTTCCCTACTGGCAGCAACTCTA
3318465 TTTC
1 TTTC
3318469 GTGTTGAAAA
Statistics
Matches: 175, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 175 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (174 bp):
TTTCATCGTCCTAAACTACTTCGAGACTGTGTAAATGAGTTCGTGATGCTCATACCACTTTTTCC
CTTCTATCATAGACATTCAGATGTCCATGACTCGAGTTTAGACCTGTAAACATTTAGAAAACCGA
AACCTTCCCCTATTTTACTATGTTCCCTACTGGCAGCAACTCTA
Found at i:3319346 original size:97 final size:97
Alignment explanation
Indices: 3319195--3319431 Score: 341
Period size: 97 Copynumber: 2.4 Consensus size: 97
3319185 TTATTTATCG
* * * * *
3319195 GGGATACCCCAACCCTATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTT
1 GGGATACTCCAACCCCATTCCTCCAAGGGGATACTTCAACCCCGCTTTTAAACACATCAAAGTTT
*
3319260 AAATCTTATTCTCACTTAAATTGTCATCATCA
66 AAATCATATTCTCACTTAAATTGTCATCATCA
*
3319292 GGGATACTCCAACCCCATTCCACCAAGGGGATACTTCAACCCCGCTTTTAAACACATCAAAGTTT
1 GGGATACTCCAACCCCATTCCTCCAAGGGGATACTTCAACCCCGCTTTTAAACACATCAAAGTTT
**
3319357 AAATCATATTCTCACTTAAATTGTCATCATTG
66 AAATCATATTCTCACTTAAATTGTCATCATCA
* * * *
3319389 GGGACACTCTAACCCCATTCCTCCTAGGAGATAC-TCGAACCCC
1 GGGATACTCCAACCCCATTCCTCCAAGGGGATACTTC-AACCCC
3319432 ATTTTTCAAT
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 2 0.02
97 123 0.98
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (97 bp):
GGGATACTCCAACCCCATTCCTCCAAGGGGATACTTCAACCCCGCTTTTAAACACATCAAAGTTT
AAATCATATTCTCACTTAAATTGTCATCATCA
Found at i:3322223 original size:28 final size:28
Alignment explanation
Indices: 3322192--3322253 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
3322182 ATCAAGGATG
3322192 TGAAATCAA-CAAGAAATGT-AAAAGGAAA
1 TGAAAT-AAGCAAGAAATGTCAAAA-GAAA
*
3322220 TGAAATAAGCAAGAAATTTCAAAAGAAA
1 TGAAATAAGCAAGAAATGTCAAAAGAAA
*
3322248 AGAAAT
1 TGAAAT
3322254 TAATAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.07
28 24 0.80
29 4 0.13
ACGTcount: A:0.61, C:0.06, G:0.16, T:0.16
Consensus pattern (28 bp):
TGAAATAAGCAAGAAATGTCAAAAGAAA
Found at i:3327086 original size:42 final size:42
Alignment explanation
Indices: 3326977--3327095 Score: 168
Period size: 42 Copynumber: 2.8 Consensus size: 42
3326967 AAAAATTCCA
***
3326977 AATGTATCGATACATTTGTGGAATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGACAAATGTATCGATACATTTGTGG
***
3327019 AATGTATCGATACATTTGTGGAATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGACAAATGTATCGATACATTTGTGG
3327061 AATGTATCGATACATTCT-ACAAATGTATCGATACA
1 AATGTATCGATACATT-TGACAAATGTATCGATACA
3327096 GGGTCTCAAC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
42 72 0.99
43 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (42 bp):
AATGTATCGATACATTTGACAAATGTATCGATACATTTGTGG
Found at i:3327086 original size:63 final size:63
Alignment explanation
Indices: 3326977--3327095 Score: 195
Period size: 63 Copynumber: 1.9 Consensus size: 63
3326967 AAAAATTCCA
***
3326977 AATGTATCGATACATTTGTGGAATGTATCGATACATTTGTGGAATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGGAATGTATCGATACATTTGACAAATGTATCGATACATTTGTGG
3327040 AATGTATCGATACATTTGTGGAATGTATCGATACATTCT-ACAAATGTATCGATACA
1 AATGTATCGATACATTTGTGGAATGTATCGATACATT-TGACAAATGTATCGATACA
3327096 GGGTCTCAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
63 51 0.98
64 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (63 bp):
AATGTATCGATACATTTGTGGAATGTATCGATACATTTGACAAATGTATCGATACATTTGTGG
Found at i:3327095 original size:21 final size:21
Alignment explanation
Indices: 3326977--3327076 Score: 200
Period size: 21 Copynumber: 4.8 Consensus size: 21
3326967 AAAAATTCCA
3326977 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
3326998 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
3327019 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
3327040 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
3327061 AATGTATCGATACATT
1 AATGTATCGATACATT
3327077 CTACAAATGT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:3327156 original size:19 final size:19
Alignment explanation
Indices: 3327132--3327199 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3327122 ATTCAAACAA
3327132 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3327151 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3327166 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3327183 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3327200 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3327170 original size:32 final size:32
Alignment explanation
Indices: 3327134--3327196 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3327124 TCAAACAATT
*
3327134 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3327166 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3327197 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3327171 original size:13 final size:13
Alignment explanation
Indices: 3327153--3327177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3327143 ACATAAGTTT
3327153 TGTATCGATACAA
1 TGTATCGATACAA
3327166 TGTATCGATACA
1 TGTATCGATACA
3327178 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3327254 original size:13 final size:13
Alignment explanation
Indices: 3327236--3327261 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3327226 ATACATTCTG
3327236 TGTATCGATACAT
1 TGTATCGATACAT
3327249 TGTATCGATACAT
1 TGTATCGATACAT
3327262 GGATCAATGT
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:3329776 original size:28 final size:28
Alignment explanation
Indices: 3329740--3329821 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
3329730 ATTTTTCACA
* *
3329740 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
3329768 ATCGGGGATACTCCAACCCCGTTATTTTC
1 ATCGGGGATACTCCAACCCCGTTA-TTTC
* * *
3329797 A-AGGGAACACTCCAACCCCGTTATT
1 ATCGGGGATACTCCAACCCCGTTATT
3329822 ATCTCCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.04
28 41 0.85
29 5 0.10
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:3335987 original size:36 final size:36
Alignment explanation
Indices: 3335946--3336048 Score: 84
Period size: 36 Copynumber: 3.2 Consensus size: 36
3335936 CTTTTTTCTT
3335946 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
* * * *
3335982 TCAAAG---A-GC-AG--GAT-GCTTTTTCT--T-T
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
*
3336007 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
3336043 TCAAAG
1 TCAAAG
3336049 AGCAGGACAC
Statistics
Matches: 47, Mismatches: 9, Indels: 22
0.60 0.12 0.28
Matches are distributed among these distances:
25 6 0.13
26 1 0.02
28 9 0.19
29 3 0.06
30 2 0.04
31 2 0.04
32 3 0.06
33 8 0.17
35 1 0.02
36 12 0.26
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (36 bp):
TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
Found at i:3336089 original size:55 final size:55
Alignment explanation
Indices: 3335943--3337422 Score: 1682
Period size: 55 Copynumber: 25.9 Consensus size: 55
3335933 ACGCTTTTTT
* *
3335943 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----AC
*
3336004 TTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
3336059 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
3336114 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCCCCAAAGAGCAGGACAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACAC
3336169 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
3336224 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * * *
3336279 CTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-C-GTCCCCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
3336333 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGC
1 CTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* **
3336394 CTTCTCCTTTTAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACAC
1 CTT-T-C---AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
3336454 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * * *
3336509 CTCTCAAAGCCCACACAAGTTGGTGGCACCTTTT---GTCCCCAAAGAGCATGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACAC
* *
3336563 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCCTAC
1 CTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA-G--G---AC
3336628 AC
54 AC
* * *
3336630 CTCTCAAAGCCCACACAAGTTGGTGGCACCTTTT---GTCCCCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACAC
* *
3336684 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTC
1 CTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA------C
3336749 AC
54 AC
*
3336751 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
3336806 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGATAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
*
3336861 TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGC
1 -----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
3336922 CTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
3336977 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
3337032 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGTAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * * *
3337087 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGTAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* ** * ** *
3337142 CTTTTCTTTTAAAACCCACACAAGTTGGTGGCA-CCTCCAGTTCTCAAAGAGTGGGACGCC
1 C-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC
3337202 TTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 ----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
