Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 18 of 226
Found at i:6323035 original size:308 final size:303
Alignment explanation
Indices: 6322430--6323042 Score: 1091
Period size: 303 Copynumber: 2.0 Consensus size: 303
6322420 GTGACAATGG
6322430 TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCAAAAAAATATATTCGATTCGATTCGATT
1 TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCAAAAAAATATATTCGATTCGATTCGATT
*
6322495 CGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAACGATA
66 CGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAACGAGA
* * *
6322560 TTTGAAAACTCGATTAACTTGAAAATTTTCGATTCGATTCGATCGAATGCTCACCCTTATTCGTC
131 TTCGAAAACTCGATTAACTCGAAAATTTTCGATTCGATTCGATCGAATGCTCACCCCTATTCGTC
6322625 ATAAAGCGCGTCTCGTAGCAAAAGGCTGTTCTCAAGTTTCGAGTTGTGATTTTCAGGAAATGTTC
196 ATAAAGCGCGTCTCGTAGCAAAAGGCTGTTCTCAAGTTTCGAGTTGTGATTTTCAGGAAATGTTC
6322690 AGTCCAGTAGTGAAACCTGCCACCATCAGGGTCATTTTGTCGA
261 AGTCCAGTAGTGAAACCTGCCACCATCAGGGTCATTTTGTCGA
*
6322733 TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCGAAAAAATATATTCGATTCGATTCGATT
1 TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCAAAAAAATATATTCGATTCGATTCGATT
*
6322798 CGAATTCCATCTCACTCGACTTGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAACGAGA
66 CGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAACGAGA
* *
6322863 TTCGCAAACTCGATTAACTCGAAAATTTTTTATTCGATTCGATTCTATCGAATGCTCACCCCTAT
131 TTCGAAAACTCGATTAACTCGAAAA----TT-TTCGATTCGATTCGATCGAATGCTCACCCCTAT
* *
6322928 TCGTCATAAAGCGCGTCTCGTAGCAAAAGGTTGTTCTCATGTTTCGAGTTGTGATTTTCAGGAAA
191 TCGTCATAAAGCGCGTCTCGTAGCAAAAGGCTGTTCTCAAGTTTCGAGTTGTGATTTTCAGGAAA
6322993 TGTTCAGTCCAGTAGTGAAACCTGCCACCATCAGGGTCATTTTGTCGA
256 TGTTCAGTCCAGTAGTGAAACCTGCCACCATCAGGGTCATTTTGTCGA
6323041 TT
1 TT
6323043 GTTGTCTTTA
Statistics
Matches: 295, Mismatches: 10, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
303 149 0.51
307 2 0.01
308 144 0.49
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (303 bp):
TTACAAGGACCCAAAATTATTTTTTAAAATTTAACTCAAAAAAATATATTCGATTCGATTCGATT
CGAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATAAAGTTAGGATGATAAAACGAGA
TTCGAAAACTCGATTAACTCGAAAATTTTCGATTCGATTCGATCGAATGCTCACCCCTATTCGTC
ATAAAGCGCGTCTCGTAGCAAAAGGCTGTTCTCAAGTTTCGAGTTGTGATTTTCAGGAAATGTTC
AGTCCAGTAGTGAAACCTGCCACCATCAGGGTCATTTTGTCGA
Found at i:6331564 original size:11 final size:11
Alignment explanation
Indices: 6331548--6331574 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6331538 TTATTATAGT
6331548 AAATATTATTA
1 AAATATTATTA
6331559 AAATATTATTA
1 AAATATTATTA
6331570 AAATA
1 AAATA
6331575 AAATCATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAATATTATTA
Found at i:6332428 original size:27 final size:27
Alignment explanation
Indices: 6332398--6332474 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
6332388 GGCCAATCAC
6332398 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
* * *
6332425 ATTGGCGGCACCAATGGTGCCAATGTG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
6332452 ATTGGCGGCACCAATA-GTGCCAA
1 ATTGGCGGCACCAA-AGGTGCCAA
6332475 GGACTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:6332646 original size:12 final size:12
Alignment explanation
Indices: 6332631--6332658 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6332621 TTAATAACTC
6332631 TATTAATTTTTT
1 TATTAATTTTTT
6332643 TATTAATTTTTT
1 TATTAATTTTTT
6332655 TATT
1 TATT
6332659 CCCCTTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTAATTTTTT
Found at i:6332792 original size:37 final size:37
Alignment explanation
Indices: 6332751--6332842 Score: 157
Period size: 37 Copynumber: 2.5 Consensus size: 37
6332741 TAATTAAGTA
*
6332751 AACTCTATTTTAATTTAATAAACTATTCTCATTTAAT
1 AACTCTATTTTAATTTAATAAAATATTCTCATTTAAT
6332788 AACTCTATTTTAATTTAATAAAATATTCTCATTTAAT
1 AACTCTATTTTAATTTAATAAAATATTCTCATTTAAT
* *
6332825 AACTCTATGTTCATTTAA
1 AACTCTATTTTAATTTAA
6332843 AATATAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.38, C:0.13, G:0.01, T:0.48
Consensus pattern (37 bp):
AACTCTATTTTAATTTAATAAAATATTCTCATTTAAT
Found at i:6332803 original size:19 final size:19
Alignment explanation
Indices: 6332751--6332842 Score: 98
Period size: 18 Copynumber: 4.9 Consensus size: 19
6332741 TAATTAAGTA
*
6332751 AACTCTATTTTAATTTAAT
1 AACTCTATTTTCATTTAAT
* *
6332770 AA-ACTATTCTCATTTAAT
1 AACTCTATTTTCATTTAAT
*
6332788 AACTCTATTTTAATTTAAT
1 AACTCTATTTTCATTTAAT
** *
6332807 AA-AATATTCTCATTTAAT
1 AACTCTATTTTCATTTAAT
*
6332825 AACTCTATGTTCATTTAA
1 AACTCTATTTTCATTTAA
6332843 AATATAAAAT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
18 29 0.51
19 28 0.49
ACGTcount: A:0.38, C:0.13, G:0.01, T:0.48
Consensus pattern (19 bp):
AACTCTATTTTCATTTAAT
Found at i:6333090 original size:19 final size:19
Alignment explanation
Indices: 6333068--6333133 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
6333058 TTTAATTTTT
6333068 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
6333087 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
*
6333105 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
6333124 TTAAATTAAA
1 TTAAATTAAA
6333134 CTATTTTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:6333571 original size:28 final size:28
Alignment explanation
Indices: 6333539--6333594 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
6333529 TTGTTTTTTG
6333539 TTTTTTTGAT-ATATTTTGGTAAATAAAA
1 TTTTTTT-ATAATATTTTGGTAAATAAAA
6333567 TTTTTTTATAATATTTTGGTAAATAAAA
1 TTTTTTTATAATATTTTGGTAAATAAAA
6333595 AAAAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.54
Consensus pattern (28 bp):
TTTTTTTATAATATTTTGGTAAATAAAA
Found at i:6333603 original size:28 final size:28
Alignment explanation
