Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 667 of 770
Found at i:209739576 original size:27 final size:27
Alignment explanation
Indices: 209739532--209739644 Score: 124
Period size: 27 Copynumber: 4.2 Consensus size: 27
209739522 GAGGAAGAGT
*
209739532 TCTGGTGGC-CTTGGCACAAATATCTG-A
1 TCTGGTGGCTC-TGCCAC-AATATCTGTA
*
209739559 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
209739587 TCTGATGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * *
209739614 TCTAGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
209739640 TCTGG
1 TCTGG
209739645 CAACCATTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.05
27 54 0.72
28 17 0.23
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:209747250 original size:27 final size:26
Alignment explanation
Indices: 209747220--209747278 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
209747210 ATTTACTAAA
*
209747220 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCT-AG-ATGCAAAATTACCATC
*
209747247 ATACCCCTAGGTGCAAAATTACCATC
1 ATACCCCTAGATGCAAAATTACCATC
209747273 ATACCC
1 ATACCC
209747279 TTAGGGTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 19 0.66
27 8 0.28
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.25
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATC
Found at i:209747429 original size:27 final size:27
Alignment explanation
Indices: 209747391--209747494 Score: 129
Period size: 27 Copynumber: 3.8 Consensus size: 27
209747381 AAGCGTTCTG
*
209747391 GTGGCCCTGCCACAAATATCTG-ATCTA
1 GTGGCTCTGCCAC-AATATCTGTATCTA
* *
209747418 GTGGCTCTGCCACAAATATCTGTTTCTG
1 GTGGCTCTGCCAC-AATATCTGTATCTA
*
209747446 GTGGCTCTGCCACAATATCTGTATTTA
1 GTGGCTCTGCCACAATATCTGTATCTA
* *
209747473 GTGACTCTGTCACAATATCTGT
1 GTGGCTCTGCCACAATATCTGT
209747495 TCTGGCAGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.76
28 16 0.24
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTA
Found at i:209747493 original size:54 final size:54
Alignment explanation
Indices: 209747385--209747499 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 54
209747375 TGGAGGAAGC
*
209747385 GTTCTGGTGGCCCTGCCACAAATATCTGATCTAGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCCCTGCCACAAATATCTGATCTAGTGACTCTGCCACAAATATCT
* * *
209747439 GTTTCTGGTGGCTCTGCCAC-AATATCTGTATTTAGTGACTCTGTCAC-AATATCT
1 G-TTCTGGTGGCCCTGCCACAAATATCTG-ATCTAGTGACTCTGCCACAAATATCT
209747493 GTTCTGG
1 GTTCTGG
209747500 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
53 6 0.11
54 17 0.31
55 32 0.58
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCCCTGCCACAAATATCTGATCTAGTGACTCTGCCACAAATATCT
Found at i:209751228 original size:34 final size:34
Alignment explanation
Indices: 209751185--209751249 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
209751175 CAGAACTATG
209751185 ACTATCACGCCCTCTCTTAGGTGGTCAACCAATA
1 ACTATCACGCCCTCTCTTAGGTGGTCAACCAATA
209751219 ACTATCACGCCCTCTCTTAGGTGGTCAACCA
1 ACTATCACGCCCTCTCTTAGGTGGTCAACCA
209751250 GATGCACCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTATCACGCCCTCTCTTAGGTGGTCAACCAATA
Found at i:209755491 original size:250 final size:250
Alignment explanation
Indices: 209755037--209755491 Score: 556
Period size: 250 Copynumber: 1.8 Consensus size: 250
209755027 TTAAGGCTAA
* * * * *
209755037 CTGATTTACGATCACAACATAGATTTATTAATTTACGATTATAAAAAATCTTCTCTGAGTTAGCT
1 CTGATGTACGATCACAACATACATTCATTAATATACGATCATAAAAAATCTTCTCTGAGTTAGCT
* **
209755102 GATTTACTATCACTACTCCAAATAACTCACTGATTTACTGTCACAACTGATATTATTAAGGCCCA
66 GATTTACTATCACTACTCCAAATAACTCACTAATTTACAATCACAACTGATATTATTAAGGCCCA
*** * * * * *
209755167 CTAATTTTTGATCAAAGCCTAAGTTTATTAATTTACGATCATGAATAATATTCTCTGAGTTAGCT
131 CTAATTTACAATCAAAGCCTAAGTTCATTAATTCACAATCATGAACAATATTCTCTAAGTTAGCT
209755232 GACTTACTACTACTCTTCCAAACAACTCACCGATTTAAGAGTCACAACTGTCTCC
196 GACTTACTACTACTCTTCCAAACAACTCACCGATTTAAGAGTCACAACTGTCTCC
* * * * *
209755287 CTGATGTACGATCACAACCTACATTCATTGATATACGATCATGAACAATCTTCTCTGAGTTAGTT
1 CTGATGTACGATCACAACATACATTCATTAATATACGATCATAAAAAATCTTCTCTGAGTTAGCT
* * * * ***
209755352 TATTTACTATCGCTACTCCAAATAGCTCACTAATTTACAATCACAACTGATATTATTGAGGCTTG
66 GATTTACTATCACTACTCCAAATAACTCACTAATTTACAATCACAACTGATATTATTAAGGCCCA
* * ** *
209755417 TTGATTTACAATCACAA-CCTAAGTTCATTGGTTCACAATCATGAACAAT-TTCCTTTAAGTTA-
131 CTAATTTACAATCA-AAGCCTAAGTTCATTAATTCACAATCATGAACAATATT-CTCTAAGTTAG
*
209755479 CTTGATTTACTAC
194 C-TGACTTACTAC
209755492 AGCTACTCCT
Statistics
Matches: 168, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
249 3 0.02
250 163 0.97
251 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (250 bp):
CTGATGTACGATCACAACATACATTCATTAATATACGATCATAAAAAATCTTCTCTGAGTTAGCT
GATTTACTATCACTACTCCAAATAACTCACTAATTTACAATCACAACTGATATTATTAAGGCCCA
CTAATTTACAATCAAAGCCTAAGTTCATTAATTCACAATCATGAACAATATTCTCTAAGTTAGCT
GACTTACTACTACTCTTCCAAACAACTCACCGATTTAAGAGTCACAACTGTCTCC
Found at i:209756450 original size:16 final size:16
Alignment explanation
Indices: 209756429--209756460 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
209756419 TTTTTTATAT
*
209756429 CCTCCTCATTAATACC
1 CCTCCTCATCAATACC
209756445 CCTCCTCATCAATACC
1 CCTCCTCATCAATACC
209756461 TTCAGTGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.47, G:0.00, T:0.28
Consensus pattern (16 bp):
CCTCCTCATCAATACC
Found at i:209761667 original size:41 final size:40
Alignment explanation
Indices: 209761540--209761684 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
209761530 CTCGCACAAG
* * * *
209761540 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
209761580 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
209761620 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
209761661 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
209761685 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:209766792 original size:21 final size:21
Alignment explanation
Indices: 209766750--209766806 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
209766740 GAAAGAATAA
209766750 AGAAATGAAAAAAAAAAGAAG
1 AGAAATGAAAAAAAAAAGAAG
* *
209766771 AGAATATGAAGAAAAACA-AAG
1 AGAA-ATGAAAAAAAAAAGAAG
*
209766792 A-AAAGGAAAAAAAAA
1 AGAAATGAAAAAAAAA
209766807 GTGTTCATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.30
20 2 0.07
21 8 0.27
22 11 0.37
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (21 bp):
AGAAATGAAAAAAAAAAGAAG
Found at i:209766804 original size:19 final size:20
Alignment explanation
Indices: 209766759--209766805 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
209766749 AAGAAATGAA
* * *
209766759 AAAAAAAAGAAGAGAATATG
1 AAAAAAAACAAGAGAAAAGG
*
209766779 AAGAAAAACAA-AGAAAAGG
1 AAAAAAAACAAGAGAAAAGG
209766798 AAAAAAAA
1 AAAAAAAA
209766806 AGTGTTCATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (20 bp):
AAAAAAAACAAGAGAAAAGG
Found at i:209767999 original size:29 final size:29
Alignment explanation
Indices: 209767966--209768030 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
209767956 GTGACGAGAT
*
209767966 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
209767995 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
209768024 CGGCACT
1 TGGCACT
209768031 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:209775893 original size:29 final size:29
Alignment explanation
Indices: 209775860--209775924 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
209775850 GTGACGAGAT
*
209775860 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
209775889 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
209775918 CGGCACT
1 TGGCACT
209775925 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:209782566 original size:24 final size:24
Alignment explanation
Indices: 209782526--209782587 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
209782516 GATTATGTAG
209782526 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
209782550 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
209782575 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
209782588 AAAAAAAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:209783008 original size:29 final size:29
Alignment explanation
Indices: 209782975--209783037 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
209782965 GTGACGAGAT
*
209782975 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
209783004 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
209783033 CGGCA
1 TGGCA
209783038 TTGGGTGTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:209793393 original size:71 final size:71
Alignment explanation