3337261 CTCTT-AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACGC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
3337316 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGACGC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
** * ** * *
3337371 CTTTCAAAGCCCACACGTGTTTGTGGCATTTTTTACTCCTCAATGAGCAGGA
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
3337423 TACACTTTAT
Statistics
Matches: 1257, Mismatches: 88, Indels: 154
0.84 0.06 0.10
Matches are distributed among these distances:
53 4 0.00
54 50 0.04
55 699 0.56
56 23 0.02
57 9 0.01
58 5 0.00
59 48 0.04
60 181 0.14
61 216 0.17
63 6 0.00
64 2 0.00
65 2 0.00
66 2 0.00
67 10 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (55 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
Found at i:3336228 original size:27 final size:27
Alignment explanation
Indices: 3336198--3336280 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
3336188 TTGGTGGCAT
3336198 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
3336225 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
3336253 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
3336280 T
1 T
3336281 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:3337063 original size:27 final size:27
Alignment explanation
Indices: 3337033--3337118 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
3337023 GCAGGACACC
3337033 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
* * * *** *
3337060 TTTTCCAATCCTCA-A-AGAGTAGGACACC
1 TTTT-AAAGCC-CACACA-AGTTGGTGGCA
3337088 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
3337115 TTTT
1 TTTT
3337119 CCAATCCTCA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 2 0.05
27 20 0.50
28 16 0.40
29 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:3338210 original size:21 final size:21
Alignment explanation
Indices: 3338163--3338220 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
3338153 AAAAAAATTC
*
3338163 CAAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGA
**
3338184 GGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATT-TGA
3338205 CAAATGTATCGATACA
1 CAAATGTATCGATACA
3338221 GGGTCTCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
CAAATGTATCGATACATTTGA
Found at i:3338281 original size:19 final size:19
Alignment explanation
Indices: 3338257--3338324 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3338247 ATTCAAACAA
3338257 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3338276 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3338291 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3338308 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3338325 TTAGCTACAG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3338295 original size:32 final size:32
Alignment explanation
Indices: 3338259--3338321 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3338249 TCAAACAATT
*
3338259 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3338291 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3338322 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3338296 original size:13 final size:13
Alignment explanation
Indices: 3338278--3338302 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3338268 ACATAAGTTT
3338278 TGTATCGATACAA
1 TGTATCGATACAA
3338291 TGTATCGATACA
1 TGTATCGATACA
3338303 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3338382 original size:13 final size:13
Alignment explanation
Indices: 3338364--3338389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3338354 CATTTTTCTG
3338364 TGTATCGATACAT
1 TGTATCGATACAT
3338377 TGTATCGATACAT
1 TGTATCGATACAT
3338390 GGATCAATGT
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:3340896 original size:28 final size:28
Alignment explanation
Indices: 3340860--3340941 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
3340850 ATTTTTCACA
* *
3340860 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
3340888 ATCGGGGATACTCCAACCCCGTTATTTTC
1 ATCGGGGATACTCCAACCCCGTTA-TTTC
* * *
3340917 A-AGGGAACACTCCAACCCCGTTATT
1 ATCGGGGATACTCCAACCCCGTTATT
3340942 ATCTCCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.04
28 41 0.85
29 5 0.10
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:3342036 original size:20 final size:19
Alignment explanation
Indices: 3341997--3342036 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3341987 AGAATCAAAA
*
3341997 TAAAATAAATTAAACCTTT
1 TAAAATAAATTAAACATTT
*
3342016 TAAAATAAAATTAATCATTT
1 TAAAAT-AAATTAAACATTT
3342036 T
1 T
3342037 TATATATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATAAATTAAACATTT
Found at i:3342968 original size:20 final size:20
Alignment explanation
Indices: 3342943--3342996 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
3342933 TTTTGGGACA
3342943 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTGC--C
3342963 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
3342983 ATGTATCGATACAA
1 ATGTATCGATACAA
3342997 GCAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:3343061 original size:20 final size:20
Alignment explanation
Indices: 3343036--3343094 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
3343026 ACAAAGCTAA
3343036 TGTGCATGTATCGATACAAT
1 TGTGCATGTATCGATACAAT
*
3343056 TGTGCATGTATTGATACAA-
1 TGTGCATGTATCGATACAAT
**
3343075 TGAACATGTATCGATACAAT
1 TGTGCATGTATCGATACAAT
3343095 GTATCGATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTGCATGTATCGATACAAT
Found at i:3343084 original size:19 final size:19
Alignment explanation
Indices: 3343040--3343095 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3343030 AGCTAATGTG
**
3343040 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
3343060 CATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
3343079 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3343096 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3343098 original size:13 final size:13
Alignment explanation
Indices: 3343080--3343119 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
3343070 TACAATGAAC
3343080 ATGTATCGATACA
1 ATGTATCGATACA
3343093 ATGTATCGATACA
1 ATGTATCGATACA
3343106 ATGTATCGATACA
1 ATGTATCGATACA
3343119 A
1 A
3343120 AGCATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3346361 original size:106 final size:106
Alignment explanation
Indices: 3346248--3346460 Score: 356
Period size: 106 Copynumber: 2.0 Consensus size: 106
3346238 ACTTTGAATG
* * *
3346248 AAATTCTTGAATTTT-CTCAGTAATAAAGCACGAGCATTTCTTTACTTGTAAAATTTTTGATGGA
1 AAATTCTTGAATTTTCCT-AGCAACAAAGCACGAACATTTCTTTACTTGTAAAATTTTTGATGGA
3346312 ATTTTCTCAAGCTTTAAACATCAAAATTCTCCAAATATTATC
65 ATTTTCTCAAGCTTTAAACATCAAAATTCTCCAAATATTATC
* *
3346354 AAATTCTTGAATTTTCCTAGCAACAAAGCTCGAACATTTCTTTGCTTGTAAAATTTTTGATGGAA
1 AAATTCTTGAATTTTCCTAGCAACAAAGCACGAACATTTCTTTACTTGTAAAATTTTTGATGGAA
*
3346419 TTTTCTCAAGCTTTAAACATCAAAATTCTCTAAATATTATC
66 TTTTCTCAAGCTTTAAACATCAAAATTCTCCAAATATTATC
3346460 A
1 A
3346461 TTTAATTACC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
106 98 0.98
107 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (106 bp):
AAATTCTTGAATTTTCCTAGCAACAAAGCACGAACATTTCTTTACTTGTAAAATTTTTGATGGAA
TTTTCTCAAGCTTTAAACATCAAAATTCTCCAAATATTATC
Found at i:3346744 original size:166 final size:164
Alignment explanation
Indices: 3346440--3346876 Score: 449
Period size: 166 Copynumber: 2.6 Consensus size: 164
3346430 TTTAAACATC
* * * ** *
3346440 AAAATTC-TCTAAATATTATCATTTAATT-ACCATCAAATCAGTTTTGAAAAATTCTTTTA-TTT
1 AAAATTCATC-AAATATTATAATTTAATTCA-TATTAAATCAGTTTTGAAAAATTAATTCATTTT
* * * *
3346502 CATAAGTTATTAATTTTTCTTTGGAAATCTTTCTGTTTTTGAAATACAGAGTTTTCTTCTCCGTA
64 CATGAGTTTTTAATTTTTCCTT-GAAAT-TTTCT-TTTTTAAAATACAGAGTTTTCTTCTCCGTA
*
3346567 AATTTTTTTCG-AGAGGA-TTTTCATAGGTTTAAAATTTTG
126 AATTGTTTTCGAAG-GGATTTTTC-TAGGTTTAAAATTTTG
* * *
3346606 AAAATTCATCAAATATTATTATTTTATTCATATTAAATCATTTTTGAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATAATTTAATTCATATTAAATCAGTTTTGAAAAATTAATTCATTTTCA
3346671 TGAGTTTTTAAATTTTTCCTTGAAATTTTCTTTTTTCCAAAATAC-GAAGTTTT-TTACTCCGTA
66 TGAGTTTTT-AATTTTTCCTTGAAATTTTCTTTTTT--AAAATACAG-AGTTTTCTT-CTCCGTA
* *** *
3346734 AA-TGTTTTCGAAGGGATTTTTCTTGGTTTTTCATTTTT
126 AATTGTTTTCGAAGGGATTTTTCTAGGTTTAAAATTTTG
* * * * * **
3346772 AAAATTTATCAAATATTATAATTTAATTCTTATTAAATTAGTTCTAAAAAATTAATTCATCATCA
1 AAAATTCATCAAATATTATAATTTAATTCATATTAAATCAGTTTTGAAAAATTAATTCATTTTCA
* *
3346837 TGAGTTTTTGAATTTTTTCTTGAAATTTTCTTTTTAAAAA
66 TGAGTTTTT-AATTTTTCCTTGAAATTTTCTTTTTTAAAA
3346877 AAATCAGGTT
Statistics
Matches: 230, Mismatches: 31, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
164 4 0.02
165 5 0.02
166 163 0.71
167 48 0.21
168 10 0.04
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.49
Consensus pattern (164 bp):
AAAATTCATCAAATATTATAATTTAATTCATATTAAATCAGTTTTGAAAAATTAATTCATTTTCA
TGAGTTTTTAATTTTTCCTTGAAATTTTCTTTTTTAAAATACAGAGTTTTCTTCTCCGTAAATTG
TTTTCGAAGGGATTTTTCTAGGTTTAAAATTTTG
Found at i:3348471 original size:12 final size:13
Alignment explanation
Indices: 3348447--3348471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3348437 TCGAGATAAA
3348447 TTTTAATCTTTTT
1 TTTTAATCTTTTT
3348460 TTTTAATCTTTT
1 TTTTAATCTTTT
3348472 ATATTCCTTT
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTAATCTTTTT
Found at i:3349358 original size:26 final size:26
Alignment explanation
Indices: 3349324--3349373 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
3349314 GAATCTTAAA
*
3349324 GAAAAGCGGGTTA-GAGTATCCCCTC