Indices: 6333549--6333614 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
6333539 TTTTTTTGAT
*****
6333549 ATATTTTGGTAAATAAAATTTTTTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
6333577 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
6333605 ATATTTTGGT
1 ATATTTTGGT
6333615 TATTTTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:6333835 original size:59 final size:59
Alignment explanation
Indices: 6333760--6333877 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
6333750 TAGACTAGCC
6333760 TTTGGATGTGTTGGCTTCCAGTACAGTGAGGAATTTCTACTCCACTGGACAGCCTTAAG
1 TTTGGATGTGTTGGCTTCCAGTACAGTGAGGAATTTCTACTCCACTGGACAGCCTTAAG
6333819 TTTGGATGTGTTGGCTTCCAGTACAGTGAGGAATTTCTACTCCACTGGACAGCCTTAAG
1 TTTGGATGTGTTGGCTTCCAGTACAGTGAGGAATTTCTACTCCACTGGACAGCCTTAAG
6333878 CTGACTGGTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (59 bp):
TTTGGATGTGTTGGCTTCCAGTACAGTGAGGAATTTCTACTCCACTGGACAGCCTTAAG
Found at i:6334024 original size:12 final size:12
Alignment explanation
Indices: 6334009--6334033 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6333999 TTCTTCTCCT
6334009 CTTTCCCCTTCC
1 CTTTCCCCTTCC
6334021 CTTTCCCCTTCC
1 CTTTCCCCTTCC
6334033 C
1 C
6334034 CTTGGGTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (12 bp):
CTTTCCCCTTCC
Found at i:6336136 original size:27 final size:27
Alignment explanation
Indices: 6336106--6336157 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6336096 AAAATAAATA
*
6336106 TAATTGTAAT-ATTTTTTAATAATTTAT
1 TAATT-TAATAATTTTTAAATAATTTAT
*
6336133 TAATTTTATAATTTTTAAATAATTT
1 TAATTTAATAATTTTTAAATAATTT
6336158 TAAAAACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TAATTTAATAATTTTTAAATAATTTAT
Found at i:6336300 original size:21 final size:21
Alignment explanation
Indices: 6336272--6336340 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
6336262 CGCTATTTCT
6336272 AATCTCACTGCTAGAATATCC
1 AATCTCACTGCTAGAATATCC
* **
6336293 AATTTCA---CTAGCCTATCC
1 AATCTCACTGCTAGAATATCC
* *
6336311 AATCTCAGTGCTAGAGTATCC
1 AATCTCACTGCTAGAATATCC
6336332 AATCTCACT
1 AATCTCACT
6336341 AGCCTATCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 15 0.39
21 23 0.61
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.30
Consensus pattern (21 bp):
AATCTCACTGCTAGAATATCC
Found at i:6336303 original size:18 final size:18
Alignment explanation
Indices: 6336282--6336357 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
6336272 AATCTCACTG
*
6336282 CTAGAATATCCAATTTCA
1 CTAGAATATCCAATCTCA
**
6336300 CTAGCCTATCCAATCTCA
1 CTAGAATATCCAATCTCA
*
6336318 GTGCTAGAGTATCCAATCTCA
1 ---CTAGAATATCCAATCTCA
** *
6336339 CTAGCCTATCAAATCTCA
1 CTAGAATATCCAATCTCA
6336357 C
1 C
6336358 CGCTAGAGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
18 31 0.66
21 16 0.34
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.29
Consensus pattern (18 bp):
CTAGAATATCCAATCTCA
Found at i:6336331 original size:39 final size:39
Alignment explanation
Indices: 6336272--6336376 Score: 147
Period size: 39 Copynumber: 2.7 Consensus size: 39
6336262 CGCTATTTCT
* *
6336272 AATCTCACTGCTAGAATATCCAATTTCACTAGCCTATCC
1 AATCTCACTGCTAGAGTATCCAATTTCACTAGCCTATCA
* *
6336311 AATCTCAGTGCTAGAGTATCCAATCTCACTAGCCTATCA
1 AATCTCACTGCTAGAGTATCCAATTTCACTAGCCTATCA
* * *
6336350 AATCTCACCGCTAGAGTAACTAATTTC
1 AATCTCACTGCTAGAGTATCCAATTTC
6336377 TTTTAATCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.30
Consensus pattern (39 bp):
AATCTCACTGCTAGAGTATCCAATTTCACTAGCCTATCA
Found at i:6342101 original size:17 final size:17
Alignment explanation
Indices: 6342079--6342112 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6342069 TTGAAAATCA
6342079 GGCCAAA-TTGTCAAAGT
1 GGCCAAAGTTGT-AAAGT
6342096 GGCCAAAGTTGTAAAGT
1 GGCCAAAGTTGTAAAGT
6342113 TTTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (17 bp):
GGCCAAAGTTGTAAAGT
Found at i:6361157 original size:35 final size:35
Alignment explanation
Indices: 6361118--6361193 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
6361108 ACTTGCCTCT
6361118 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
6361153 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
6361188 TCCCAC
1 TCCCAC
6361194 CCCCATACCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.17, C:0.53, G:0.11, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:6361729 original size:11 final size:11
Alignment explanation
Indices: 6361715--6361748 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6361705 CCCTTCCCCT
6361715 TCCCTTCTCTC
1 TCCCTTCTCTC
6361726 TCCCTTCTCTC
1 TCCCTTCTCTC
6361737 TTCCC-TCTCTC
1 -TCCCTTCTCTC
6361748 T
1 T
6361749 TCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 17 0.77
12 4 0.18
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:6361731 original size:22 final size:22
Alignment explanation
Indices: 6361705--6361748 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6361695 GGCCGGATTC
6361705 CCCTTC-CCCTTCCCTTCTCTCT
1 CCCTTCTCCCTTCCC-TCTCTCT
*
6361727 CCCTTCTCTCTTCCCTCTCTCT
1 CCCTTCTCCCTTCCCTCTCTCT
6361749 TCTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (22 bp):
CCCTTCTCCCTTCCCTCTCTCT
Found at i:6361749 original size:11 final size:11
Alignment explanation
Indices: 6361713--6361750 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
6361703 TCCCCTTCCC
6361713 CTTCCCT-TCT
1 CTTCCCTCTCT
6361723 CTCTCCCTTCTCT
1 CT-TCCC-TCTCT
6361736 CTTCCCTCTCT
1 CTTCCCTCTCT
6361747 CTTC
1 CTTC
6361751 TTTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 5 0.20
13 5 0.20
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
CTTCCCTCTCT
Found at i:6362236 original size:3 final size:3
Alignment explanation
Indices: 6362228--6362255 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6362218 TGTATTTCAA