Indices: 209793307--209793470 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
209793297 CGATTTGTCT
209793307 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
209793372 CTTTCA
66 CTTTCA
209793378 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
209793443 CTTTCA
66 CTTTCA
209793449 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
209793471 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:209793508 original size:71 final size:70
Alignment explanation
Indices: 209793307--209793504 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
209793297 CGATTTGTCT
* * * *
209793307 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
209793372 CTTTCA
65 CTTTCA
* * * *
209793378 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
209793443 CTTTCA
65 CTTTCA
* *
209793449 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
209793505 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:209802064 original size:30 final size:30
Alignment explanation
Indices: 209802028--209802187 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
209802018 GACAAGATTG
* * * * *
209802028 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
209802058 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
209802086 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
209802115 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
209802145 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
209802174 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
209802188 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:209802156 original size:59 final size:57
Alignment explanation
Indices: 209802028--209802187 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
209802018 GACAAGATTG
* * * * * *
209802028 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
209802086 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
209802145 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
209802188 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:209805404 original size:53 final size:53
Alignment explanation
Indices: 209805221--209805428 Score: 240
Period size: 55 Copynumber: 3.8 Consensus size: 53
209805211 ACTAGGGTTT
* *
209805221 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * * *
209805276 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGG-C
* * *
209805332 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
209805384 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
209805429 TCAAAAGGAT
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 6 0.05
53 43 0.34
54 8 0.06
55 67 0.52
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:209805427 original size:108 final size:110
Alignment explanation
Indices: 209805228--209805428 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
209805218 TTTAAGGATA
*
209805228 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
209805293 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
* * *
209805338 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
209805400 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
209805429 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:209807143 original size:27 final size:28
Alignment explanation
Indices: 209807087--209807156 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
209807077 AAATTTGTAC
209807087 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
209807115 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
209807142 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
209807157 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:209807167 original size:27 final size:27
Alignment explanation
Indices: 209807087--209807168 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
209807077 AAATTTGTAC
* *
209807087 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
209807115 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
209807142 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
209807169 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:209812919 original size:68 final size:66
Alignment explanation
Indices: 209812847--209813018 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
209812837 CATCATGTGT
* * * *
209812847 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
209812910 TGTAG
62 TGTAG
** * *
209812915 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
209812980 AG
65 AG
* * * *
209812982 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
209813019 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:209812952 original size:64 final size:64
Alignment explanation
Indices: 209812871--209813054 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
209812861 AGACATTATG
* * *
209812871 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
209812935 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
209813000 AA
63 AA
* * *
209813002 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
209813055 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:209819117 original size:29 final size:28
Alignment explanation
Indices: 209819083--209819185 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
209819073 TAATCGATCA
*
209819083 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
209819112 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
209819141 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
209819170 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
209819186 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:209827459 original size:40 final size:39
Alignment explanation
Indices: 209827294--209827477 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
209827284 AAATTGAATG
* * *
209827294 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
209827334 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
209827374 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
209827414 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
209827453 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
209827478 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:209827502 original size:80 final size:81
Alignment explanation
Indices: 209827334--209827522 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
209827324 GCTGGAAATT
* * * *
209827334 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
209827399 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
209827415 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
209827478 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
209827494 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
209827523 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:209835562 original size:40 final size:39
Alignment explanation
Indices: 209835397--209835580 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
209835387 GAAATTGATG
* * *
209835397 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
209835437 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
209835477 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
209835517 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
209835556 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
209835581 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:209835605 original size:80 final size:81
Alignment explanation
Indices: 209835437--209835625 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
209835427 GCTGGAAATT
* * * *
209835437 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
209835502 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
209835518 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
209835581 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
209835597 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
209835626 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:209838546 original size:6 final size:6
Alignment explanation
Indices: 209838529--209838557 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
209838519 TAAAATAACC
209838529 CAAAAT -AAAAT CAAAAT CAAAAT CAAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
209838558 TAAGTACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
CAAAAT
Found at i:209843990 original size:40 final size:41
Alignment explanation
Indices: 209843946--209844053 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 41
209843936 ATAATAGCTT
* * *
209843946 GCACAAATGCCTTCGGGACTTAACCCGATTTTGGTAAC-TC
1 GCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTTA
* * *
209843986 GCACAAATGCCTTCGGGAATTGACCCGAATTTAGTCACTTA
1 GCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTTA
* *
209844027 GCACAAAAGCCTTCGGGACTTAGCCCG
1 GCACAAATGCCTTCGGGACTTAACCCG
209844054 GATACCATTC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 33 0.58
41 24 0.42
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTTA
Found at i:209844764 original size:2 final size:2
Alignment explanation
Indices: 209844757--209844784 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
209844747 ATGTGCAAAC
209844757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
209844785 GCTAGAGCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:209850517 original size:40 final size:40
Alignment explanation
Indices: 209850472--209850601 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
209850462 CGGAATATAA
209850472 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
209850512 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
209850552 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
209850592 CCGGATATAA
1 CCGGATATAA
209850602 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209850622 original size:80 final size:80
Alignment explanation
Indices: 209850488--209850637 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
209850478 ATAACCACGT
* * *
209850488 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
209850553 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** ** *
209850568 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATTAACGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAACGCCTTCGGGGCTTAGC
209850632 CCGGAT
65 CCGGAT
209850638 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:209852977 original size:27 final size:27
Alignment explanation
Indices: 209852939--209852998 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
209852929 CTCAGTCCAA
*
209852939 ACAATGGTGTACGGCATTTACGACCGT
1 ACAAAGGTGTACGGCATTTACGACCGT
209852966 ACAAAGGTGTACGGCATTTACGACCGT
1 ACAAAGGTGTACGGCATTTACGACCGT
209852993 ACAAAG
1 ACAAAG
209852999 CCTCGTAGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (27 bp):
ACAAAGGTGTACGGCATTTACGACCGT
Found at i:209856934 original size:29 final size:29
Alignment explanation
Indices: 209856902--209857033 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
209856892 ATAGTGAATC
209856902 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
209856931 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
209856961 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
209856990 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
209857019 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
209857034 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:209857043 original size:59 final size:59
Alignment explanation
Indices: 209856902--209857033 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
209856892 ATAGTGAATC
209856902 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
209856961 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
209857019 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
209857034 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:209858355 original size:19 final size:18
Alignment explanation
Indices: 209858331--209858366 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
209858321 CCCCCTTTTT
*
209858331 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
209858350 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
209858367 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:209864622 original size:29 final size:29
Alignment explanation
Indices: 209864590--209864721 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
209864580 ATAGTGAATC
209864590 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
209864619 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
209864649 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
209864678 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
209864707 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
209864722 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:209864731 original size:59 final size:59
Alignment explanation
Indices: 209864590--209864721 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
209864580 ATAGTGAATC
209864590 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
209864649 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
209864707 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
209864722 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:209866043 original size:19 final size:18
Alignment explanation
Indices: 209866019--209866054 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
209866009 CCCCCTTTTT
*
209866019 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
209866038 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
209866055 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:209872036 original size:19 final size:18
Alignment explanation
Indices: 209872012--209872047 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
209872002 CCCCCTTTTT
*
209872012 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
209872031 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
209872048 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:209878308 original size:29 final size:29
Alignment explanation
Indices: 209878276--209878407 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
209878266 ATAGTGAATC
209878276 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
209878305 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
209878335 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
209878364 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
209878393 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
209878408 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:209878417 original size:59 final size:59
Alignment explanation
Indices: 209878276--209878407 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
209878266 ATAGTGAATC
209878276 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
209878335 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
209878393 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
209878408 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:209879729 original size:19 final size:18
Alignment explanation
Indices: 209879705--209879740 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
209879695 CCCCCTTTTT
*
209879705 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
209879724 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
209879741 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:209888724 original size:40 final size:39
Alignment explanation
Indices: 209888679--209888808 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
209888669 CGGAATATAA
209888679 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
209888719 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
209888759 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
209888799 CCGGATATAA
1 CCGGATATAA
209888809 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:209888823 original size:40 final size:40
Alignment explanation
Indices: 209888695--209888846 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
209888685 ATAACCATGT
* * *
209888695 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
209888735 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
209888775 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
209888815 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
209888847 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:209888829 original size:80 final size:80
Alignment explanation
Indices: 209888695--209888844 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
209888685 ATAACCATGT
*
209888695 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
209888759 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
209888775 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
209888838 CCCGGAT
64 CCCGGAT
209888845 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:209896711 original size:40 final size:39
Alignment explanation
Indices: 209896666--209896795 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
209896656 CGGAATATAA
209896666 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
209896706 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
209896746 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