1 GAAAAGCGGGGTAGGAGTATCCCCTC
3349349 GAAAGAGCGGGGTAGGAGTATCCCC
1 GAAA-AGCGGGGTAGGAGTATCCCC
3349374 GACCGTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 8 0.36
27 10 0.45
ACGTcount: A:0.28, C:0.22, G:0.34, T:0.16
Consensus pattern (26 bp):
GAAAAGCGGGGTAGGAGTATCCCCTC
Found at i:3350720 original size:20 final size:19
Alignment explanation
Indices: 3350644--3350718 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
3350634 AAGTACCCAG
3350644 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTT-A
* * *
3350664 ATGTATCAATACATGTATGA
1 ATGTATCGATACAT-TTTTA
* *
3350684 ATGTATTGATATATTCTTTA
1 ATGTATCGATACATT-TTTA
3350704 ATGTATCGATACATT
1 ATGTATCGATACATT
3350719 CTGTCTTTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.02
20 40 0.93
21 2 0.05
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (19 bp):
ATGTATCGATACATTTTTA
Found at i:3355242 original size:13 final size:13
Alignment explanation
Indices: 3355224--3355251 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3355214 CATTAGTCAA
3355224 TGTATCGATACAT
1 TGTATCGATACAT
3355237 TGTATCGATACAT
1 TGTATCGATACAT
3355250 TG
1 TG
3355252 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3355246 original size:33 final size:33
Alignment explanation
Indices: 3355204--3355270 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
3355194 ACCAAGGAAA
3355204 TGTATCGATACATT-AGTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
3355237 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
3355270 T
1 T
3355271 TGGGAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:3362507 original size:13 final size:13
Alignment explanation
Indices: 3362489--3362514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3362479 CAATTTTTGG
3362489 TGTATCGATACAT
1 TGTATCGATACAT
3362502 TGTATCGATACAT
1 TGTATCGATACAT
3362515 ACTTGGTGTA
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:3362526 original size:32 final size:33
Alignment explanation
Indices: 3362469--3362532 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3362459 TACAAGCCAA
**
3362469 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3362502 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
3362533 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3362539 original size:19 final size:18
Alignment explanation
Indices: 3362469--3362539 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
3362459 TACAAGCCAA
3362469 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
3362489 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
3362502 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
3362521 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
3362540 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:3365063 original size:13 final size:13
Alignment explanation
Indices: 3365045--3365083 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
3365035 ATAATCACCC
3365045 TGTATCGATACAA
1 TGTATCGATACAA
3365058 TGTATCGATACAA
1 TGTATCGATACAA
3365071 TGTATCGATACAA
1 TGTATCGATACAA
3365084 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3369024 original size:21 final size:21
Alignment explanation
Indices: 3368995--3369039 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3368985 AAGTTTTTAT
*
3368995 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3369015 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3369037 TTT
1 TTT
3369040 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:3371261 original size:13 final size:13
Alignment explanation
Indices: 3371243--3371268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3371233 CAATTTTTGG
3371243 TGTATCGATACAT
1 TGTATCGATACAT
3371256 TGTATCGATACAT
1 TGTATCGATACAT
3371269 ACTTGGTGTA
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:3371280 original size:32 final size:33
Alignment explanation
Indices: 3371223--3371286 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3371213 TACAAGCCAA
**
3371223 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3371256 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
3371287 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3371293 original size:19 final size:18
Alignment explanation
Indices: 3371223--3371293 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
3371213 TACAAGCCAA
3371223 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
3371243 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
3371256 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
3371275 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
3371294 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:3372636 original size:154 final size:159
Alignment explanation
Indices: 3372286--3372892 Score: 547
Period size: 154 Copynumber: 3.7 Consensus size: 159
3372276 TTTTTTTTTG
3372286 AAATACGGTGTTTTCTACTCCGTAAATTTTTTCGAGGGAATTTTTCTCGGTTTTCAATTTTTAAA
1 AAATACGGTGTTTTCTACTCCGTAAATTTTTTCGAGGG-ATTTTT-TC-GTTTTCAATTTTTAAA
*
3372351 ATTCATCAAACATCATTATTTGATTCATATTAAATCAATTTTCAAAAATTAATTCATTTTCATGA
63 ATTCATCAAACATCATTATTTGATTCATATTAAATCAAGTTTC-AAAA-TAATTCA-TTTCAT--
*
3372416 GTTTTTGAATTTTTTCCTTGAAACTCTCTTTTTTTTCTA
123 GTTTTT-AATTTTTTCCTTGAAACTCTC-TATTTTTCTA
*
3372455 AAATACGGTGTTTTCTACTCCGTAAATTTTTTCGAGGAGATTTTTTCGATTTTTAATTTTTAAAA
1 AAATACGGTGTTTTCTACTCCGTAAATTTTTTCGAGG-GATTTTTTCG-TTTTCAATTTTTAAAA
* * *
3372520 TTCATCAAACATCATTATTTGTTTTC-TATTAATTCTAGTTTC-AAA-AATTCA-TTCAT-TTTT
64 TTCATCAAACATCATTATTTG-ATTCATATTAAATCAAGTTTCAAAATAATTCATTTCATGTTTT
3372580 T-A-TTTTTCCTTGAAACTCTC-ATTTTTCTA
128 TAATTTTTTCCTTGAAACTCTCTATTTTTCTA
* * * * * * *
3372609 AAATACGATGTTTTTTATTACGTAAATTTTTTTGAGGGGATTTTCTTAGTTTTCAATCTTTAAAA
1 AAATACGGTGTTTTCTACTCCGTAAATTTTTTCGA-GGGATTTT-TTCGTTTTCAATTTTTAAAA
* * * * ** * * *
3372674 TTTATCAAACATCATCATTTGATTCATATAAAATTATTTTTTAAAAATTCATTCATTTTCATTCA
64 TTCATCAAACATCATTATTTGATTCATATTAAATCA-AGTTTCAAAA-TAATTCA-TTTCA-T-G
* * * * * *
3372739 TTTTTCATTTTTTCCATGAAATTTTTCT-GTTTTC-G
124 TTTTTAATTTTTTCCTTGAAA-CTCTCTATTTTTCTA
*** * * *
3372774 AAATACAAAGTTTTCTACTCCGTAAATTTTTTTGAGAGGATTTTTCTTTGTTTTTAATTTTTAAA
1 AAATACGGTGTTTTCTACTCCGTAAATTTTTTCGAG-GGA-TTTT-TTCGTTTTCAATTTTTAAA
* * * **
3372839 ATTTATCAAATATTATTATTT-ATTTCATATTAAATC-AGTTTTTAAA-AATTCATT
63 ATTCATCAAACATCATTATTTGA-TTCATATTAAATCAAGTTTCAAAATAATTCATT
3372893 CATTTTCATG
Statistics
Matches: 368, Mismatches: 48, Indels: 52
0.79 0.10 0.11
Matches are distributed among these distances:
153 3 0.01
154 83 0.23
155 8 0.02
156 21 0.06
157 1 0.00
158 5 0.01
159 5 0.01
160 4 0.01
161 3 0.01
162 10 0.03
163 5 0.01
164 14 0.04
165 46 0.12
166 61 0.17
167 1 0.00
168 51 0.14
169 46 0.12
170 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (159 bp):
AAATACGGTGTTTTCTACTCCGTAAATTTTTTCGAGGGATTTTTTCGTTTTCAATTTTTAAAATT
CATCAAACATCATTATTTGATTCATATTAAATCAAGTTTCAAAATAATTCATTTCATGTTTTTAA
TTTTTTCCTTGAAACTCTCTATTTTTCTA
Found at i:3373235 original size:14 final size:15
Alignment explanation
Indices: 3373216--3373245 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3373206 AAATTTTATC
3373216 TTAATTTTTA-AATT
1 TTAATTTTTACAATT
3373230 TTAATTTTTACAATT
1 TTAATTTTTACAATT
3373245 T
1 T
3373246 AATCTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATTTTTACAATT
Found at i:3375441 original size:155 final size:155
Alignment explanation
Indices: 3375028--3375704 Score: 580
Period size: 156 Copynumber: 4.3 Consensus size: 155
3375018 GTGTCCACTA
* * * * * *
3375028 GGGTATCGAGTACTTTTACGTCGAAGATATCCCCTTA-TGGTATTTTCATAA-TTTTCTACAACC
1 GGGTATCGGGTACTTCTACGTCGAAGGTATCCCC-TAGGGGTATTTTGATAATTTTTC-AGAACC
** * * * *
3375091 AACTCCTACGTCATCGCCGGGTCCGTTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATTCC
64 AACTCCTACGTCATCATCGGGTCCGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCC
3375156 -TCATATAATCCTTTTTAAGTCC-TTTAG
129 ATC-TATAATCCTTTTTAAG-CCTTTTAG
* * * * * *
3375183 GGATACCGAGATACTTTCT-CATCGAAGGTAT-ACCTACAGAGGTATTTTGATAATTTTGT-AGA
1 GGGTATCG-GGTAC-TTCTACGTCGAAGGTATCCCCT--AGGGGTATTTTGATAATTTT-TCAGA
* ** * * *
3375245 ACCAACTCCTAGGTTGTCATCAGGTCCGCTTTTATACCGAAGGTGGGTATTTAGGATAGGTTCAT
61 ACCAACTCCTACGTCATCATCGGGTCCGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCAT
*
3375310 CCCATCTATAATTCTTTTTAAGCCTTTTAG
126 CCCATCTATAATCCTTTTTAAGCCTTTTAG
* *
3375340 GGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTTATAATTTTTCAGAACCAA
1 GGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGTATTTTGATAATTTTTCAGAACCAA
* * * * **
3375405 TTCCTACGTCATCATTGGGTCCGCTTTTATGCCGAAGATGGGTATTTAGGATAGGTTCATCTTAG
66 CTCCTACGTCATCATCGGGTCCGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCA-
* * **
3375470 TTTGTAATCCTTTTTAAATCTTTTAG
130 TCTATAATCCTTTTTAAGCCTTTTAG
* * * * * * * * * * * ***
3375496 GGATATCGAGCACTTCTACTTCGAAGATATCTCTTAAGGGTATTTTGGTAATTTTTTAAAATTGA
1 GGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGTATTTTGATAATTTTTCAGAACCAA
* * ** ** * * *
3375561 GTCCTAGGTTGTCATCGGGTCTACTTTTATGTCAAATGTGGGTATTTAGGATAGGTTCATCCTAT
66 CTCCTACGTCATCATCGGGTCCGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCAT
* *
3375626 CTATAA-CTCTTTTTAAGTCATTTAG
131 CTATAATC-CTTTTTAAGCCTTTTAG
* * * * *
3375651 AGGTATCGGGTACTTCGATGTTGAAGGTGTCCCCTAGGGGTATTTTTG-TAATTT
1 GGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGTA-TTTTGATAATTT
3375705 GTTTGAACTT
Statistics
Matches: 415, Mismatches: 92, Indels: 30
0.77 0.17 0.06
Matches are distributed among these distances:
154 3 0.01
155 146 0.35