6362228 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6362256 GTACATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6364208 original size:10 final size:10
Alignment explanation
Indices: 6364178--6364215 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
6364168 TTGTATTTCA
*
6364178 TTTTTGTAAT
1 TTTTTATAAT
*
6364188 TTATT-TAAT
1 TTTTTATAAT
6364197 TTTTTATAAT
1 TTTTTATAAT
6364207 TTTTTATAA
1 TTTTTATAA
6364216 CAGTCGGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:6366255 original size:59 final size:59
Alignment explanation
Indices: 6366139--6366324 Score: 273
Period size: 59 Copynumber: 3.2 Consensus size: 59
6366129 ATTAATTTTT
* * * * * *
6366139 TTTTAAATATATTTGTACAAACTATTTTTATATTGTTTCATTGAATAAAATAGAAGTTG
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATATAAGTTG
* *
6366198 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAAAAAAACATAAGTTG
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATATAAGTTG
* * *
6366257 TTTTGAATATTTTTGTACAAATTATTTTTATATTGCTCTATTTAATAAAATATAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATATAAGTTG
6366316 TTTTGAATA
1 TTTTGAATA
6366325 AGGCAATACA
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 114 1.00
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATATAAGTTG
Found at i:6366335 original size:59 final size:58
Alignment explanation
Indices: 6366139--6366364 Score: 256
Period size: 59 Copynumber: 3.8 Consensus size: 58
6366129 ATTAATTTTT
* * * *
6366139 TTTTAAATATATTTGTACAAACTATTTTTATATTGTTTCATTGAATAAAATAGAAGTTG
1 TTTTGAATATTTTTGTACAAACTATTTTTATATTGTTT-ATTTAATAAAATATAAGTTG
* * *
6366198 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAAAAAAACATAAGTTG
1 TTTTGAATATTTTTGTACAAACTATTTTTATATTG-TTTATTTAATAAAATATAAGTTG
* * *
6366257 TTTTGAATATTTTTGTACAAATTATTTTTATATTGCTCTATTTAATAAAATATAAGTTC
1 TTTTGAATATTTTTGTACAAACTATTTTTATATTG-TTTATTTAATAAAATATAAGTTG
******
6366316 TTTTGAATAAGGCAATACAAACTATTTTT-TCATTGTTTCATTTAATAAA
1 TTTTGAATATTTTTGTACAAACTATTTTTAT-ATTGTTT-ATTTAATAAA
6366365 TTAGGAGTTA
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
58 3 0.02
59 138 0.96
60 3 0.02
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (58 bp):
TTTTGAATATTTTTGTACAAACTATTTTTATATTGTTTATTTAATAAAATATAAGTTG
Found at i:6369242 original size:28 final size:29
Alignment explanation
Indices: 6369211--6369298 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
6369201 AACAAAAAAA
6369211 CAAAATTCATCTTGTCAAA-ATATTTTTT
1 CAAAATTCATCTTGTCAAATATATTTTTT
** ** *
6369239 CAAAACACATCACGTCAAATTTATTTTTT
1 CAAAATTCATCTTGTCAAATATATTTTTT
* *
6369268 C-ATATCTCATCTTGTCAAATTTATTTCTTT
1 CAAAAT-TCATCTTGTCAAATATATTT-TTT
6369298 C
1 C
6369299 GGAACAATAC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
28 17 0.36
29 26 0.55
30 4 0.09
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (29 bp):
CAAAATTCATCTTGTCAAATATATTTTTT
Found at i:6369278 original size:29 final size:29
Alignment explanation
Indices: 6369231--6369298 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
6369221 CTTGTCAAAA
6369231 TATTTTTTCAAAACACATCACGTCAAATT
1 TATTTTTTCAAAACACATCACGTCAAATT
* * * **
6369260 TATTTTTTCATATCTCATCTTGTCAAATT
1 TATTTTTTCAAAACACATCACGTCAAATT
6369289 TATTTCTTTC
1 TATTT-TTTC
6369299 GGAACAATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.28, C:0.19, G:0.03, T:0.50
Consensus pattern (29 bp):
TATTTTTTCAAAACACATCACGTCAAATT
Found at i:6381352 original size:13 final size:13
Alignment explanation
Indices: 6381336--6381361 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6381326 TATACACTGT
6381336 TTTATAATTTATA
1 TTTATAATTTATA
6381349 TTTATAATTTATA
1 TTTATAATTTATA
6381362 ATACTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATAATTTATA
Found at i:6390858 original size:20 final size:21
Alignment explanation
Indices: 6390835--6390873 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6390825 TTTAATTTCC
6390835 TTTTAAATTTT-AAAATTTTA
1 TTTTAAATTTTCAAAATTTTA
**
6390855 TTTTATGTTTTCAAAATTT
1 TTTTAAATTTTCAAAATTT
6390874 CCTTAATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAAATTTTCAAAATTTTA
Found at i:6399260 original size:20 final size:20
Alignment explanation
Indices: 6399216--6399260 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
6399206 TAATGGTTCT
*
6399216 ATTTTAATATTTAAATTATA
1 ATTTTAATAATTAAATTATA
6399236 A-TTTATATAATTAAATTA-A
1 ATTTTA-ATAATTAAATTATA
6399255 ATTTTA
1 ATTTTA
6399261 CAAATGACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTAATAATTAAATTATA
Found at i:6407404 original size:3 final size:3
Alignment explanation
Indices: 6407365--6407392 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6407355 AGGCGTCGGC
6407365 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
6407393 GTGATGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6415563 original size:16 final size:16
Alignment explanation
Indices: 6415539--6415583 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6415529 TGGTTCACTG
6415539 TAATGGAATAAAGATA
1 TAATGGAATAAAGATA
* * * *
6415555 TAATTGAATAGAGCTG
1 TAATGGAATAAAGATA
6415571 TAATGGAATAAAG
1 TAATGGAATAAAG
6415584 TTGTTATTAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.27
Consensus pattern (16 bp):
TAATGGAATAAAGATA
Found at i:6415901 original size:58 final size:57
Alignment explanation
Indices: 6415805--6415917 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 57
6415795 TAACCATATT
* **
6415805 TTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTTATAAAATTC
1 TTAACATAATTATTATT-AATATAATTTAAAAAAATAATATATAATACTATAAAATTC
*
6415863 TTAATATAATTATTATT-ATATGAA-TTAAAAAATCATAATATATAATACTATAAAA
1 TTAACATAATTATTATTAATAT-AATTTAAAAAA--ATAATATATAATACTATAAAA