209896786 CCGGATATAA
1 CCGGATATAA
209896796 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:209896810 original size:40 final size:40
Alignment explanation
Indices: 209896682--209896833 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
209896672 ATAACCATGT
* * *
209896682 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
209896722 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
209896762 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
209896802 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
209896834 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:209896816 original size:80 final size:80
Alignment explanation
Indices: 209896682--209896831 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
209896672 ATAACCATGT
*
209896682 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
209896746 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
209896762 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
209896825 CCCGGAT
64 CCCGGAT
209896832 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:209904703 original size:40 final size:40
Alignment explanation
Indices: 209904658--209904824 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
209904648 CGGAATATAA
209904658 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
209904698 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
209904738 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
209904778 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
209904817 CCGGATAT
1 CCGGATAT
209904825 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209904808 original size:80 final size:79
Alignment explanation
Indices: 209904674--209904822 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
209904664 ATAATCACGT
*
209904674 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
209904739 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
209904754 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
209904817 CCGGAT
64 CCGGAT
209904823 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:209912694 original size:40 final size:40
Alignment explanation
Indices: 209912649--209912816 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
209912639 CGGAATATAA
209912649 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
209912689 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
209912729 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
209912769 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
209912809 CCGGATAT
1 CCGGATAT
209912817 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209912799 original size:80 final size:80
Alignment explanation
Indices: 209912665--209912814 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
209912655 ATAATCACGT
*
209912665 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
209912729 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
209912745 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
209912808 CCCGGAT
64 CCCGGAT
209912815 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:209915261 original size:6 final size:6
Alignment explanation
Indices: 209915245--209915310 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
209915235 ATTCTGTTAC
* * *
209915245 CTGATA CTGATT TTGATT CTGATT CTG-TCAC CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
209915294 CTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGAT
209915311 AATATTTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
5 2 0.04
6 43 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:209915271 original size:31 final size:31
Alignment explanation
Indices: 209915233--209915301 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
209915223 NNNNNNNNTT
* *
209915233 TGATTCTGTTACCTGATACTGATTTTGATTC
1 TGATTCTGTCACCTGATACTGATTCTGATTC
*
209915264 TGATTCTGTCACCTGATTCTGATTCTGATTC
1 TGATTCTGTCACCTGATACTGATTCTGATTC
209915295 TGATTCT
1 TGATTCT
209915302 AGTTCTGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (31 bp):
TGATTCTGTCACCTGATACTGATTCTGATTC
Found at i:209917150 original size:27 final size:27
Alignment explanation
Indices: 209917129--209917663 Score: 598
Period size: 27 Copynumber: 19.7 Consensus size: 27
209917119 TTAGTTTACC
209917129 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * **
209917156 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
209917183 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
209917210 AAATTACCAAAATACCCCTGGTTGGTTTGTA
1 AAATTACCAAAATACCCC----TAGTTTGTA
* * * *
209917241 AAATTACTAAAA-ACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
209917267 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
209917294 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
209917321 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
209917348 AAATTATCAAAATACCCCTGGCTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
209917375 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* ** *
209917402 AAATTACTAAAATACCTTTTA-TTTATA
1 AAATTACCAAAATACC-CCTAGTTTGTA
*
209917429 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
209917456 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
209917483 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
209917510 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
209917537 AAATTACCAAAATACTCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
209917564 AAATTACCAAAATACCCCT-GACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
209917591 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * *
209917618 AAATTATCAAAATA-CTCTCGATTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* *
209917645 AAA-TATCGAAATACCCCTA
1 AAATTACCAAAATACCCCTA
209917664 TAGGGTAGAA
Statistics
Matches: 436, Mismatches: 62, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
26 32 0.07
27 379 0.87
28 1 0.00
30 4 0.01
31 20 0.05
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:209917683 original size:27 final size:27
Alignment explanation
Indices: 209917651--209917865 Score: 281
Period size: 27 Copynumber: 8.0 Consensus size: 27
209917641 TGTAAAATAT
* *
209917651 CGAAATACCCCTATAGGGTAGAATCAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
209917678 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
209917705 CGGAATTCCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
209917732 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
209917759 CAAAATACCCCTGTATGGTAGAATT-G
1 CGAAATACCCCTGTAGGGTAGAATTAC
209917785 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
209917812 CAAAATACCCCTGTAGGGTGGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
209917839 CGAGATA-CCCTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
209917865 C
1 C
209917866 ATTTTGCCCC
Statistics
Matches: 162, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
26 39 0.24
27 123 0.76
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:209917876 original size:80 final size:80
Alignment explanation
Indices: 209917653--209917866 Score: 250
Period size: 80 Copynumber: 2.7 Consensus size: 80
209917643 TAAAATATCG
* * * * ** *
209917653 AAATACCCCTATAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTATCGGAATTCCCCTG
1 AAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAAAATTA-CCAAATACCCCTG
**
209917718 TAGGGTAGAATTACTG
65 TAGGGTAGAATTACCA
* * * *
209917734 AAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTATGGTAGAATTGCGAAATACCCCTGT
1 AAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAAAATTACCAAATACCCCTGT
209917799 AGGGTAGAATTACCA
66 AGGGTAGAATTACCA
* * * * *
209917814 AAATACCCCTGTAGGGTGGAATTATCGAGATA-CCCTGTGGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAAAATTACCA
209917867 TTTTGCCCCT
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
79 16 0.14
80 53 0.46
81 46 0.40
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (80 bp):
AAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAAAATTACCAAATACCCCTGT
AGGGTAGAATTACCA
Found at i:209918343 original size:22 final size:22
Alignment explanation
Indices: 209918291--209918355 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
209918281 TTAAAGCCTT
* *
209918291 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
209918313 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
209918335 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
209918356 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:209918534 original size:25 final size:25
Alignment explanation