156 158 0.38
157 102 0.25
158 5 0.01
159 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (155 bp):
GGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGTATTTTGATAATTTTTCAGAACCAA
CTCCTACGTCATCATCGGGTCCGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCAT
CTATAATCCTTTTTAAGCCTTTTAG
Found at i:3375641 original size:311 final size:313
Alignment explanation
Indices: 3375028--3375704 Score: 789
Period size: 311 Copynumber: 2.2 Consensus size: 313
3375018 GTGTCCACTA
* * * * *
3375028 GGGTATCGAGTACTTTTACGTCGAAGATATCCCCTTA-TGGTATTTTCATAA-TTTTCTACAACC
1 GGGTATCGGGTACTTCTACGTCGAAGGTATCCCC-TAGGGGTATTTTTATAATTTTTCTACAACC
* * *
3375091 AACTCCTACGTCATCGCCGGGTCCGTTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATTCC
65 AACTCCTACGTCATCACCGGGTCCGCTTTTATGCCAAAGATAGATATTTAGGATAGGTTCATTCC
* * *
3375156 TCATATAATCCTTTTTAAGTCCTTTAGGGATACCGAGATACTTTCTCATCGAAGGTATACCTACA
130 TCATATAATCCTTTTTAAATCCTTTAGGGATACCGAGACACTTTCTCATCGAAGATATACCTACA
* * *
3375221 GAGGTATTTTGATAATTTTGTAGAACCAACTCCTAGGTTGTCATCAGGTCCGCTTTTATACCGAA
195 GAGGTATTTTGATAATTTTGTAAAACCAACTCCTAGGTTGTCATCAGGTCCACTTTTATACCAAA
* *
3375286 GGTGGGTATTTAGGATAGGTTCATCCCATCTATAATTCTTTTTAAGCCTTTTAG
260 GGTGGGTATTTAGGATAGGTTCATCCCATCTATAACTCTTTTTAAGCCATTTAG
* *
3375340 GGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTTATAATTTTTC-AGAACCA
1 GGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGTATTTTTATAATTTTTCTACAACCA
* ** * * *
3375404 ATTCCTACGTCATCATTGGGTCCGCTTTTATGCCGAAGATGGGTATTTAGGATAGGTTCA-T-CT
66 ACTCCTACGTCATCACCGGGTCCGCTTTTATGCCAAAGATAGATATTTAGGATAGGTTCATTCCT
* * * * *
3375467 TAGTTTGTAATCCTTTTTAAATCTTTTAGGGATATCGAG-CAC-TTCTACTTCGAAGATAT-CTC
131 CA---TATAATCCTTTTTAAATCCTTTAGGGATACCGAGACACTTTCT-CATCGAAGATATAC-C
* * *** * * * *
3375529 TTA-AG-GGTATTTTGGTAATTTTTTAAAATTGAGTCCTAGGTTGTCATCGGGTCTACTTTTATG
191 -TACAGAGGTATTTTGATAATTTTGTAAAACCAACTCCTAGGTTGTCATCAGGTCCACTTTTATA
* * * *
3375592 TCAAATGTGGGTATTTAGGATAGGTTCATCCTATCTATAACTCTTTTTAAGTCATTTAG
255 CCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAACTCTTTTTAAGCCATTTAG
* * * * * *
3375651 AGGTATCGGGTACTTCGATGTTGAAGGTGTCCCCTAGGGGTATTTTTGTAATTT
1 GGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGTATTTTTATAATTT
3375705 GTTTGAACTT
Statistics
Matches: 308, Mismatches: 49, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
310 3 0.01
311 154 0.50
312 114 0.37
313 37 0.12
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (313 bp):
GGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGTATTTTTATAATTTTTCTACAACCA
ACTCCTACGTCATCACCGGGTCCGCTTTTATGCCAAAGATAGATATTTAGGATAGGTTCATTCCT
CATATAATCCTTTTTAAATCCTTTAGGGATACCGAGACACTTTCTCATCGAAGATATACCTACAG
AGGTATTTTGATAATTTTGTAAAACCAACTCCTAGGTTGTCATCAGGTCCACTTTTATACCAAAG
GTGGGTATTTAGGATAGGTTCATCCCATCTATAACTCTTTTTAAGCCATTTAG
Found at i:3377899 original size:77 final size:78
Alignment explanation
Indices: 3377778--3377928 Score: 214
Period size: 77 Copynumber: 1.9 Consensus size: 78
3377768 CATCATTTCA
* * * * * * *
3377778 TGCATATTTACATGGCATTAGTATTTGCATTATTTCATACGCATTTGCCACTTTATTGATACTTG
1 TGCATATTTACATGACATTAGCATTTGAATCATTCCATAAGCATTTGCCACTTTATTGAAACTTG
3377843 CATATGCATCATT
66 CATATGCATCATT
*
3377856 TGCAT-TTTACATGACATTGGCATTTGAATCATTCCATAAGCATTTGCCACTTTATTGAAACTTG
1 TGCATATTTACATGACATTAGCATTTGAATCATTCCATAAGCATTTGCCACTTTATTGAAACTTG
*
3377920 CATTTGCAT
66 CATATGCAT
3377929 TGTTTCACAT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
77 59 0.92
78 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (78 bp):
TGCATATTTACATGACATTAGCATTTGAATCATTCCATAAGCATTTGCCACTTTATTGAAACTTG
CATATGCATCATT
Found at i:3378554 original size:91 final size:91
Alignment explanation
Indices: 3378387--3379163 Score: 816
Period size: 91 Copynumber: 8.5 Consensus size: 91
3378377 AACCCATAAA
* * * * *
3378387 TTCCCAATCATATCCCTTTCATTCAACCACTAAATGGTACTAATGCATCACAAAACTTGATTTCC
1 TTCCTAATCATATCCCCTTCATTCAACCACTAGATGGTACTGATGCATCACAAAGCTTGATTTCC
* * * *
3378452 TTAGGGTAAGGGTGCGACCTATATAT
66 TTAGGGCAAGGGTGCGACCCACACAT
* *
3378478 TTCCTAATCATATCCCCTTCATTCAACCACTAAATGGTACTGATGCATCAGAAAGCTTGATTTCC
1 TTCCTAATCATATCCCCTTCATTCAACCACTAGATGGTACTGATGCATCACAAAGCTTGATTTCC
* *
3378543 TTAAGGCAAGGGTGCGGCCCACACA-
66 TTAGGGCAAGGGTGCGACCCACACAT
* *
3378568 TTCCTTAATCATATCCCCTTCATTCAAGCACTAGATGGTAATGATGCATCACAAAGCTTGATTTC
1 TTCC-TAATCATATCCCCTTCATTCAACCACTAGATGGTACTGATGCATCACAAAGCTTGATTTC
* * * *
3378633 CTAAAGGCAAGGATGCGACTCACACA-
65 CTTAGGGCAAGGGTGCGACCCACACAT
* * * * * *
3378659 TTCTCTAATCATATCCCTTTTATTCAACCATTTGATGGTACTAATGCATCACAATGCTTGATTTC
1 TTC-CTAATCATATCCCCTTCATTCAACCACTAGATGGTACTGATGCATCACAAAGCTTGATTTC
*
3378724 CTTAGGGCAAGGGTGCAACCCACACA-
65 CTTAGGGCAAGGGTGCGACCCACACAT
* * *
3378750 TTCTCTAATCATATCCCC-TCTATTCAACCACTAGATGGTATTAATGCATCACAAAGGTTGATTT
1 TTC-CTAATCATATCCCCTTC-ATTCAACCACTAGATGGTACTGATGCATCACAAAGCTTGATTT
* *
3378814 CCTTACGGCAAAGGTGC-AGCCCACACAT
64 CCTTAGGGCAAGGGTGCGA-CCCACACAT
* * * * * * * * *
3378842 TCCCTAATCACATCCCCTTTATTCAAACATTAGATGGTACTGACGCATCAAAAAGCTTAATTTTC
1 TTCCTAATCATATCCCCTTCATTCAACCACTAGATGGTACTGATGCATCACAAAGCTTGATTTCC
** **
3378907 TTAGGGCAAGGGTATGGTCCACACAT
66 TTAGGGCAAGGGTGCGACCCACACAT
* * * * *
3378933 TCCCTAATCATATCCCTTTCATTCAACCACTAAATGGTACTGATGCATCATAAATCTTGATTTCC
1 TTCCTAATCATATCCCCTTCATTCAACCACTAGATGGTACTGATGCATCACAAAGCTTGATTTCC
* * *
3378998 TTGGGGTAAGGGTGC-AGCCCACACGT
66 TTAGGGCAAGGGTGCGA-CCCACACAT
* * * * * *
3379024 TCCCTAATCATATCCCCTTCATTCAACCATTAGATGCTATTGATGCATCACAAATCTAGATTTCC
1 TTCCTAATCATATCCCCTTCATTCAACCACTAGATGGTACTGATGCATCACAAAGCTTGATTTCC
* *
3379089 TTAGGGCAAGGATATCCTGA-CCACACA-
66 TTAGGGCAAGG--GTGC-GACCCACACAT
* * * * *
3379116 TTCCTAATCATAT-CCCTATCTTTTAGCCACTATATGGTATTGATGCAT
1 TTCCTAATCATATCCCCT-TCATTCAACCACTAGATGGTACTGATGCAT
3379164 TACGTGACCA
Statistics
Matches: 577, Mismatches: 96, Indels: 25
0.83 0.14 0.04
Matches are distributed among these distances:
90 6 0.01
91 522 0.90
92 40 0.07
93 8 0.01
95 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (91 bp):
TTCCTAATCATATCCCCTTCATTCAACCACTAGATGGTACTGATGCATCACAAAGCTTGATTTCC
TTAGGGCAAGGGTGCGACCCACACAT
Found at i:3378879 original size:273 final size:272
Alignment explanation
Indices: 3378386--3379097 Score: 939
Period size: 273 Copynumber: 2.6 Consensus size: 272
3378376 CAACCCATAA
*
3378386 ATTCCC-AATCATATCCCTTTCATTCAACCACTAAATGGTACTAATGCATCACAAAACTTGATTT
1 ATTCCCTAATCATATCCCTTTCATTCAACCACTAAATGGTACTAATGCATCAC-AATCTTGATTT
* * * * *
3378450 CCTTAGGGTAAGGGTGCGACCTATATATT-TCCTAATCATATCCCCTTCATTCAACCACTAAATG
65 CCTTAGGGTAAGGGTGCAACCCACACATTCT-CTAATCATATCCCCTTCATTCAACCACTAGATG
* * * * *
3378514 GTACTGATGCATCAGAAAGCTTGATTTCCTTAAGGCAAGGGTGCGGCCCACACATTCCTTAATCA
129 GTATTGATGCATCACAAAGCTTGATTTCCTTAAGGCAAAGGTGCAGCCCACACATTCCCTAATCA
* * * * *
3378579 TATCCCCTTCATTCAAGCACTAGATGGTAATGATGCATCACAAAGCTTGATTTCCTAAAGGCAA-
194 CATCCCCTTCATTCAAACACTAGATGGTAATGACGCATCAAAAAGCTTAATTTCCTAAAGGCAAG
3378643 GG-ATGCGACTCACAC
259 GGTATG-GAC-CACAC
* * * **
3378658 ATTCTCTAATCATATCCCTTTTATTCAACCATTTGATGGTACTAATGCATCACAATGCTTGATTT
1 ATTCCCTAATCATATCCCTTTCATTCAACCACTAAATGGTACTAATGCATCACAAT-CTTGATTT
*
3378723 CCTTAGGGCAAGGGTGCAACCCACACATTCTCTAATCATATCCCC-TCTATTCAACCACTAGATG
65 CCTTAGGGTAAGGGTGCAACCCACACATTCTCTAATCATATCCCCTTC-ATTCAACCACTAGATG
* * *
3378787 GTATTAATGCATCACAAAGGTTGATTTCCTTACGGCAAAGGTGCAGCCCACACATTCCCTAATCA
129 GTATTGATGCATCACAAAGCTTGATTTCCTTAAGGCAAAGGTGCAGCCCACACATTCCCTAATCA
* * * * * *
3378852 CATCCCCTTTATTCAAACATTAGATGGTACTGACGCATCAAAAAGCTTAATTTTCTTAGGGCAAG
194 CATCCCCTTCATTCAAACACTAGATGGTAATGACGCATCAAAAAGCTTAATTTCCTAAAGGCAAG
*
3378917 GGTATGGTCCACAC
259 GGTATGGACCACAC
* *
3378931 ATTCCCTAATCATATCCCTTTCATTCAACCACTAAATGGTACTGATGCATCATAAATCTTGATTT
1 ATTCCCTAATCATATCCCTTTCATTCAACCACTAAATGGTACTAATGCATCA-CAATCTTGATTT
* * * * * *
3378996 CCTTGGGGTAAGGGTGCAGCCCACACGTTCCCTAATCATATCCCCTTCATTCAACCATTAGATGC
65 CCTTAGGGTAAGGGTGCAACCCACACATTCTCTAATCATATCCCCTTCATTCAACCACTAGATGG
* * *
3379061 TATTGATGCATCACAAATCTAGATTTCCTTAGGGCAA
130 TATTGATGCATCACAAAGCTTGATTTCCTTAAGGCAA
3379098 GGATATCCTG
Statistics
Matches: 381, Mismatches: 51, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
272 9 0.02
273 359 0.94
274 10 0.03
275 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (272 bp):
ATTCCCTAATCATATCCCTTTCATTCAACCACTAAATGGTACTAATGCATCACAATCTTGATTTC
CTTAGGGTAAGGGTGCAACCCACACATTCTCTAATCATATCCCCTTCATTCAACCACTAGATGGT
ATTGATGCATCACAAAGCTTGATTTCCTTAAGGCAAAGGTGCAGCCCACACATTCCCTAATCACA
TCCCCTTCATTCAAACACTAGATGGTAATGACGCATCAAAAAGCTTAATTTCCTAAAGGCAAGGG
TATGGACCACAC
Found at i:3379417 original size:48 final size:48
Alignment explanation
Indices: 3379340--3379705 Score: 366
Period size: 48 Copynumber: 7.6 Consensus size: 48
3379330 ATTTACCCTA
* * * *
3379340 ATTTGACTGCATTGATGTT-AGGACCTGGTCAAACTCTTTTCATCCCCC
1 ATTTGACTGTATTGGTGTTAAGG-CCTGGTCAAACTCTTTTCATCTCTC
* * * * *
3379388 CTTTGACTATATTGGTGTCAAGGCCTGGTCAAACTCTTATCTTCTCT-
1 ATTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCATCTCTC
* * *
3379435 AGTTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTATCTTTTCTC
1 A-TTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCATCTCTC
* * * *
3379484 ATTTGACTGTATTGGTGTTAGGGCCTTGTCAAACGT-TTTTCATCCCTT
1 ATTTGACTGTATTGGTGTTAAGGCCTGGTCAAAC-TCTTTTCATCTCTC
* * * * * * *
3379532 GTTAGATTGTATTGGTGTTAGGGCCTGGTTAAACTCTTATCTTCTCTC
1 ATTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCATCTCTC
* * * * *