6415918 ATAATATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
56 11 0.23
57 2 0.04
58 35 0.73
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (57 bp):
TTAACATAATTATTATTAATATAATTTAAAAAAATAATATATAATACTATAAAATTC
Found at i:6417752 original size:50 final size:47
Alignment explanation
Indices: 6417674--6417796 Score: 119
Period size: 50 Copynumber: 2.6 Consensus size: 47
6417664 ACCTTAGCGC
* * *
6417674 GCTCTCTGATTATTAGCAAATCAATGCTC-TCTGATTATTAGCACATCAAT
1 GCTCTCTGATTATTAGCACATTAGTGCTCTTC-G---ATTAGCACATCAAT
* *
6417724 GCTCTCTGATTATTAGCACGTTAGTGCTCTTCGATTAGCACATCTAT
1 GCTCTCTGATTATTAGCACATTAGTGCTCTTCGATTAGCACATCAAT
* *
6417771 GCTATCTG--TA-TAGCACTTTAGTGCTC
1 GCTCTCTGATTATTAGCACATTAGTGCTC
6417797 CCTGTTCATT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
44 15 0.23
45 2 0.03
47 20 0.31
50 26 0.40
51 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (47 bp):
GCTCTCTGATTATTAGCACATTAGTGCTCTTCGATTAGCACATCAAT
Found at i:6417760 original size:25 final size:25
Alignment explanation
Indices: 6417674--6417742 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
6417664 ACCTTAGCGC
*
6417674 GCTCTCTGATTATTAGCAAATCAAT
1 GCTCTCTGATTATTAGCACATCAAT
6417699 GCTCTCTGATTATTAGCACATCAAT
1 GCTCTCTGATTATTAGCACATCAAT
6417724 GCTCTCTGATTATTAGCAC
1 GCTCTCTGATTATTAGCAC
6417743 GTTAGTGCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAAT
Found at i:6417808 original size:47 final size:46
Alignment explanation
Indices: 6417710--6417796 Score: 124
Period size: 47 Copynumber: 1.9 Consensus size: 46
6417700 CTCTCTGATT
*
6417710 ATTAGCACATCAATGCTCTCTGATTATTAGCACGTTAGTGCTCTTCG
1 ATTAGCACATCAATGCTATCTGA-TATTAGCACGTTAGTGCTCTTCG
* *
6417757 ATTAGCACATCTATGCTATCTG-TA-TAGCACTTTAGTGCTC
1 ATTAGCACATCAATGCTATCTGATATTAGCACGTTAGTGCTC
6417797 CCTGTTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 15 0.41
45 2 0.05
47 20 0.54
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (46 bp):
ATTAGCACATCAATGCTATCTGATATTAGCACGTTAGTGCTCTTCG
Found at i:6421906 original size:26 final size:26
Alignment explanation
Indices: 6421862--6421911 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6421852 GAGATACTTG
* *
6421862 ATAAAAAGAGAGGATTAGAGAAAAAA
1 ATAAAAAGAGAGAACTAGAGAAAAAA
* *
6421888 ATAAGAAGAGAGAACTAGATAAAA
1 ATAAAAAGAGAGAACTAGAGAAAA
6421912 CTCTAAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.64, C:0.02, G:0.22, T:0.12
Consensus pattern (26 bp):
ATAAAAAGAGAGAACTAGAGAAAAAA
Found at i:6422961 original size:42 final size:43
Alignment explanation
Indices: 6422886--6422972 Score: 131
Period size: 42 Copynumber: 2.0 Consensus size: 43
6422876 CATTATGAGC
* *
6422886 ATGGTGAATTCTAATATTATAAAATAAAATAATTATTTTAAAT
1 ATGGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAAT
* *
6422929 ATGGTAAAATCTAATA-TATAAAATCAATTAATTATTTTAAAT
1 ATGGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAAT
6422971 AT
1 AT
6422973 AATTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 26 0.65
43 14 0.35
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (43 bp):
ATGGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAAT
Found at i:6422976 original size:19 final size:18
Alignment explanation
Indices: 6422945--6422995 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
6422935 AAATCTAATA
6422945 TATAAA-ATCAATTAATTATT
1 TATAAATAT-AATT-ATT-TT
6422965 T-TAAATATAATTATTTT
1 TATAAATATAATTATTTT
6422982 TAGTAAATATAATT
1 TA-TAAATATAATT
6422996 TTTATATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.11
18 3 0.11
19 19 0.68
20 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TATAAATATAATTATTTT
Found at i:6423392 original size:19 final size:17
Alignment explanation
Indices: 6423364--6423398 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
6423354 GATATATATA
6423364 AAAAATAAATGATATTTT
1 AAAAATAAAT-ATATTTT
6423382 AAAAATAAAATATATTT
1 AAAAAT-AAATATATTT
6423399 AAAGTAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AAAAATAAATATATTTT
Found at i:6435920 original size:21 final size:21
Alignment explanation
Indices: 6435894--6435934 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6435884 CCAGGTGGTG
6435894 GTTGGCTACAAAACAGTTTTA
1 GTTGGCTACAAAACAGTTTTA
6435915 GTTGGCTACAAAACAGTTTT
1 GTTGGCTACAAAACAGTTTT
6435935 TCTTTTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (21 bp):
GTTGGCTACAAAACAGTTTTA
Found at i:6442396 original size:95 final size:95
Alignment explanation
Indices: 6442114--6442404 Score: 474
Period size: 95 Copynumber: 3.1 Consensus size: 95
6442104 ACTCTTGGGT
* *
6442114 GTTTTGTGGCAATAAACAAGATTGTGGGTCCCGATTTGGTGAGGTAAGCCAACATCTCTTTCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
**
6442179 CCTCTTTAACCGTCATTTATTCAATTCTAC
66 CCTCTTTAACCCCCATTTATTCAATTCTAC
*
6442209 GTTTCGTGGCAATAAACAAGATTGTGGGTCTCGATTTTGGTGAGGTAAGCCAACATCTCTTGCTC
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGA-TTTGGTGAGGTAAGCCAACATCTCTTGCTC
*
6442274 TCCTCTTTAACGCCCATTTATTCAATTCTAC
65 TCCTCTTTAACCCCCATTTATTCAATTCTAC
* *
6442305 GTTTTATGGCAATAAACAAGATAGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
* *
6442370 CCTCTTTAACCCCCATTTGTTTAATTCTAC
66 CCTCTTTAACCCCCATTTATTCAATTCTAC
*
6442400 TTTTT
1 GTTTT
6442405 TTGAATTTAG
Statistics
Matches: 182, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
95 94 0.52
96 88 0.48
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (95 bp):
GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
CCTCTTTAACCCCCATTTATTCAATTCTAC
Found at i:6454701 original size:3 final size:3
Alignment explanation
Indices: 6454693--6454726 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
6454683 ATGTCTCTAA