Indices: 209918506--209918560 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
209918496 TGCCACGTAT
*
209918506 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGC-TTGCCACAATA
**
209918531 TCTGTTCTGGTGGCTTGCCACAATA
1 TCTGTTCAAGTGGCTTGCCACAATA
209918556 TCTGT
1 TCTGT
209918561 ATCTCGTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (25 bp):
TCTGTTCAAGTGGCTTGCCACAATA
Found at i:209918775 original size:6 final size:6
Alignment explanation
Indices: 209918681--209918800 Score: 61
Period size: 6 Copynumber: 19.3 Consensus size: 6
209918671 TTGCATTCAC
* * *
209918681 ATTCTG ATTTTTG ATTCTG -TTACCTG ATAT-TG ATTTTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* * * *
209918731 -TTACCTG ATACTG ATTTTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
209918781 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
209918801 AATATTTCTT
Statistics
Matches: 91, Mismatches: 9, Indels: 28
0.71 0.07 0.22
Matches are distributed among these distances:
5 7 0.08
6 65 0.71
7 15 0.16
8 3 0.03
9 1 0.01
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:209918776 original size:37 final size:31
Alignment explanation
Indices: 209918689--209918791 Score: 161
Period size: 31 Copynumber: 3.3 Consensus size: 31
209918679 ACATTCTGAT
*
209918689 TTTTGATTCTGTTACCTGATATTGATTTTGA
1 TTTTGATTCTGTTACCTGATACTGATTTTGA
209918720 TTTTGATTCTGTTACCTGATACTGATTTTGA
1 TTTTGATTCTGTTACCTGATACTGATTTTGA
* * *
209918751 TTTTGATTCTGTCACCTGATTCTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTTTGA
*
209918782 TTCTGATTCT
1 TTTTGATTCT
209918792 AGTTCTGATA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.17, C:0.15, G:0.16, T:0.52
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACTGATTTTGA
Found at i:209919671 original size:22 final size:20
Alignment explanation
Indices: 209919613--209919664 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
209919603 ATCACCCCAA
*
209919613 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
209919633 TTTTAATTGTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
209919655 TTTTATTTTA
1 TTTTATTTTA
209919665 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:209919673 original size:4 final size:4
Alignment explanation
Indices: 209919666--209919690 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
209919656 TTTATTTTAC
209919666 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
209919691 TAGTATTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:209919726 original size:16 final size:16
Alignment explanation
Indices: 209919705--209919769 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
209919695 ATTCTTATAC
209919705 TTATATTTTTAATTTT
1 TTATATTTTTAATTTT
209919721 TTATA-TTTTAATTTTT
1 TTATATTTTTAA-TTTT
209919737 TTATATACTTTT-A-TTT
1 TTATAT--TTTTAATTTT
*
209919753 TTAT-TTTTTTATTTT
1 TTATATTTTTAATTTT
209919768 TT
1 TT
209919770 CTTTCGTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.09
14 1 0.02
15 12 0.28
16 21 0.49
18 1 0.02
19 4 0.09
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATATTTTTAATTTT
Found at i:209919741 original size:32 final size:31
Alignment explanation
Indices: 209919705--209919769 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 31
209919695 ATTCTTATAC
209919705 TTATAT-TTTTAATTTTTTATATTTTAATTTTT
1 TTATATATTTT-A-TTTTTATATTTTAATTTTT
* *
209919737 TTATATACTTTTATTTTTATTTTTTTATTTTT
1 TTATATA-TTTTATTTTTATATTTTAATTTTT
209919769 T
1 T
209919770 CTTTCGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 24 0.83
33 1 0.03
34 4 0.14
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (31 bp):
TTATATATTTTATTTTTATATTTTAATTTTT
Found at i:209919743 original size:18 final size:18
Alignment explanation
Indices: 209919705--209919754 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
209919695 ATTCTTATAC
209919705 TTATAT-TTTTAA--TTT
1 TTATATATTTTAATTTTT
209919720 TT-TATATTTTAATTTTT
1 TTATATATTTTAATTTTT
209919737 TTATATACTTTT-ATTTTT
1 TTATATA-TTTTAATTTTT
209919755 ATTTTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.10
15 8 0.27
17 5 0.17
18 10 0.33
19 4 0.13
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATATATTTTAATTTTT
Found at i:209919763 original size:8 final size:8
Alignment explanation
Indices: 209919705--209919769 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
209919695 ATTCTTATAC
*
209919705 TTATATTT
1 TTATTTTT
*
209919713 TTAATTTT
1 TTATTTTT
*
209919721 TTATATTT
1 TTATTTTT
*
209919729 TAATTTTT
1 TTATTTTT
*
209919737 TTATATACTT
1 TTAT-T-TTT
209919747 TTA--TTT
1 TTATTTTT
209919753 TTATTTTT
1 TTATTTTT
209919761 TTATTTTT
1 TTATTTTT
209919769 T
1 T
209919770 CTTTCGTATT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
6 5 0.11
8 33 0.75
9 1 0.02
10 5 0.11
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTT
Found at i:209919845 original size:3 final size:3
Alignment explanation
Indices: 209919839--209919920 Score: 61
Period size: 3 Copynumber: 28.7 Consensus size: 3
209919829 ATTATTGAGT
*
209919839 TTA TTA TTA TT- TTA TTA TTA TTA TT- TTA TTA TT- TTA TCT- TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
209919881 TTT TTAA TT- TTG TT- TTA GTT- TTA TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT
209919921 TTCTCTTCAA
Statistics
Matches: 67, Mismatches: 2, Indels: 20
0.75 0.02 0.22
Matches are distributed among these distances:
2 13 0.19
3 49 0.73
4 5 0.07
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:209919854 original size:11 final size:11
Alignment explanation
Indices: 209919828--209919920 Score: 65
Period size: 11 Copynumber: 8.6 Consensus size: 11
209919818 AGTTTATTGA
*
209919828 TATTATTGAGTT
1 TATTATT-ATTT
209919840 TATTATTATTT
1 TATTATTATTT
209919851 TATTATTATTAT
1 TATTATTATT-T
209919863 T-TTATTATTT
1 TATTATTATTT
*
209919873 TATCT-TT-CTT
1 TAT-TATTATTT
209919883 T-TTA--ATTT
1 TATTATTATTT
*
209919891 TGTT-TTAGTTT
1 TATTATTA-TTT
209919902 TATTATTATTAT
1 TATTATTATT-T
209919914 TATTATT
1 TATTATT
209919921 TTCTCTTCAA
Statistics
Matches: 66, Mismatches: 4, Indels: 22
0.72 0.04 0.24
Matches are distributed among these distances:
8 4 0.06
9 3 0.05
10 6 0.09
11 32 0.48
12 21 0.32
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (11 bp):
TATTATTATTT
Found at i:209919855 original size:8 final size:8
Alignment explanation
Indices: 209919842--209919875 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
209919832 ATTGAGTTTA
209919842 TTATTATT
1 TTATTATT
209919850 TTATTA--
1 TTATTATT
209919856 TTATTATT
1 TTATTATT
209919864 TTATTATT
1 TTATTATT
209919872 TTAT
1 TTAT
209919876 CTTTCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTATT
Found at i:209921056 original size:17 final size:18
Alignment explanation
Indices: 209921015--209921062 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
209921005 TTTGATTGAT
*
209921015 GTAATTATTCAATATTAG
1 GTAATTTTTCAATATTAG
* *
209921033 TTTATTTTTCAA-ATTAG
1 GTAATTTTTCAATATTAG
*
209921050 GTAATTTATCAAT
1 GTAATTTTTCAAT
209921063 TTGATCTCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.50
Consensus pattern (18 bp):
GTAATTTTTCAATATTAG
Found at i:209924436 original size:47 final size:47
Alignment explanation
Indices: 209924373--209924541 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
209924363 GCATTGGCAC
* *
209924373 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
209924420 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
209924467 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
209924514 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
209924542 CCAAGGCATG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:209924577 original size:54 final size:52
Alignment explanation
Indices: 209924514--209924779 Score: 286
Period size: 54 Copynumber: 5.0 Consensus size: 52
209924504 TGGCATTTGG
209924514 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGA-AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-A
*
209924568 TAAGATAAGGATATCATGCAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGA-AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-A
* * * *
209924622 TAAGGAAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACA
1 TAA-GAAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CA
* ** * *
209924676 -AGGCAAAGG-TCCCATG-ACAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
1 TAAG-AAAGGATATCATGTA-AGACCATGCCAAGGCATGGCATTGATAAGTTCA
* * * * * *
209924727 TAAGGCAAGGATACCACGTAAGACCATGGCAAGACATGGCAATGATAAGTTCA
1 TAA-GAAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCA
209924780 AAAAGGAAAA
Statistics
Matches: 182, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
51 3 0.02
52 38 0.21
53 40 0.22
54 98 0.54
55 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (52 bp):
TAAGAAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCA
Found at i:209924762 original size:105 final size:106
Alignment explanation
Indices: 209924588--209924777 Score: 292
Period size: 105 Copynumber: 1.8 Consensus size: 106
209924578 ATATCATGCA
* * *
209924588 AGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCATGTCA
1 AGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAACCACGTAAGACCATGGCA
* *
209924653 AGACATGGCATTGATGAGTTACAAGGCAAAGGTCCCATGAC
66 AGACATGGCAATGATAAGTTACAAGGCAAAGGTCCCATGAC
* * * *
209924694 AGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACCATGGCA
1 AGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAACCACGTAAGACCATGGCA
209924758 AGACATGGCAATGATAAGTT
66 AGACATGGCAATGATAAGTT
209924778 CAAAAAGGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
105 45 0.60
106 30 0.40
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (106 bp):
AGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAACCACGTAAGACCATGGCA
AGACATGGCAATGATAAGTTACAAGGCAAAGGTCCCATGAC
Found at i:209927656 original size:27 final size:26
Alignment explanation
Indices: 209927572--209927657 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
209927562 TAAGTTGTAG
209927572 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACC-AAATACCCTTGTAGGGTAA
* * *
209927599 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACC-AAATACCCTTGTAGGGTAA
*
209927626 AATTACCAAGATACCCTTGTGGGGTAA
1 AATTACCAA-ATACCCTTGTAGGGTAA
209927653 AATTA
1 AATTA
209927658 TCATTTTGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
26 2 0.04
27 48 0.96
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (26 bp):
AATTACCAAATACCCTTGTAGGGTAA
Found at i:209931371 original size:46 final size:46
Alignment explanation
Indices: 209931318--209931493 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
209931308 TATTTGGGCA
209931318 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
209931364 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
209931411 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
209931457 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
209931494 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:209931473 original size:93 final size:93
Alignment explanation
Indices: 209931314--209931486 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
209931304 GGGATATTTG
* *
209931314 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
209931379 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
209931407 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
209931472 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
209931487 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:209934095 original size:46 final size:46
Alignment explanation
Indices: 209934039--209934217 Score: 211
Period size: 46 Copynumber: 3.9 Consensus size: 46
209934029 GGATATGTGG
*
209934039 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
* * * *
209934085 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C-AA
*
209934132 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
* * * *
209934178 ACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
209934218 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 70 0.62
47 31 0.27
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
Found at i:209934197 original size:93 final size:93
Alignment explanation
Indices: 209934038--209934210 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
209934028 GGGATATGTG
* * **
209934038 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
209934103 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
209934131 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
209934196 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
209934211 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:209935613 original size:27 final size:26
Alignment explanation
Indices: 209935575--209935634 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
209935565 CGACATATAT
* *
209935575 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
209935601 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
209935628 ATATCTG
1 ATATCTG
209935635 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:209939283 original size:28 final size:29
Alignment explanation
Indices: 209939251--209939349 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
209939241 ATAATAAGCC
*
209939251 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
209939279 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
209939307 CGTACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
209939336 CGCACACTTAGTGC
1 CGCACACTTAGTGC
209939350 CAATTCATGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:209941462 original size:18 final size:18
Alignment explanation
Indices: 209941439--209941488 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
209941429 GAAAGAAAAA
*
209941439 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
209941457 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
209941475 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
209941489 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:209941465 original size:24 final size:24
Alignment explanation
Indices: 209941432--209941513 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
209941422 AAGAAATGAA
209941432 AGAAAAAGAAAAAGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
209941456 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
209941480 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
209941504 AGAAAAAGAA
1 AGAAAAAGAA
209941514 TGTGAACAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:209941527 original size:48 final size:48
Alignment explanation
Indices: 209941430--209941550 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 48
209941420 CAAAGAAATG
* * * **
209941430 AAAGAAAAAGAAAAAGAGATTGAGAGTGAAAAAGAAAATGAGATTGAA
1 AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGAAAGAA
* **
209941478 AAAGAGAATGAAAAAGAGTTTGAGAGAGAAAAAGAATGTGA-ACAAGAA
1 AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGA-AAGAA
* *
209941526 AAA-AGAGTGGAAAAAGAAATTGAGA
1 AAAGAGAAT-GAAAAAGAGATTGAGA
209941551 TAAAAGAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 5 0.08
48 55 0.92
ACGTcount: A:0.60, C:0.01, G:0.26, T:0.12
Consensus pattern (48 bp):
AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGAAAGAA
Found at i:209941542 original size:18 final size:19
Alignment explanation
Indices: 209941506--209941544 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
209941496 TTTGAGAGAG
*
209941506 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
209941525 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
209941543 AA
1 AA
209941545 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:209946213 original size:31 final size:31
Alignment explanation
Indices: 209946173--209946247 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
209946163 CGGGCTGAGG
*
209946173 ACACGGGCGTGTGTGACCACACGGCCTACCC
1 ACACAGGCGTGTGTGACCACACGGCCTACCC
*
209946204 GCACAGGCGTGTGTGACCACACGGCCTACCC
1 ACACAGGCGTGTGTGACCACACGGCCTACCC
*
209946235 ACACGGGCGTGTG
1 ACACAGGCGTGTG
209946248 ACCCTGTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.19, C:0.36, G:0.32, T:0.13
Consensus pattern (31 bp):
ACACAGGCGTGTGTGACCACACGGCCTACCC
Found at i:209947944 original size:12 final size:12
Alignment explanation
Indices: 209947927--209947952 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
209947917 AAAATAGGGC
209947927 TTTAGCGGCGTT
1 TTTAGCGGCGTT
209947939 TTTAGCGGCGTT
1 TTTAGCGGCGTT
209947951 TT
1 TT
209947953 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:209949087 original size:21 final size:21
Alignment explanation
Indices: 209949070--209949110 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
209949060 TGTGTTTGTG
209949070 GTCTAAGGTTTAGGGTTTAGA
1 GTCTAAGGTTTAGGGTTTAGA
*
209949091 GTCTCAGGTTTAGGGATTTA
1 GTCTAAGGTTTAGGG-TTTA
209949111 AATTTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (21 bp):
GTCTAAGGTTTAGGGTTTAGA
Found at i:209951987 original size:79 final size:81
Alignment explanation
Indices: 209951886--209952070 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
209951876 ACGACTCGCT