3379580 ATTTGACTATATTGGGGTTATA-GCCTGGTCAAACTTTTTTCGTCCCTC
1 ATTTGACTGTATTGGTGTTA-AGGCCTGGTCAAACTCTTTTCATCTCTC
* *
3379628 GTTTGACTGTATTGGTGTTAGGGCCT-GTCAAACTCTTTTCATCTCTC
1 ATTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCATCTCTC
*
3379675 ATTTAACTGTATTGGTGTT-AGAGCCTGGTCA
1 ATTTGACTGTATTGGTGTTAAG-GCCTGGTCA
3379706 GTGTTAGGAC
Statistics
Matches: 259, Mismatches: 50, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
46 1 0.00
47 40 0.15
48 213 0.82
49 5 0.02
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.41
Consensus pattern (48 bp):
ATTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCATCTCTC
Found at i:3379509 original size:96 final size:95
Alignment explanation
Indices: 3379335--3379705 Score: 406
Period size: 96 Copynumber: 3.9 Consensus size: 95
3379325 GTTAAATTTA
* * * * * * *
3379335 CCCTAATTTGACTGCATTGATGTT-AGGACCTGGTCAAACTCTTTTCATCCCCCCTTTGACTATA
1 CCCTAGTTTGACTGTATTGGTGTTAAGG-CCTGGTCAAACTCTTATCATCTCTCATTTGACTATA
* * *
3379399 TTGGTGTCA-AGGCCTGGTCAAACTCTTATCTT
65 TTGGTGTTAGA-GCCTGGTCAAACT-TTTTCAT
* * * *
3379431 CTCTAGTTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTATCTTTTCTCATTTGACTGTAT
1 CCCTAGTTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTATCATCTCTCATTTGACTATAT
* *
3379496 TGGTGTTAGGGCCTTGTCAAACGTTTTTCAT
66 TGGTGTTAGAGCCTGGTCAAAC-TTTTTCAT
* * * * * *
3379527 CCCTTGTTAGATTGTATTGGTGTTAGGGCCTGGTTAAACTCTTATCTTCTCTCATTTGACTATAT
1 CCCTAGTTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTATCATCTCTCATTTGACTATAT
* * *
3379592 TGGGGTTATAGCCTGGTCAAACTTTTTTCGT
66 TGGTGTTAGAGCCTGGTCAAAC-TTTTTCAT
* * * * *
3379623 CCCTCGTTTGACTGTATTGGTGTTAGGGCCT-GTCAAACTCTTTTCATCTCTCATTTAACTGTAT
1 CCCTAGTTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTATCATCTCTCATTTGACTATAT
3379687 TGGTGTTAGAGCCTGGTCA
66 TGGTGTTAGAGCCTGGTCA
3379706 GTGTTAGGAC
Statistics
Matches: 232, Mismatches: 40, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
95 45 0.19
96 183 0.79
97 4 0.02
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (95 bp):
CCCTAGTTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTATCATCTCTCATTTGACTATAT
TGGTGTTAGAGCCTGGTCAAACTTTTTCAT
Found at i:3379606 original size:144 final size:143
Alignment explanation
Indices: 3379335--3379705 Score: 439
Period size: 144 Copynumber: 2.6 Consensus size: 143
3379325 GTTAAATTTA
* * * * * * *
3379335 CCCTAATTTGACTGCATTGATGTTAGGACCTGGTCAAACTCTTTTCATCCCCCCTTT-GACTATA
1 CCCTCATTTGACTGTATTGGTGTTAGGGCCTTGTCAAACTCTTTTCAT--CCCATTTAGACTGTA
* * * *
3379399 TTGGTGTCAAGGCCTGGTCAAACTCTTATCTTCTCTAGTTTGACTGTATTGGTGTTAAGGCCTGG
64 TTGGTGTTAGGGCCTGGTCAAACTCTTATCTTCTCTAGTTTGACTATATTGGGGTTAAGGCCTGG
*
3379464 TCAAACTCTTATCTT
129 TCAAACTCTTATCGT
** * *
3379479 TTCTCATTTGACTGTATTGGTGTTAGGGCCTTGTCAAACGT-TTTTCATCCCTTGTTAGATTGTA
1 CCCTCATTTGACTGTATTGGTGTTAGGGCCTTGTCAAAC-TCTTTTCATCCCAT-TTAGACTGTA
*
3379543 TTGGTGTTAGGGCCTGGTTAAACTCTTATCTTCTCTCA-TTTGACTATATTGGGGTTATA-GCCT
64 TTGGTGTTAGGGCCTGGTCAAACTCTTATCTTCTCT-AGTTTGACTATATTGGGGTTA-AGGCCT
* *
3379606 GGTCAAACTTTTTTCGT
127 GGTCAAACTCTTATCGT
*
3379623 CCCTCGTTTGACTGTATTGGTGTTAGGGCC-TGTCAAACTCTTTTCATCTCTCATTTA-ACTGTA
1 CCCTCATTTGACTGTATTGGTGTTAGGGCCTTGTCAAACTCTTTTCATC-C-CATTTAGACTGTA
*
3379686 TTGGTGTTAGAGCCTGGTCA
64 TTGGTGTTAGGGCCTGGTCA
3379706 GTGTTAGGAC
Statistics
Matches: 194, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
142 5 0.03
143 41 0.21
144 143 0.74
145 5 0.03
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (143 bp):
CCCTCATTTGACTGTATTGGTGTTAGGGCCTTGTCAAACTCTTTTCATCCCATTTAGACTGTATT
GGTGTTAGGGCCTGGTCAAACTCTTATCTTCTCTAGTTTGACTATATTGGGGTTAAGGCCTGGTC
AAACTCTTATCGT
Found at i:3379711 original size:17 final size:17
Alignment explanation
Indices: 3379689--3379722 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3379679 AACTGTATTG
3379689 GTGTTA-GAGCCTGGTCA
1 GTGTTAGGA-CCTGGTCA
3379706 GTGTTAGGACCTGGTCA
1 GTGTTAGGACCTGGTCA
3379723 AACTTTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (17 bp):
GTGTTAGGACCTGGTCA
Found at i:3379789 original size:47 final size:48
Alignment explanation
Indices: 3379738--3379974 Score: 212
Period size: 48 Copynumber: 5.0 Consensus size: 48
3379728 TTATCTTTTT
*
3379738 TCGTTTGACTATATTAGTGTTCGGGTCT-GTCAAACTCTTTTCATCCC
1 TCGTTTGACTATATTAGTGTTAGGGTCTAGTCAAACTCTTTTCATCCC
* * * * * *
3379785 TCGTTTGACTGTATTAGTTTTATGGCCTAGTCAAACTCTTTCCTTCCC
1 TCGTTTGACTATATTAGTGTTAGGGTCTAGTCAAACTCTTTTCATCCC
* * * * *
3379833 TCGTTTTAACTATATTAGTGTTAGAGTCTAGTCAAACTCTTATCTTCTC
1 TCG-TTTGACTATATTAGTGTTAGGGTCTAGTCAAACTCTTTTCATCCC
* * * * * ** * *
3379882 TCATTTGATTGTATTGGCGTTAGGACCTAGTCGAACTCTTTCCA-CCC
1 TCGTTTGACTATATTAGTGTTAGGGTCTAGTCAAACTCTTTTCATCCC
* * *
3379929 TTGTTTGACTATATTGGCT-TTA-GTTCTAGTCAAACTCTTTTCATCC
1 TCGTTTGACTATATTAG-TGTTAGGGTCTAGTCAAACTCTTTTCATCC
3379975 TCATTCGACG
Statistics
Matches: 147, Mismatches: 39, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
46 17 0.12
47 43 0.29
48 49 0.33
49 38 0.26
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (48 bp):
TCGTTTGACTATATTAGTGTTAGGGTCTAGTCAAACTCTTTTCATCCC
Found at i:3379889 original size:97 final size:94
Alignment explanation
Indices: 3379738--3379979 Score: 249
Period size: 97 Copynumber: 2.6 Consensus size: 94
3379728 TTATCTTTTT
* * * *
3379738 TCGTTTGACTATATTAGTGTTCGGGTCT-GTCAAACTCTTTTCATCCCTCGTTTGACTGTATTAG
1 TCGTTTAACTATATTAGTGTT-AGGTCTAGTCAAACTCTTATCATCCCTCATTTGACTGTATTAG
** *
3379802 TTTTATGG-CCTAGTCAAACTCTTTCCTTCCC
65 CGTTA-GGACCTAGTCAAACTCTTTCC-ACCC
* * * *
3379833 TCGTTTTAACTATATTAGTGTTAGAGTCTAGTCAAACTCTTATCTTCTCTCATTTGATTGTATTG
1 TCG-TTTAACTATATTAGTGTTAG-GTCTAGTCAAACTCTTATCATCCCTCATTTGACTGTATTA
*
3379898 GCGTTAGGACCTAGTCGAACTCTTTCCACCC
64 GCGTTAGGACCTAGTCAAACTCTTTCCACCC
* * * * *
3379929 TTGTTTGACTATATTGGCT-TTAGTTCTAGTCAAACTCTTTTCAT-CCTCATT
1 TCGTTTAACTATATTAG-TGTTAGGTCTAGTCAAACTCTTATCATCCCTCATT
3379980 CGACGTGATG
Statistics
Matches: 123, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
93 6 0.05
94 18 0.15
95 20 0.16
96 29 0.24
97 50 0.41
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (94 bp):
TCGTTTAACTATATTAGTGTTAGGTCTAGTCAAACTCTTATCATCCCTCATTTGACTGTATTAGC
GTTAGGACCTAGTCAAACTCTTTCCACCC
Found at i:3380196 original size:84 final size:84
Alignment explanation
Indices: 3380038--3380204 Score: 178
Period size: 84 Copynumber: 2.0 Consensus size: 84
3380028 CAAGTATCAC
* * * * * *
3380038 CTTCATCTCTTTATTTACTTGTCGGCTCAATCCCTGGTAAACCCCTTATCCCTTGGTGACTGGTC
1 CTTCATATCTTTATTTACTTGCCAGCTCAATCCCTGGTAAACCACTTATCCATTAGTGACTGGTC
*
3380103 AGCTCAGTC-TCTGGTCAAT
66 AACTCAGTCTTC-GGTCAAT
* * * *
3380122 CTTCATATCTTTGTTTACTTGCCAGCTTAGT-CCTCGGTAAACCACTTATCTATTAGTGACCT-G
1 CTTCATATCTTTATTTACTTGCCAGCTCAATCCCT-GGTAAACCACTTATCCATTAGTGA-CTGG
*
3380185 TCAACTTAGTCTTCGGTCAA
64 TCAACTCAGTCTTCGGTCAA
3380205 CCTCCATCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
83 3 0.04
84 61 0.90
85 4 0.06
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.38
Consensus pattern (84 bp):
CTTCATATCTTTATTTACTTGCCAGCTCAATCCCTGGTAAACCACTTATCCATTAGTGACTGGTC
AACTCAGTCTTCGGTCAAT
Found at i:3390839 original size:20 final size:20
Alignment explanation
Indices: 3390814--3390860 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
3390804 GGAGGTGTTG
**
3390814 AACATGCTGTAAATGCATGA
1 AACATGCTCAAAATGCATGA
3390834 AACATGGCTCAAAATGCATGA
1 AACAT-GCTCAAAATGCATGA
*
3390855 ATCATG
1 AACATG
3390861 GGCTATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (20 bp):
AACATGCTCAAAATGCATGA
Found at i:3391814 original size:13 final size:13
Alignment explanation
Indices: 3391796--3391820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3391786 CAAAGATCAG
3391796 TGTATCGATACAA
1 TGTATCGATACAA
3391809 TGTATCGATACA
1 TGTATCGATACA
3391821 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3391866 original size:19 final size:18
Alignment explanation
Indices: 3391842--3391939 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
3391832 TAGCTTATAT
3391842 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
3391861 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3391874 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
3391893 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
3391906 TGCATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
3391926 TGTATCGATACAAA
1 TGTATCGATACAAA
3391940 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.38
20 12 0.19
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:3391879 original size:13 final size:13
Alignment explanation
Indices: 3391861--3391917 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
3391851 ACAAAACTTA
3391861 TGTATCGATACAT
1 TGTATCGATACAT
3391874 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
3391892 ATGTATCGATACAT
1 -TGTATCGATACAT
*
3391906 TGCATCGATACA
1 TGTATCGATACA
3391918 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3391881 original size:32 final size:32
Alignment explanation
Indices: 3391840--3391937 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
3391830 AGTAGCTTAT
*
3391840 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
3391872 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
3391904 ATTGCATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
3391937 A
1 A
3391938 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 48 0.76
33 15 0.24
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:3392854 original size:67 final size:68