6454693 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6454727 GAGTTATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6464365 original size:3 final size:3
Alignment explanation
Indices: 6464357--6464382 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6464347 GAAAAACAAG
6464357 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6464383 AAGAGAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6470001 original size:14 final size:14
Alignment explanation
Indices: 6469982--6470010 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6469972 GGTCCAGCTC
6469982 AGATAAGAGAGTAA
1 AGATAAGAGAGTAA
6469996 AGATAAGAGAGTAA
1 AGATAAGAGAGTAA
6470010 A
1 A
6470011 AATGGTAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (14 bp):
AGATAAGAGAGTAA
Found at i:6471524 original size:16 final size:16
Alignment explanation
Indices: 6471503--6471533 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6471493 TATGGTAATG
6471503 TTTTTAATATAAATAC
1 TTTTTAATATAAATAC
6471519 TTTTTAATATAAATA
1 TTTTTAATATAAATA
6471534 ACATCAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTTAATATAAATAC
Found at i:6471713 original size:29 final size:29
Alignment explanation
Indices: 6471681--6471741 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
6471671 GTGTCAAGTC
6471681 TTTTATTTTTAATTAATGT-TTTGATTATT
1 TTTTATTTTTAATTAATGTGTTT-ATTATT
*
6471710 TTTTATTTTTAATTAATGTGTTTTTTATT
1 TTTTATTTTTAATTAATGTGTTTATTATT
6471739 TTT
1 TTT
6471742 AACTCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (29 bp):
TTTTATTTTTAATTAATGTGTTTATTATT
Found at i:6474854 original size:51 final size:51
Alignment explanation
Indices: 6474766--6474964 Score: 215
Period size: 51 Copynumber: 3.9 Consensus size: 51
6474756 CCCTTATGAT
* * * *
6474766 CAATGCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGAC
1 CAATACTATCTGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
* * *
6474817 CAATACCATCTGGTACATGTAGTAGCCTGCACATAGTACTACACATGTGAC
1 CAATACTATCTGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
* * * * * *
6474868 CAA-AGCTATCCGGTACACATAGTAGCTTGCACTTAGTACTACATATGTGAC
1 CAATA-CTATCTGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
**
6474919 C-ATAACTATCTTATAC-TCATAGTAGCCTACACATAGTACTACACAT
1 CAAT-ACTATCTGGTACAT-ATAGTAGCCTACACATAGTACTACACAT
6474965 AAGTTCTCAT
Statistics
Matches: 122, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
50 2 0.02
51 119 0.98
52 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (51 bp):
CAATACTATCTGGTACATATAGTAGCCTACACATAGTACTACACATGTGAC
Found at i:6474919 original size:102 final size:102
Alignment explanation
Indices: 6474770--6474964 Score: 286
Period size: 102 Copynumber: 1.9 Consensus size: 102
6474760 TATGATCAAT
*
6474770 GCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCA-ATACCATCTGGTACA
1 GCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCATA-ACCATCTGATAC-
* *
6474834 T-GTAGTAGCCTGCACATAGTACTACACATGTGACCAAA
64 TCATAGTAGCCTACACATAGTACTACACATGTGACCAAA
* * * * *
6474872 GCTATCCGGTACACATAGTAGCTTGCACTTAGTACTACATATGTGACCATAACTATCTTATACTC
1 GCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCATAACCATCTGATACTC
6474937 ATAGTAGCCTACACATAGTACTACACAT
66 ATAGTAGCCTACACATAGTACTACACAT
6474965 AAGTTCTCAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
101 1 0.01
102 81 0.98
103 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (102 bp):
GCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCATAACCATCTGATACTC
ATAGTAGCCTACACATAGTACTACACATGTGACCAAA
Found at i:6477482 original size:50 final size:50
Alignment explanation
Indices: 6477386--6477487 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
6477376 CATCATAACT
** * * **
6477386 TGTAAGTTACTGGTTAATCTGCATAGGGTAATGCTCATTATTTCTTACAA
1 TGTAAGTTACTGGTTAATCCACATAGGATAATACTCATTACATCTTACAA
* *
6477436 TGTAAGTTACTGGTTAGTCCACATAGGATAATACTCATTACATCTTATAA
1 TGTAAGTTACTGGTTAATCCACATAGGATAATACTCATTACATCTTACAA
6477486 TG
1 TG
6477488 CACCATAACT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (50 bp):
TGTAAGTTACTGGTTAATCCACATAGGATAATACTCATTACATCTTACAA
Found at i:6478445 original size:20 final size:20
Alignment explanation
Indices: 6478420--6478488 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
6478410 CAAATTAAAG
**
6478420 GTATCGATATTTATCAACTA
1 GTATCGATATTTATCAAAAA
* *
6478440 GTATCGGTAGTTTATGAAAAA
1 GTATCGATA-TTTATCAAAAA
* *
6478461 GTATCGATACTTAT-ATAAA
1 GTATCGATATTTATCAAAAA
6478480 -TATCGATAT
1 GTATCGATAT
6478489 CATTTTGGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 8 0.20
19 4 0.10
20 12 0.30
21 16 0.40
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (20 bp):
GTATCGATATTTATCAAAAA
Found at i:6486084 original size:41 final size:41
Alignment explanation
Indices: 6486032--6486136 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
6486022 GGCTCTATGT
** *
6486032 GCCTAGCAGGCTTGATGCCGGTGAAATATTTCAGATTTTAT
1 GCCTAGCAGGCTTGATGCCGGTGAAATAAATCAGATTTTAA
* * * * *
6486073 GTCTAGCAGGCTTCATGCCGGTGTATTAAATCAGGTTTTAA
1 GCCTAGCAGGCTTGATGCCGGTGAAATAAATCAGATTTTAA
6486114 GCCTAGCAGGCTTTG-TGCCGGTG
1 GCCTAGCAGGC-TTGATGCCGGTG
6486137 TATCATTTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 51 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (41 bp):
GCCTAGCAGGCTTGATGCCGGTGAAATAAATCAGATTTTAA
Found at i:6491774 original size:61 final size:59
Alignment explanation
Indices: 6491661--6491786 Score: 164
Period size: 61 Copynumber: 2.1 Consensus size: 59
6491651 TTAATATAAA
* * * *
6491661 AATAATTATATTAAAAATGTTATTAAATTATATATTATTTTTATTTAATTATATTTAAT
1 AATAATTATATTAAAAATATGATTAAATTATATATTATCTTTATTAAATTATATTTAAT
* *
6491720 AATAATTATA-TAAAAATATGATTAAACTTTTTATTCTTATCTTTATTAAATTATATTTAAT
1 AATAATTATATTAAAAATATGATTAAA--TTATA-TATTATCTTTATTAAATTATATTTAAT
6491781 AATAAT