** * *
209951886 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
209951949 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
209951966 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
209952030 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
209952046 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
209952071 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:209952070 original size:40 final size:39
Alignment explanation
Indices: 209951879--209952070 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
209951869 GGATATAACG
* ** * *
209951879 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
209951919 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
209951959 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
209951998 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
209952038 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
209952071 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:209960049 original size:79 final size:82
Alignment explanation
Indices: 209959933--209960117 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
209959923 ACGACTCGCT
** * *
209959933 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
209959996 GGGTTTAGTAACTT-GCA
65 GGATATAGTAACTTAGCA
* **
209960013 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
*
209960076 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
209960093 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
209960118 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
GATATAGTAACTTAGCA
Found at i:209960117 original size:40 final size:39
Alignment explanation
Indices: 209959926--209960117 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
209959916 GGATATAACG
* ** * *
209959926 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
209959966 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
209960006 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
209960045 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
209960085 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
209960118 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:209961952 original size:6 final size:6
Alignment explanation
Indices: 209961941--209961972 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
209961931 TTTTATATTA
209961941 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TT
1 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TT
209961973 AATAAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (6 bp):
TTGGTT
Found at i:209964579 original size:8 final size:9
Alignment explanation
Indices: 209964545--209964585 Score: 75
Period size: 9 Copynumber: 4.7 Consensus size: 9
209964535 TCTCCAACCT
209964545 TATTTTAAA
1 TATTTTAAA
209964554 TATTTTAAA
1 TATTTTAAA
209964563 TATTTTAAA
1 TATTTTAAA
209964572 TA-TTTAAA
1 TATTTTAAA
209964580 TATTTT
1 TATTTT
209964586 GGTTATTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.26
9 23 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTTTAAA
Found at i:209964594 original size:17 final size:17
Alignment explanation
Indices: 209964545--209964585 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
209964535 TCTCCAACCT
209964545 TATTTTAAATATTTTAAA
1 TATTTTAAATA-TTTAAA
209964563 TATTTTAAATATTTAAA
1 TATTTTAAATATTTAAA
209964580 TATTTT
1 TATTTT
209964586 GGTTATTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTAAATATTTAAA
Found at i:209964817 original size:133 final size:133
Alignment explanation
Indices: 209964579--209964965 Score: 747
Period size: 133 Copynumber: 2.9 Consensus size: 133
209964569 AAATATTTAA
209964579 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
1 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
*
209964644 TGTGGACTTAGATTGATTTAAGAGTTTAATGATGTCTTGTTGCTCACGTTTTATATAATAAAATT
66 TGTGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
209964709 GTT
131 GTT
209964712 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
1 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
*
209964777 TGTGGACTTAGATTGATTTAAGAGTTTAATGCTATCTTGTTGCTCACGTTTTATATAATAAAATT
66 TGTGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
209964842 GTT
131 GTT
209964845 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
1 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
*
209964910 TGTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGTGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATAT
209964966 TGTTGAATTC
Statistics
Matches: 250, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 250 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (133 bp):
ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
TGTGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
GTT
Found at i:209967067 original size:21 final size:21
Alignment explanation
Indices: 209967038--209967077 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
209967028 GTTTTTATAT
*
209967038 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
209967059 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
209967078 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:209973602 original size:41 final size:42
Alignment explanation
Indices: 209973521--209973837 Score: 366
Period size: 41 Copynumber: 7.6 Consensus size: 42
209973511 CTGGGCAAAT
* *
209973521 TAGCGGCGTTTTTTA-AAAAACGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTACTGGTCTA
209973563 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGT-CTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTACTGGTCTA
*
209973604 TAGCGGCGTTTTTT-TAAAAAGCGCCGCTAAAAGTACAGGTCT-
1 TAGCGGCGTTTTTTAT-AAAAGCGCCGCT-AAAGTACTGGTCTA
*
209973646 TAGCGGCG-TTTTTATAAAAGCGCCGCTAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTACTGGTCTA
*
209973687 TAGCGGCGTTTTTT-TAAAAAGCGCCGCTAAAGTCCTGGTCT-
1 TAGCGGCGTTTTTTAT-AAAAGCGCCGCTAAAGTACTGGTCTA
* * * *
209973728 TTGCGGCGTTTTTTA-AAAAACGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAA-GTACTGGTCTA
* * * *
209973770 TGGCGGCG-TTTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAA-GTACTGGTCTA
* * *
209973811 TAGCGGCGCTTTTTAAAAAAACGCCGC
1 TAGCGGCGTTTTTTATAAAAGCGCCGC
209973838 GAACTTTTTG
Statistics
Matches: 247, Mismatches: 14, Indels: 27
0.86 0.05 0.09
Matches are distributed among these distances:
40 28 0.11
41 119 0.48
42 74 0.30
43 26 0.11
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (42 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTACTGGTCTA
Found at i:209973685 original size:83 final size:82
Alignment explanation
Indices: 209973521--209973837 Score: 399
Period size: 83 Copynumber: 3.8 Consensus size: 82
209973511 CTGGGCAAAT
* * *
209973521 TAGCGGCGTTTTTTAAAAAACGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCG
1 TAGCGGCGTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCT-TAGCGGCGCTTTTTATAAAAACG
209973586 CCGCTAAAGTCTGGTCTA
65 CCGCTAAAGTCTGGTCTA
*
209973604 TAGCGGCGTTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCTTAGCGGCG-TTTTTATAAAAGCG
1 TAGCGGCG-TTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCTTAGCGGCGCTTTTTATAAAAACG
*
209973668 CCGCTAAAGTACAGGTCTA
65 CCGCTAAAGT-CTGGTCTA
* * * *
209973687 TAGCGGCGTTTTTTTAAAAAGCGCCGCT-AAAGTCCTGGTCTTTGCGGCGTTTTTTA-AAAAACG
1 TAGCGGCG-TTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCTTAGCGGCGCTTTTTATAAAAACG
*
209973750 CCGCTAAAGGTCCTGGTCTT
65 CCGCTAAA-GT-CTGGTCTA
* * * * * *
209973770 TGGCGGCGTTTTTT-AAGAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTTAAAAAAACG
1 TAGCGGCGTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTC-TTAGCGGCGCTTTTTATAAAAACG
209973834 CCGC
65 CCGC
209973838 GAACTTTTTG
Statistics
Matches: 213, Mismatches: 14, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
81 11 0.05
82 73 0.34
83 86 0.40
84 43 0.20
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (82 bp):
TAGCGGCGTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCTTAGCGGCGCTTTTTATAAAAACGC
CGCTAAAGTCTGGTCTA
Found at i:209973690 original size:124 final size:123
Alignment explanation
Indices: 209973520--209973837 Score: 426
Period size: 124 Copynumber: 2.6 Consensus size: 123
209973510 ACTGGGCAAA
*
209973520 TTAGCGGCGTTTTTTAAAAAACGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGC
1 TTAGCGGCGTTTTTT-AAAAGCGCCGCT-AAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGC
*
209973585 GCCGCTAAAGT-CTGGTCTATAGCGGCGTTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTC-
64 GCCGCTAAAGTCCTGGTCT-TAGCGGCG-TTTTTTAAAAAACGCCGCTAAAAGTACAGGTCT