Alignment explanation
Indices: 3392731--3392857 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 68
3392721 ATTGGGTTTT
* * *
3392731 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTGAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTGAAAGATGAAGATG
3392796 AGA
66 AGA
* * * * * *
3392799 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCGAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTGAAAGATGA
3392858 GAAAAAAGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
67 46 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.23
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTGAAAGATGAAGATG
AGA
Found at i:3393090 original size:49 final size:48
Alignment explanation
Indices: 3392912--3393475 Score: 610
Period size: 49 Copynumber: 12.0 Consensus size: 48
3392902 CTTAAAGATG
* * *
3392912 GAAAAGGTGCCAATCTGCTAATTCAAGGCCAGCTATATTGGACTT---
1 GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * *
3392957 --AAAGGTGCCAATGTGCTGATTCAAGGCCATCTATATTGGACTT--A
1 GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * * * *
3393001 G---AGGTACCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAA
1 GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* *
3393046 GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATGGGACTTAAA
1 GA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * *
3393095 GATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATGGGACTTAAA
1 GA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * *
3393144 GATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
1 GA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A
* *
3393195 TGACAAAGGCGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAA
1 -GA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
3393245 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---
1 GA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * * * *
3393291 G--GAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
3393337 GAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---
1 GAA-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * * *
3393383 --AAAGGTGCCAATGTGCTCATTCAAGGCCAGCTACATTGGACTTAAA
1 GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* *
3393429 GAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GAA-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
3393476 GAAGGGTTGC
Statistics
Matches: 450, Mismatches: 46, Indels: 42
0.84 0.09 0.08
Matches are distributed among these distances:
43 153 0.34
44 1 0.00
45 2 0.00
46 2 0.00
48 1 0.00
49 245 0.54
50 3 0.01
51 3 0.01
52 40 0.09
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
Found at i:3393090 original size:92 final size:91
Alignment explanation
Indices: 3392916--3393477 Score: 668
Period size: 92 Copynumber: 6.0 Consensus size: 91
3392906 AAGATGGAAA
* * * *
3392916 AGGTGCCAATCTGCTAATTCAAGGCCAGCTATATTGGACTT-----AAAGGTGCCAATGTGCTGA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGCCAATATGCTGA
* *
3392976 TTCAAGGCCATCTATATTGGACTTAG
66 TTCAAGGCCAGCGATATTGGACTTAG
* * *
3393002 AGGTACCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGACAAAGGCGCCAATATGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAGGTGCCAATATGCTG
*
3393067 ATTCAAGGCCAGCGATATGGGACTTAAAGATG
65 ATTCAAGGCCAGCGATATTGGACTT----A-G
* * * * *
3393099 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATGGGACTTAAAGATGAAGGTGCCAATGTGCT
1 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAGGTGCCAATATGCT
*
3393164 GATTCAAGGCCAGCGACATTGGACTTAAAGATG
64 GATTCAAGGCCAGCGATATTGGACTT----A-G
* * *
3393197 ACAAAGGCGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGATAAAGGTGCCAATA
1 ----AGGTGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGA-AAAGGTGCCAATA
*
3393261 TGCTGATTCAAGGCCAGCGATATTGGACTTGG
60 TGCTGATTCAAGGCCAGCGATATTGGACTTAG
*
3393293 AGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA-AAGGTGCCAATATGCTG
*
3393358 ATTCAAGGCCAGCGATATTGGACTTAA
65 ATTCAAGGCCAGCGATATTGGACTTAG
*
3393385 AGGTGCCAATGTGCTCATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA-AAGGTGCCAATATGCTG
* *
3393450 ATTCAAGGCCAGCTATATTGGGCTTAG
65 ATTCAAGGCCAGCGATATTGGACTTAG
3393477 A
1 A
3393478 AGGGTTGCCA
Statistics
Matches: 418, Mismatches: 40, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
86 36 0.09
91 1 0.00
92 208 0.50
93 1 0.00
96 2 0.00
97 1 0.00
98 86 0.21
101 83 0.20
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (91 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGCCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTAG
Found at i:3393554 original size:32 final size:32
Alignment explanation
Indices: 3393468--3393672 Score: 281
Period size: 32 Copynumber: 6.4 Consensus size: 32
3393458 CCAGCTATAT
3393468 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* *
3393498 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
3393531 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
3393563 TGGGCTTTAGAG-GGGATTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTG
* * * *
3393595 TGGGCTTTGGAAAAAGGTTACCACCGACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
* *
3393628 TCGGCTTTAGAAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
3393660 TGGGCTTTAGAGA
1 TGGGCTTTAGAGA
3393673 ATGGTGAAAG
Statistics
Matches: 153, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.03
31 8 0.05
32 85 0.56
33 53 0.35
34 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:3393554 original size:65 final size:65
Alignment explanation
Indices: 3393468--3393672 Score: 294
Period size: 65 Copynumber: 3.2 Consensus size: 65
3393458 CCAGCTATAT
*
3393468 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTG
3393531 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG--GGGATTGCCACCAACTTGT
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG-TTGCCACCAACTTGT
3393594 G
65 G
* * * * * *
3393595 TGGGCTTTGGAAAAAGGTTACCACCGACTTGTGTCGGCTTTAGA-AAGGGTTGCCACCGACTTGT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGT
3393659 G
65 G
3393660 TGGGCTTTAGAGA
1 TGGGCTTTAGAGA
3393673 ATGGTGAAAG
Statistics
Matches: 127, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
63 7 0.06
64 32 0.25
65 85 0.67
66 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.28
Consensus pattern (65 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTG
Found at i:3393648 original size:97 final size:96
Alignment explanation
Indices: 3393468--3393671 Score: 311
Period size: 97 Copynumber: 2.1 Consensus size: 96
3393458 CCAGCTATAT
* * * * *
3393468 TGGGC-TTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGT
1 TGGGCTTTAGAGGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTACCACCAACTTGTGT
* *
3393532 GGGCTTTAGAGAGGGTTGCCACCGACTTGTG
66 CGGCTTTAGAAAGGGTTGCCACCGACTTGTG
* *
3393563 TGGGCTTTAGAGGGGATTGCCACCAACTTGTGTGGGCTTTGGAAAAAGGTTACCACCGACTTGTG
1 TGGGCTTTAGAGGGG-TTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTACCACCAACTTGTG
3393628 TCGGCTTTAGAAAGGGTTGCCACCGACTTGTG
65 TCGGCTTTAGAAAGGGTTGCCACCGACTTGTG
3393660 TGGGCTTTAGAG
1 TGGGCTTTAGAG
3393672 AATGGTGAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 5 0.05
96 8 0.08
97 85 0.87
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (96 bp):
TGGGCTTTAGAGGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTACCACCAACTTGTGT
CGGCTTTAGAAAGGGTTGCCACCGACTTGTG
Found at i:3393806 original size:96 final size:94
Alignment explanation
Indices: 3393679--3394077 Score: 234
Period size: 96 Copynumber: 4.2 Consensus size: 94
3393669 GAGAATGGTG
* * *
3393679 AAAG-ATGCCACGAAGTTGTGAACTTAAAAGGAACAAG-GTGCCACGGAGTCGTGGACTTTGGAA
1 AAAGAATGCCACGGAGTTGTGAACTTAAAAGGAAAAAGAGTG-CACGGAGTCGTGGAC-TT-AAA
*
3393742 AGAGATGCCACTAAATTGTGGACTTAAAAGGAA
63 AG-GATGCCACGAAATTGTGGACTTAAAAGGAA
* * * * * * *
3393775 CAAG-GTGCCACGGAGTTGTGGATTTAGAAGGAAAAAGAGTGCACGGAGTTGTGGGCTTAAAAGG
1 AAAGAATGCCACGGAGTTGTGAACTTAAAAGGAAAAAGAGTGCACGGAGTCGTGGACTTAAAAGG
* * *
3393839 GTGCCACGGAGTTGTGGACTTAAAAGGAA
66 ATGCCACGAAATTGTGGACTTAAAAGGAA
* ** * * * *
3393868 AAAGAATGCCACGGAGTTATGGGCTT-----TAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAA
1 AAAGAATGCCACGGAGTTGTGAACTTAAAAGGAAAAAGAGTG-CACGGAGTCGTGGAC-TT-AAA
* * * *
3393928 AGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAAGG--
63 AG-----GA-TGCCACGAAATTGTGGACTTAAAAGGAA
* * * *
3393964 ---G--TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGAATGCCACGGAGTTGTGAACTTAAAAGGAAAAAGAGTG-CACGGAGTCGTGGAC-TTAAAA
* * * *
3394024 AGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
64 GGA-TGCCACGAAATTGTGGAC-TTAAAAGGAA
*
3394057 AAAGAGTGCCACGGAGTTGTG
1 AAAGAATGCCACGGAGTTGTG
3394078 GGCTTTTAGA
Statistics
Matches: 246, Mismatches: 33, Indels: 46
0.76 0.10 0.14
Matches are distributed among these distances:
89 10 0.04
90 33 0.13
91 27 0.11
92 5 0.02
93 30 0.12
94 21 0.09
95 6 0.02
96 71 0.29
97 4 0.02
98 39 0.16
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (94 bp):
AAAGAATGCCACGGAGTTGTGAACTTAAAAGGAAAAAGAGTGCACGGAGTCGTGGACTTAAAAGG
ATGCCACGAAATTGTGGACTTAAAAGGAA
Found at i:3393908 original size:29 final size:29
Alignment explanation
Indices: 3393806--3394083 Score: 215
Period size: 29 Copynumber: 9.0 Consensus size: 29
3393796 ATTTAGAAGG
3393806 AAAAAGAGTG-CACGGAGTTGTGGGC-TT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * *
3393833 -AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTT-----T
* *