1 AATAAT
6491787 CCTATTAAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
58 14 0.24
59 10 0.17
60 4 0.07
61 30 0.52
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (59 bp):
AATAATTATATTAAAAATATGATTAAATTATATATTATCTTTATTAAATTATATTTAAT
Found at i:6499987 original size:14 final size:14
Alignment explanation
Indices: 6499968--6500000 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6499958 ATTATGTCAA
6499968 ATTAAAATATAAAT
1 ATTAAAATATAAAT
*
6499982 ATTAAACTATAAAT
1 ATTAAAATATAAAT
6499996 -TTAAA
1 ATTAAA
6500001 CATAGTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAAAATATAAAT
Found at i:6507318 original size:4 final size:4
Alignment explanation
Indices: 6507309--6507333 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6507299 AATCAAATAT
6507309 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
6507334 TCCATTCTCT
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:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:6513846 original size:98 final size:98
Alignment explanation
Indices: 6513712--6513908 Score: 313
Period size: 98 Copynumber: 2.0 Consensus size: 98
6513702 GTGCAATAAA
* * *
6513712 ACTTTAAAAAAACATTCACTTATCAAATATTTAAGAAATCGCACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAAAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
*
6513777 CCTCTAAAATCCCAAACTTAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
* * *
6513810 ACTTTAAAAGAACATCCATTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAAAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
* *
6513875 CCTCTAAAATTCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
6513908 A
1 A
6513909 TTATTTTAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (98 bp):
ACTTTAAAAAAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:6517548 original size:30 final size:30
Alignment explanation
Indices: 6517514--6517572 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6517504 TTTAACAAGT
*
6517514 AAATG-CTTCTAAAATAATAATAAAATTAAC
1 AAATGTCTT-TAAAATAATAACAAAATTAAC
6517544 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGTCTTTAAAATAATAACAAAATTAA
6517573 TAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATGTCTTTAAAATAATAACAAAATTAAC
Found at i:6518069 original size:12 final size:12
Alignment explanation
Indices: 6518054--6518107 Score: 62
Period size: 11 Copynumber: 4.8 Consensus size: 12
6518044 AACTAATTCT
6518054 CTCTCAAATTTC
1 CTCTCAAATTTC
*
6518066 CTCTC-AATTTG
1 CTCTCAAATTTC
6518077 CTCTCAAA-TTC
1 CTCTCAAATTTC
6518088 CT-TCTAAATTT-
1 CTCTC-AAATTTC
6518099 CTCTCAAAT
1 CTCTCAAAT
6518108 CCATATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 2 0.06
11 23 0.64
12 11 0.31
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:6518074 original size:23 final size:23
Alignment explanation
Indices: 6518048--6518107 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
6518038 TTCACAAACT
*
6518048 AATTCTCTCTCAAATTTCC-TCTC
1 AATT-TCTCTCAAATTTCCTTCTA
6518071 AATTTGCTCTCAAA-TTCCTTCTA
1 AATTT-CTCTCAAATTTCCTTCTA
6518094 AATTTCTCTCAAAT
1 AATTTCTCTCAAAT
6518108 CCATATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 13 0.39
23 20 0.61
ACGTcount: A:0.27, C:0.28, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTTCTCTCAAATTTCCTTCTA
Found at i:6518129 original size:51 final size:51
Alignment explanation
Indices: 6518067--6518166 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
6518057 TCAAATTTCC
*
6518067 TCTCAATTTGCTCTCAAATTCCT-TCTAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAAATTCCTCT-TAAATTTCTCTCAAATCCATATTTAA
* * * *
6518118 TCTCAAATTGCTCTCAATTTGCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTT
6518167 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:6532971 original size:9 final size:9
Alignment explanation
Indices: 6532957--6533007 Score: 75
Period size: 9 Copynumber: 5.7 Consensus size: 9
6532947 TTTGGTTAAA
6532957 AATTAACCG
1 AATTAACCG
6532966 AATTAACCG
1 AATTAACCG
* *
6532975 AATTATCCA
1 AATTAACCG
6532984 AATTAACCG
1 AATTAACCG
*
6532993 AATTACCCG
1 AATTAACCG
6533002 AATTAA
1 AATTAA
6533008 ATCACTACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:6533148 original size:18 final size:18
Alignment explanation
Indices: 6533108--6533151 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6533098 AATTTTTATG
**
6533108 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
6533126 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
6533144 CTTGGGTT
1 ATTGGGTT
6533152 TGAATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:6535353 original size:27 final size:26
Alignment explanation
Indices: 6535296--6535353 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
6535286 ATTATGTTAT
6535296 TATATAAGAATTTTTTTATATAATAA
1 TATATAAGAATTTTTTTATATAATAA
*
6535322 TATATAA-ACTTTTTATTATGATAA-ATA
1 TATATAAGAATTTTT-TTAT-ATAATA-A
6535349 TATAT
1 TATAT
6535354 TTTAATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.21
26 12 0.43
27 10 0.36
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (26 bp):
TATATAAGAATTTTTTTATATAATAA
Found at i:6535640 original size:21 final size:20
Alignment explanation
Indices: 6535616--6535654 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6535606 TGTTGTTTAT
* *
6535616 AATCTTATTGTTACAGTATTC
1 AATCTCATTGCTAC-GTATTC
6535637 AATCTCATTGCTACGTAT
1 AATCTCATTGCTACGTAT
6535655 CTTGCTTCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (20 bp):
AATCTCATTGCTACGTATTC
Found at i:6538586 original size:23 final size:24
Alignment explanation
Indices: 6538559--6538603 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6538549 GAAAAATATT
*
6538559 AAATAT-ATATTTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