209973645 TTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGTACAGGTCTATAGCGGCGTTTTTT-TAAAAAGC
1 TTAGCGGCGTTTTT-TAAAAGCGCCGCTAAAGTACAGGTCTATAGCGGCGTTTTTTAT-AAAAGC
* * * *
209973709 GCCGCTAAAGTCCTGGTCTTTGCGGCGTTTTTTAAAAAACGCCGCTAAAGGTCCTGGTCT
64 GCCGCTAAAGTCCTGGTCTTAGCGGCGTTTTTTAAAAAACGCCGCTAAAAGTACAGGTCT
* * * * * * * *
209973769 TTGGCGGCGTTTTTTAAGAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTTAAAAAAACG
1 TTAGCGGCGTTTTTTAAAAGCGCCGCTAAA-GTACAGGTCTATAGCGGCGTTTTTTATAAAAGCG
209973834 CCGC
65 CCGC
209973838 GAACTTTTTG
Statistics
Matches: 173, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
123 44 0.25
124 96 0.55
125 32 0.18
126 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (123 bp):
TTAGCGGCGTTTTTTAAAAGCGCCGCTAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGC
CGCTAAAGTCCTGGTCTTAGCGGCGTTTTTTAAAAAACGCCGCTAAAAGTACAGGTCT
Found at i:209975855 original size:10 final size:10
Alignment explanation
Indices: 209975840--209975866 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
209975830 TACTCCTTCA
209975840 AGCTCAAATC
1 AGCTCAAATC
209975850 AGCTCAAATC
1 AGCTCAAATC
209975860 AGCTCAA
1 AGCTCAA
209975867 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:209978002 original size:6 final size:6
Alignment explanation
Indices: 209977991--209978024 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
209977981 TTTAACTCAC
*
209977991 TTTCTT TTTCTT TTTCAT TTTCTT TTTCTT TTTC
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC
209978025 AGCTGCACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:209978012 original size:18 final size:18
Alignment explanation
Indices: 209977991--209978025 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
209977981 TTTAACTCAC
209977991 TTTCTTTTTCTTTTTCAT
1 TTTCTTTTTCTTTTTCAT
209978009 TTTCTTTTTCTTTTTCA
1 TTTCTTTTTCTTTTTCA
209978026 GCTGCACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTCTTTTTCTTTTTCAT
Found at i:209978092 original size:18 final size:18
Alignment explanation
Indices: 209978052--209978100 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
209978042 GTTCATTTTT
*
209978052 CTTTCTTTCTTCACTCTCA
1 CTTTCTTT-TTCAATCTCA
* *
209978071 CTTTCTTTTTCAATTTCG
1 CTTTCTTTTTCAATCTCA
209978089 CTTTCCTTTTTC
1 CTTT-CTTTTTC
209978101 TCATTCTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.08, C:0.31, G:0.02, T:0.59
Consensus pattern (18 bp):
CTTTCTTTTTCAATCTCA
Found at i:209980898 original size:14 final size:14
Alignment explanation
Indices: 209980856--209980900 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
209980846 TTAAAGAAGC
209980856 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
209980870 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
209980883 AACTCATTTAATTA
1 AACTCATTAAATTA
209980897 AACT
1 AACT
209980901 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:209982002 original size:19 final size:20
Alignment explanation
Indices: 209981974--209982012 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
209981964 ATGCTGTTCT
*
209981974 ATGCATCAGCAGCT-CTTTA
1 ATGCACCAGCAGCTCCTTTA
209981993 ATGCACCAGCAGCTCCTTTA
1 ATGCACCAGCAGCTCCTTTA
209982013 TTGCTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (20 bp):
ATGCACCAGCAGCTCCTTTA
Found at i:209983079 original size:14 final size:14
Alignment explanation
Indices: 209983060--209983086 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
209983050 CAAGGGATAA
209983060 TTCAAGAGTCATTT
1 TTCAAGAGTCATTT
209983074 TTCAAGAGTCATT
1 TTCAAGAGTCATT
209983087 CATTCAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (14 bp):
TTCAAGAGTCATTT
Found at i:209984991 original size:24 final size:24
Alignment explanation
Indices: 209984957--209985023 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 24
209984947 CTCTCTCTCA
*
209984957 TTTTTTCCTTTCTTTTTTTCAAT-
1 TTTTTTTCTTTCTTTTTTTCAATC
*
209984980 TTTTTTGTCTTT-TTCTTTTTCACTC
1 TTTTTT-TCTTTCTT-TTTTTCAATC
209985005 TTTTTTTCTTCTACTTTTT
1 TTTTTTTCTT-T-CTTTTT
209985024 CTGCCAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 8 0.22
24 16 0.44
25 7 0.19
26 3 0.08
27 2 0.06
ACGTcount: A:0.06, C:0.18, G:0.01, T:0.75
Consensus pattern (24 bp):
TTTTTTTCTTTCTTTTTTTCAATC
Found at i:209986609 original size:29 final size:29
Alignment explanation
Indices: 209986576--209986635 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
209986566 AAGGATTCAA
* *
209986576 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATAGATATAAAGTTTATGT
*
209986605 AGATGGGTTTATAGATATAAAGTTTTTGT
1 AGATGGGTTTATAGATATAAAGTTTATGT
209986634 AG
1 AG
209986636 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATAGATATAAAGTTTATGT
Found at i:209987651 original size:14 final size:14
Alignment explanation
Indices: 209987609--209987653 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
209987599 TTAAAGAAGC
209987609 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
209987623 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
209987636 AACTCATTTAATTA
1 AACTCATTAAATTA
209987650 AACT
1 AACT
209987654 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:209990147 original size:18 final size:18
Alignment explanation
Indices: 209990126--209990175 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
209990116 AAACTCTTTT
209990126 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
209990144 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
209990162 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
209990176 TTTGTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:209990176 original size:24 final size:24
Alignment explanation
Indices: 209990101--209990178 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
209990091 CTTGTTCACA
*
209990101 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
* * * *
209990125 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTCTCTCTCTCAATCTCTTT
* *
209990149 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
209990173 TTCTTT
1 TTCTTT
209990179 GTCTTTCATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (24 bp):
TTCTTTCTCTCTCTCAATCTCTTT
Found at i:209991516 original size:29 final size:29
Alignment explanation
Indices: 209991471--209991530 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
209991461 AAGGATTCAA
* *
209991471 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATAGATATAAAGTTTATGT
*
209991500 AGATGGGTTTATAGATATAAAGTTTTTGT
1 AGATGGGTTTATAGATATAAAGTTTATGT
209991529 AG
1 AG
209991531 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATAGATATAAAGTTTATGT
Found at i:209992544 original size:14 final size:14
Alignment explanation
Indices: 209992502--209992546 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
209992492 TTAAAGAAGC
209992502 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
209992516 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
209992529 AACTCATTTAATTA
1 AACTCATTAAATTA
209992543 AACT
1 AACT
209992547 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:209995911 original size:9 final size:10
Alignment explanation
Indices: 209995890--209995914 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
209995880 TGCATTTTAG
209995890 AAAAATTCAA
1 AAAAATTCAA
209995900 AAAAATTCAA
1 AAAAATTCAA
209995910 AAAAA
1 AAAAA
209995915 GAAGTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATTCAA
Found at i:209996870 original size:13 final size:14
Alignment explanation
Indices: 209996852--209996890 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
209996842 ACCTCTTGTA
*
209996852 AAAAGAAAATGA-G
1 AAAAGAAAAAGATG
209996865 AAAAGAAAAAGATG
1 AAAAGAAAAAGATG
209996879 AAAAGCAAAAAG
1 AAAAG-AAAAAG
209996891 GAGATCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 6 0.26
15 6 0.26
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (14 bp):
AAAAGAAAAAGATG
Found at i:209998253 original size:48 final size:49
Alignment explanation
Indices: 209998136--209998265 Score: 208
Period size: 49 Copynumber: 2.7 Consensus size: 49
209998126 CTGGTACGCA
* * * *
209998136 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGATACACG
209998185 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGATA-ACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGATACACG
*
209998233 TAGTATCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
209998266 TCACAATAGA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
48 35 0.46
49 41 0.54
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGATACACG
Done.