3393866 AAAAAGAATGCCACGGAGTTATGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
*
3393895 AAAAAGAGTGCCACGAAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
*
3393924 AAAAAGAAAAAGAGTGCCATGGAGTTGTGGGC-TT
1 ------AAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * *
3393958 -AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTT-----T
*
3393991 AAAAAGAATGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
*
3394020 AAAAAGAGTGCCACGAAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
3394049 AAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 ------AAAAAGAGTGCCACGGAGTTGTGGGCTTT
3394084 TAGAAAGTAT
Statistics
Matches: 200, Mismatches: 24, Indels: 46
0.74 0.09 0.17
Matches are distributed among these distances:
26 8 0.04
27 36 0.18
28 2 0.01
29 53 0.26
34 49 0.25
35 52 0.26
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (29 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:3393934 original size:35 final size:35
Alignment explanation
Indices: 3393833--3394083 Score: 249
Period size: 35 Copynumber: 7.8 Consensus size: 35
3393823 TTGTGGGCTT
* * *
3393833 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
* *
3393867 AAAAGAATGCCACGGAGTTATGGGCTTT------A
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
*
3393896 AAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
*
3393931 AAAAGAGTGCCATGGAGTTGTGGGC-TT-AAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
* *
3393963 ----G-GTGCCACGGAGTTGTGGAC-TTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
*
3393992 AAAAGAATGCCACGGAGTTGTGGGCTTT------A
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
*
3394021 AAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
3394056 AAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTT
3394084 TAGAAAGTAT
Statistics
Matches: 179, Mismatches: 17, Indels: 41
0.76 0.07 0.17
Matches are distributed among these distances:
27 19 0.11
28 5 0.03
29 53 0.30
33 6 0.03
34 40 0.22
35 56 0.31
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (35 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
Found at i:3393948 original size:64 final size:63
Alignment explanation
Indices: 3393779--3394083 Score: 424
Period size: 64 Copynumber: 4.9 Consensus size: 63
3393769 AAGGAACAAG
* * *
3393779 GTGCCACGGAGTTGT-GGATTTAGAAGGAAAAAGAGTG-CACGGAGTTGTGGGC-TTAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGA
* * *
3393839 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAATGCCACGGAGTTATGGGCTTTAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGA
* * * *
3393902 GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCATGGAGTTGTGGGC-TTAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGA
* *
3393964 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGA
* *
3394027 GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
3394084 TAGAAAGTAT
Statistics
Matches: 214, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
60 31 0.14
61 46 0.21
62 26 0.12
63 46 0.21
64 65 0.30
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.22
Consensus pattern (63 bp):
GTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGA
Found at i:3393973 original size:125 final size:125
Alignment explanation
Indices: 3393779--3394082 Score: 540
Period size: 125 Copynumber: 2.4 Consensus size: 125
3393769 AAGGAACAAG
* * * *
3393779 GTGCCACGGAGTTGT-GGATTTAGAAGGAAAAAGAGTG-CACGGAGTTGTGGGCTTAAAAGGGTG
1 GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTG
3393842 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTATGGGCTTTAAAAAGA
66 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTATGGGCTTTAAAAAGA
*
3393902 GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAAGGGTG
1 GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTG
*
3393967 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAAAGA
66 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTATGGGCTTTAAAAAGA
3394027 GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
3394083 TTAGAAAGTA
Statistics
Matches: 172, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
123 14 0.08
124 19 0.11
125 139 0.81
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.22
Consensus pattern (125 bp):
GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTG
CCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTATGGGCTTTAAAAAGA
Found at i:3395036 original size:13 final size:13
Alignment explanation
Indices: 3395020--3395057 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3395010 GGGTTTTTCC
3395020 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
*
3395033 TTTTGTTTTTTTT
1 TTTTCTTTTTTTT
*
3395046 GTTTCTTTTTTT
1 TTTTCTTTTTTT
3395058 GTGAAGATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:3400529 original size:176 final size:176
Alignment explanation
Indices: 3400235--3400588 Score: 690
Period size: 176 Copynumber: 2.0 Consensus size: 176
3400225 TGAAGACGCT
3400235 AAAGATGTAAAAGCATTTGTGCCTTGACATGTTCTAAATGAGATTCAAGAAAAGGTTTTGAGACC
1 AAAGATGTAAAAGCATTTGTGCCTTGACATGTTCTAAATGAGATTCAAGAAAAGGTTTTGAGACC
*
3400300 GATCGGAATTGCACGGAGACATCCGAGTACCTCGAGGTGAAACCCGAGAAGAATAAACCAAGTTT
66 GATCGGAATTGCACAGAGACATCCGAGTACCTCGAGGTGAAACCCGAGAAGAATAAACCAAGTTT
3400365 GACCAAGACCAAAACAGGGGACAGCTTCGCGCTATCCCGCTTTCCA
131 GACCAAGACCAAAACAGGGGACAGCTTCGCGCTATCCCGCTTTCCA
3400411 AAAGATGTAAAAGCATTTGTGCCTTGACATGTTCTAAATGAGATTCAAGAAAAGGTTTTGAGACC
1 AAAGATGTAAAAGCATTTGTGCCTTGACATGTTCTAAATGAGATTCAAGAAAAGGTTTTGAGACC
*
3400476 GATCGGAATTGCACAGAGACATCCGAGTACCTCGAGGTGAAACCCGAGAAGAATAAACTAAGTTT
66 GATCGGAATTGCACAGAGACATCCGAGTACCTCGAGGTGAAACCCGAGAAGAATAAACCAAGTTT
3400541 GACCAAGACCAAAACAGGGGACAGCTTCGCGCTATCCCGCTTTCCA
131 GACCAAGACCAAAACAGGGGACAGCTTCGCGCTATCCCGCTTTCCA
3400587 AA
1 AA
3400589 TTTATTCGGG
Statistics
Matches: 176, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 176 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (176 bp):
AAAGATGTAAAAGCATTTGTGCCTTGACATGTTCTAAATGAGATTCAAGAAAAGGTTTTGAGACC
GATCGGAATTGCACAGAGACATCCGAGTACCTCGAGGTGAAACCCGAGAAGAATAAACCAAGTTT
GACCAAGACCAAAACAGGGGACAGCTTCGCGCTATCCCGCTTTCCA
Found at i:3401619 original size:20 final size:20
Alignment explanation
Indices: 3401594--3401641 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
3401584 GGAGGTGTTG
**
3401594 AACATGCTGTAAATGCATGA
1 AACATGCTCAAAATGCATGA
3401614 AACATGGCTCAAAATGCATGA
1 AACAT-GCTCAAAATGCATGA
*
3401635 ATCATGC
1 AACATGC
3401642 GCTGTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (20 bp):
AACATGCTCAAAATGCATGA
Found at i:3402637 original size:52 final size:52
Alignment explanation
Indices: 3402492--3402616 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
3402482 ATATGAAAAG
* *
3402492 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAAT
3402544 TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAAT
3402596 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
3402617 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAAT
Found at i:3402703 original size:19 final size:18
Alignment explanation
Indices: 3402679--3402772 Score: 73
Period size: 19 Copynumber: 5.6 Consensus size: 18
3402669 TAGCTTATAT
3402679 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
3402698 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
3402711 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
3402730 TGTATTGATAC--A--T-
1 TGTATCGATACAAACTTA
3402743 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
3402763 TGTATCGATA
1 TGTATCGATA
3402773 AAAATCATTG
Statistics
Matches: 60, Mismatches: 2, Indels: 25
0.69 0.02 0.29
Matches are distributed among these distances:
13 21 0.35
14 2 0.03
16 4 0.07
18 1 0.02
19 22 0.37
20 10 0.17
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:3402716 original size:13 final size:13
Alignment explanation
Indices: 3402698--3402754 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
3402688 ACAAAACTTA
3402698 TGTATCGATACAT
1 TGTATCGATACAT
3402711 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
3402729 ATGTATTGATACAT
1 -TGTATCGATACAT
3402743 TGTATCGATACA
1 TGTATCGATACA
3402755 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3402718 original size:32 final size:32
Alignment explanation
Indices: 3402677--3402772 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
3402667 AGTAGCTTAT
*
3402677 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
3402709 ATTGTATCGATACAACACTTATGTATTGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
3402741 ATTGTATCGATACAACACTTTATGTATCGATA
1 ATTGTATCGATACAACAC-TTATGTATCGATA
3402773 AAAATCATTG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 48 0.80
33 12 0.20
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:3408410 original size:13 final size:13
Alignment explanation
Indices: 3408392--3408416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3408382 CAATTCATCA
3408392 TGTATCGATACAT
1 TGTATCGATACAT
3408405 TGTATCGATACA
1 TGTATCGATACA
3408417 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:3408427 original size:33 final size:32
Alignment explanation
Indices: 3408372--3408436 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
3408362 TTAAAAATAA
3408372 TGTATCGATACAATTCATCATGTATCGATACAT
1 TGTATCGATACAATTCA-CATGTATCGATACAT
*
3408405 TGTATCGATACAATGTGC-CATGTATTGATACA
1 TGTATCGATACAAT-T-CACATGTATCGATACA
3408437 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCGATACAT
Found at i:3409520 original size:33 final size:33