6538582 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
6538604 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:6538714 original size:9 final size:9
Alignment explanation
Indices: 6538700--6538727 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6538690 TTTTGTTACA
6538700 ACAATTAAT
1 ACAATTAAT
6538709 ACAATTAAT
1 ACAATTAAT
6538718 ACAATTAAT
1 ACAATTAAT
6538727 A
1 A
6538728 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:6538786 original size:54 final size:51
Alignment explanation
Indices: 6538704--6538821 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 51
6538694 GTTACAACAA
6538704 TTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATT
1 TTAATACAATTAATACAATTAATAATTTGATAAATTTACTAA-C-AA--TTA-ATT
*
6538760 TTAATACAATTAA-A-AATTAATAATTTGATAATTTTACTAACAATTAATT
1 TTAATACAATTAATACAATTAATAATTTGATAAATTTACTAACAATTAATT
6538809 TTAATAACAATTA
1 TTAAT-ACAATTA
6538822 GTTTTAATTT
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
49 8 0.13
50 10 0.17
52 2 0.03
53 1 0.02
54 25 0.42
55 1 0.02
56 13 0.22
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (51 bp):
TTAATACAATTAATACAATTAATAATTTGATAAATTTACTAACAATTAATT
Found at i:6538809 original size:16 final size:16
Alignment explanation
Indices: 6538788--6538829 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
6538778 AATAATTTGA
*
6538788 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
6538804 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
6538820 TAGTTTTAAT
1 TAATTTTAAT
6538830 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:6538813 original size:22 final size:22
Alignment explanation
Indices: 6538803--6538863 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
6538793 TTACTAACAA
* * *
6538803 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
6538825 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
6538847 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
6538864 CGGGCCGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:6539804 original size:13 final size:13
Alignment explanation
Indices: 6539786--6539813 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6539776 ATTATAAGTC
6539786 AAGAAAGACAATG
1 AAGAAAGACAATG
6539799 AAGAAAGACAATG
1 AAGAAAGACAATG
6539812 AA
1 AA
6539814 TTGACTTTGA
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:0.64, C:0.07, G:0.21, T:0.07
Consensus pattern (13 bp):
AAGAAAGACAATG
Found at i:6540027 original size:50 final size:50
Alignment explanation
Indices: 6539971--6540249 Score: 228
Period size: 51 Copynumber: 5.5 Consensus size: 50
6539961 GATGGTCACG
* *
6539971 TGTGTAGTACTATGTGTAGTCTATTACGTGTACCAGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCA
* * * * * * * * *
6540021 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAAT-G-ATAGGTCGCA
*
6540072 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGTA
1 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCA
* * * * *
6540122 TGTGTAGTACTATGTGCAGGCTACCATGCGTACC-G---GATAGCTTCGATCA
1 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAG-GTCG--CA
* * * *
6540171 TGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACA
1 --TGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCA
* *
6540224 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGTAGGCTACTA
6540250 TGTGAATCCG
Statistics
Matches: 181, Mismatches: 34, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
46 5 0.03
47 3 0.02
49 5 0.03
50 64 0.35
51 92 0.51
52 4 0.02
53 2 0.01
55 2 0.01
56 1 0.01
57 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCA
Found at i:6540084 original size:101 final size:101
Alignment explanation
Indices: 6539966--6540251 Score: 457
Period size: 101 Copynumber: 2.8 Consensus size: 101
6539956 AAAGTGATGG
* *
6539966 TCACGTGTGTAGTACTATGTGTAGTCTATTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
6540031 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
*
6540067 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
*
6540132 TATGTGCAGGCTACCATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * * * *
6540168 TCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
*
6540232 ACTATGTGCATGCTACTATG
64 ACTATGTGCAGGCTACTATG
6540252 TGAATCCGCG
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
101 135 0.79
102 32 0.19
103 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:6540086 original size:51 final size:50
Alignment explanation
Indices: 6540021--6540251 Score: 247
Period size: 51 Copynumber: 4.6 Consensus size: 50
6540011 ATAGGTCGCA
6540021 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGATCACG
* * * *
6540072 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCG-T-A--
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC-G---GATAGTTCGATCACG
* *
6540122 TGTGTAGTACTATGTGCAGGCTACCATGCGTACCGGATAGCTTCGATCATG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGATCACG
* * * * *
6540173 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT--TCGATCACG
*
6540224 TGTGTAGTACTATGTGCATGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
6540252 TGAATCCGCG
Statistics
Matches: 151, Mismatches: 18, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
46 5 0.03
47 3 0.02
48 1 0.01
49 2 0.01
50 31 0.21
51 97 0.64
52 3 0.02
53 1 0.01
54 3 0.02
55 5 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTCGATCACG
Found at i:6540253 original size:26 final size:26
Alignment explanation
Indices: 6540173--6540253 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
6540163 TTCGATCATG
*
6540173 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * *
6540199 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
6540224 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