Alignment explanation
Indices: 3409478--3409547 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
3409468 ATCGGTTAAG
*
3409478 TGAACTAAAGTGCTCATCCATGCACTGTGAAAA
1 TGAACTAAAGTGCTCATCCATGCACTGCGAAAA
*
3409511 TGAACTAAAGTGCTCATCCATGCACTGCGAAAG
1 TGAACTAAAGTGCTCATCCATGCACTGCGAAAA
3409544 TGAA
1 TGAA
3409548 GTGATCAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (33 bp):
TGAACTAAAGTGCTCATCCATGCACTGCGAAAA
Found at i:3412045 original size:49 final size:50
Alignment explanation
Indices: 3411958--3412072 Score: 169
Period size: 49 Copynumber: 2.3 Consensus size: 50
3411948 TTTTGACAAT
* *
3411958 TTGTATCGATACATTCTAAGTTTTACCTAGATGTATCGATACATTGTTCA
1 TTGTATCGATACATTCTAAGGTTTACCCAGATGTATCGATACATTGTTCA
* * *
3412008 TTGTATCGATACATTCT-GGGTTTACCCAGATGTATCGATACATTTTTTA
1 TTGTATCGATACATTCTAAGGTTTACCCAGATGTATCGATACATTGTTCA
*
3412057 ATGTATCGATACATTC
1 TTGTATCGATACATTC
3412073 AGACATTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 42 0.71
50 17 0.29
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (50 bp):
TTGTATCGATACATTCTAAGGTTTACCCAGATGTATCGATACATTGTTCA
Found at i:3414520 original size:51 final size:51
Alignment explanation
Indices: 3414448--3414562 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 51
3414438 ATTTTCGAAG
* * *
3414448 GGATACTCTAACCCCGGTTTTATTTCTAAAACAATAATTTTCCACAATCGA
1 GGATACTCCAACCCCGATTTTATTTCTAAAACAACAATTTTCCACAATCGA
* * * *
3414499 GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGG
1 GGATACTCCAACCCCGATTTTATTTCTAAAACAACAATTTTCCACAATCGA
3414550 GGATACTCCAACC
1 GGATACTCCAACC
3414563 TTGTTCTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.31
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACAACAATTTTCCACAATCGA
Found at i:3414577 original size:28 final size:28
Alignment explanation
Indices: 3414545--3414619 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
3414535 ATTTTTCACA
* *
3414545 ATCGGGGATACTCCAACCTTGTTCTTTT
1 ATCGGGGATACTCCAACCCTGTTATTTT
*
3414573 ATCGGGGATACTCTAACCCTGTTATTTT
1 ATCGGGGATACTCCAACCCTGTTATTTT
***
3414601 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
3414620 CGACTTTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCTGTTATTTT
Found at i:3414616 original size:107 final size:107
Alignment explanation
Indices: 3414499--3414698 Score: 283
Period size: 107 Copynumber: 1.9 Consensus size: 107
3414489 CCACAATCGA
* * *
3414499 GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCT
1 GGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAACCT
* * *
3414564 TGTTCTTTTATCGGGGATACTCTAACCCTGTTATTTTCGAGG
66 TGTTATTTTAGCGGGGATACTCCAACCCTGTTATTTTCGAGG
* *** *
3414606 GGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCATAATCGGGGATACTCCAACCT
1 GGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAACCT
* *
3414671 TGTTATTTTCGCTGGGATACTCCAACCC
66 TGTTATTTTAGCGGGGATACTCCAACCC
3414699 CGGCCTTATT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
107 80 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (107 bp):
GGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAACCT
TGTTATTTTAGCGGGGATACTCCAACCCTGTTATTTTCGAGG
Found at i:3414660 original size:79 final size:79
Alignment explanation
Indices: 3414573--3414901 Score: 371
Period size: 79 Copynumber: 4.2 Consensus size: 79
3414563 TTGTTCTTTT
*
3414573 ATCGGGGATACTCTAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAAT
*
3414638 ATTGATTTCTC-ATA
66 ATCGATTT-TCAATA
* ** * * **
3414652 ATCGGGGATACTCCAACCTTGTTATTTTCGCTGGGATACTCCAACCCCGGCCTTATTTCTAAAGC
1 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAAT
*
3414717 ATCGATTTTCAACA
66 ATCGATTTTCAATA
* * *
3414731 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCC-ACCCC-ATTTTATTT-TCAAGA
1 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCT-AAAA
* *
3414793 TACCGATTTTCTATA
65 TATCGATTTTCAATA
** * * * * *
3414808 ATAAGGGATACTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCTAGAAC
1 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAAT
* *
3414873 ACCAATTTTTC-ATA
66 ATCGA-TTTTCAATA
*
3414887 ATGGGGGATACTCCA
1 ATCGGGGATACTCCA
3414902 GCCCCGTTGT
Statistics
Matches: 210, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
76 1 0.00
77 57 0.27
78 11 0.05
79 135 0.64
80 6 0.03
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAAT
ATCGATTTTCAATA
Found at i:3414864 original size:156 final size:158
Alignment explanation
Indices: 3414573--3414909 Score: 425
Period size: 156 Copynumber: 2.1 Consensus size: 158
3414563 TTGTTCTTTT
* *
3414573 ATCGGGGATACTCTAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAAT
** ** ** *
3414638 ATTGATTTCTCATAATCGGGGATACTCCAACCTTGTTATTTTCGCTGGGATACTCCAACCCCGGC
66 ACCGATTTCTCATAATAAGGGATACTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCCCGAC
* *
3414703 CTTATTTCTA-AAGCATCGA-TTTTCAACA
131 CTTATTTCTAGAA-CACCAATTTTTC-ACA
* *
3414731 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCC-ACCCC-ATTTTATTT-TCAAGA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCT-AAAA
*
3414793 TACCGATTT-TCTATAATAAGGGATACTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCTCG
65 TACCGATTTCTC-ATAATAAGGGATACTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCCCG
** *
3414857 ATTTTATTTCTAGAACACCAATTTTTCATA
129 ACCTTATTTCTAGAACACCAATTTTTCACA
* *
3414887 ATGGGGGATACTCCAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
3414910 GTTATCCCCA
Statistics
Matches: 156, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
155 3 0.02
156 101 0.65
157 12 0.08
158 40 0.26
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (158 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAAT
ACCGATTTCTCATAATAAGGGATACTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCCCGAC
CTTATTTCTAGAACACCAATTTTTCACA
Found at i:3427299 original size:12 final size:12
Alignment explanation
Indices: 3427282--3427344 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 12
3427272 CTTTTTTCTT
3427282 AAAAAAACAAC-
1 AAAAAAACAACA
3427293 AAAAAAACAA-A
1 AAAAAAACAACA
*
3427304 AACAAAA-AACA
1 AAAAAAACAACA
*
3427315 AAAAAAAAAACA
1 AAAAAAACAACA
* * *
3427327 AAACAAAGAAGA
1 AAAAAAACAACA
3427339 AAAAAA
1 AAAAAA
3427345 GAGAGAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
10 2 0.05
11 23 0.53
12 18 0.42
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAACAACA
Found at i:3427310 original size:13 final size:13
Alignment explanation
Indices: 3427294--3427333 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
3427284 AAAAACAACA
3427294 AAAAAACAAAAAC
1 AAAAAACAAAAAC
3427307 AAAAAACAAAAA-
1 AAAAAACAAAAAC
3427319 AAAAAAC-AAAAC
1 AAAAAACAAAAAC
3427331 AAA
1 AAA
3427334 GAAGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 4 0.15
12 10 0.38
13 12 0.46
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:3427310 original size:25 final size:25
Alignment explanation
Indices: 3427282--3427333 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
3427272 CTTTTTTCTT
*
3427282 AAAAAAAC-AACAAAAAAACAAAA-
1 AAAAAAACAAAAAAAAAAACAAAAC
3427305 ACAAAAAACAAAAAAAAAAACAAAAC
1 A-AAAAAACAAAAAAAAAAACAAAAC
3427331 AAA
1 AAA
3427334 GAAGAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 1 0.04
24 7 0.28
25 16 0.64
26 1 0.04
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAAAAACAAAAAAAAAAACAAAAC
Found at i:3427311 original size:7 final size:7
Alignment explanation
Indices: 3427285--3427329 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
3427275 TTTTCTTAAA
3427285 AAAACAAC
1 AAAA-AAC
3427293 AAAAAA-
1 AAAAAAC
3427299 ACAAAAAC
1 A-AAAAAC
3427307 AAAAAAC
1 AAAAAAC
3427314 -AAAAA-
1 AAAAAAC
3427319 AAAAAAC
1 AAAAAAC
3427326 AAAA
1 AAAA
3427330 CAAAGAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
6 11 0.33
7 17 0.52
8 5 0.15
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:3427342 original size:25 final size:25
Alignment explanation
Indices: 3427283--3427344 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
3427273 TTTTTTCTTA
*
3427283 AAAAAAC-AACAAAAAAACAAAAAC
1 AAAAAACAAAAAAAAAAACAAAAAC
3427307 AAAAAACAAAAAAAAAAAC-AAAAC
1 AAAAAACAAAAAAAAAAACAAAAAC
* *
3427331 AAAGAAGAAAAAAA
1 AAAAAACAAAAAAA
3427345 GAGAGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 24 0.71
25 10 0.29
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.00
Consensus pattern (25 bp):
AAAAAACAAAAAAAAAAACAAAAAC
Found at i:3427351 original size:12 final size:11
Alignment explanation
Indices: 3427307--3427361 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
3427297 AAACAAAAAC
*
3427307 AAAAAACAA-A
1 AAAAAAGAAGA
*
3427317 AAAAAA-AACA
1 AAAAAAGAAGA
3427327 AAACAAAGAAGA
1 AAA-AAAGAAGA
3427339 AAAAAAGAGAGA
1 AAAAAAGA-AGA
3427351 AAAAAA-AAGA
1 AAAAAAGAAGA
3427361 A
1 A
3427362 CCTGCTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
9 2 0.05
10 14 0.35
11 9 0.22
12 15 0.38
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAGA
Found at i:3427353 original size:24 final size:23
Alignment explanation
Indices: 3427293--3427361 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
3427283 AAAAAACAAC
*
3427293 AAAAAAACAAAAACAAAAAACAAAA
1 AAAAAAAC-AAAAC-AAAAAGAAAA
3427318 AAAAAAACAAAACAAAGAAGAAAA
1 AAAAAAACAAAACAAA-AAGAAAA
* * *
3427342 AAAGAGAGAAAA-AAAAAGAA
1 AAAAAAACAAAACAAAAAGAA
3427362 CCTGCTTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 5 0.13
23 6 0.15
24 20 0.51
25 8 0.21
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAAACAAAAAGAAAA
Done.