6540250 TGTG
1 TGTG
6540254 AATCCGCGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:6540382 original size:41 final size:42
Alignment explanation
Indices: 6540262--6540387 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 42
6540252 TGAATCCGCG
*
6540262 TCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTA
1 TCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGTA
* * *
6540305 TCCTTGACTGTGA-AAGG-AGTTGCTATGTGCTGATTCC-CCGTA
1 TCATTGA-T-T-ATAAGGTGGTTGCTAAGTGCTGATTCCACCGTA
*
6540347 TCATTGATTATAAGGTGGTTTCTAAGTGCTGATTCCACCGT
1 TCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
6540388 GTAACGGTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 18 0.26
42 15 0.22
43 24 0.35
44 4 0.06
45 1 0.01
46 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTA
Found at i:6557306 original size:6 final size:6
Alignment explanation
Indices: 6557297--6557330 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6557287 ATGAAAAGTA
6557297 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
6557331 GCATAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6565466 original size:51 final size:51
Alignment explanation
Indices: 6565385--6565600 Score: 321
Period size: 51 Copynumber: 4.3 Consensus size: 51
6565375 ACTTCTGATC
6565385 AGTGACAAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
6565436 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
6565487 AGTGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
6565538 AGTGGCAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAG-GAACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTG-ACA
*
6565588 AGTGATAAGTGAT
1 AGTGACAAGTGAT
6565601 CATACGTAAG
Statistics
Matches: 152, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
49 1 0.01
50 34 0.22
51 116 0.76
52 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:6566787 original size:40 final size:39
Alignment explanation
Indices: 6566743--6566859 Score: 130
Period size: 37 Copynumber: 3.0 Consensus size: 39
6566733 GTTTGGCACC
* *
6566743 CAGTGCCTCATCGGATAATTCGAAGTAATAAATTGACACT
1 CAGTGCCTCATCGGTTAATCCGAAGT-ATAAATTGACACT
* * * *
6566783 CAGTGTCTCATTGGTTAAACCGAAG--TAAATTGGCACT
1 CAGTGCCTCATCGGTTAATCCGAAGTATAAATTGACACT
*
6566820 CAGTGCCTCATCGAGTTAATCCGAAGTAGTAAATTAACAC
1 CAGTGCCTCATCG-GTTAATCCGAAGTA-TAAATTGACAC
6566860 CTAGTATCTC
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
37 22 0.35
38 11 0.18
40 20 0.32
41 9 0.15
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (39 bp):
CAGTGCCTCATCGGTTAATCCGAAGTATAAATTGACACT
Found at i:6567109 original size:7 final size:7
Alignment explanation
Indices: 6567097--6567126 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
6567087 ATCAAAATAC
6567097 AATAATT
1 AATAATT
6567104 AATAATT
1 AATAATT
6567111 AATAATT
1 AATAATT
6567118 AATAATT
1 AATAATT
6567125 AA
1 AA
6567127 ATTCGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AATAATT
Found at i:6567741 original size:17 final size:17
Alignment explanation
Indices: 6567702--6567741 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6567692 CTAACTTTTC
6567702 TCCTTC-TTTCTTTCTT
1 TCCTTCTTTTCTTTCTT
**
6567718 TTTTTCTTTTCTTTCTT
1 TCCTTCTTTTCTTTCTT
6567735 TCCTTCT
1 TCCTTCT
6567742 CTGTTTTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
TCCTTCTTTTCTTTCTT
Found at i:6567748 original size:21 final size:21
Alignment explanation
Indices: 6567705--6567789 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 21
6567695 ACTTTTCTCC
* * *
6567705 TTCTTTCTTTCTTTTTTTCTT
1 TTCTTTCTTTCCTTCTCTCTT
*
6567726 TTCTTTCTTTCCTTCTCTGTT
1 TTCTTTCTTTCCTTCTCTCTT
*
6567747 TTGTTTCTTT-C-TCTC-CTT
1 TTCTTTCTTTCCTTCTCTCTT
* * *
6567765 TT-TTTATTTCTTTTTCT-TT
1 TTCTTTCTTTCCTTCTCTCTT
6567784 TTCTTT
1 TTCTTT
6567790 ATCATTATAA
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
17 6 0.12
18 4 0.08
19 11 0.22
20 4 0.08
21 26 0.51
ACGTcount: A:0.01, C:0.21, G:0.02, T:0.75
Consensus pattern (21 bp):
TTCTTTCTTTCCTTCTCTCTT
Found at i:6567845 original size:8 final size:8
Alignment explanation
Indices: 6567832--6567861 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
6567822 TTTTAAGTTT
6567832 TAATATTA
1 TAATATTA
6567840 TAATATTA
1 TAATATTA
6567848 TAATATTA
1 TAATATTA
6567856 TAATAT
1 TAATAT
6567862 ATATTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TAATATTA
Found at i:6567850 original size:51 final size:53
Alignment explanation
Indices: 6567793--6567894 Score: 147
Period size: 51 Copynumber: 2.0 Consensus size: 53
6567783 TTTCTTTATC
*
6567793 ATTATAATATAATAATATATATACTTAACTTTTAA-GTTT-TAATAT-TATAAT
1 ATTATAATATAATAATATATAT-CTTAACTTTAAATGTTTATAATATATATAAT
* *
6567844 ATTATAATATTATAATATATATTTTAACTTTAAATGTTTATAATATATATA
1 ATTATAATATAATAATATATATCTTAACTTTAAATGTTTATAATATATATA
6567895 CACTTATGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 10 0.22
51 25 0.56
52 6 0.13
53 4 0.09
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (53 bp):
ATTATAATATAATAATATATATCTTAACTTTAAATGTTTATAATATATATAAT
Found at i:6573065 original size:41 final size:40
Alignment explanation
Indices: 6573020--6573152 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
6573010 CTTCGAGTCA
6573020 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATTCG
* * *
6573061 ATGAGACACTGGGTGCCAA-TT-TACTTCGGTTTAA-CCG
1 ATGAGACACTGGGTGTCAATTTATACTTCGGATTAATTCG
* ** *
6573098 ATGAGACACTAGGTGTCAATTTATTACTTCAAATT-ATTCA
1 ATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATTCG
*
6573138 ATGAGGCACTGGGTG
1 ATGAGACACTGGGTG
6573153 CCAAACTTGT
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
37 19 0.25
38 14 0.18
39 1 0.01
40 24 0.32
41 18 0.24
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTATACTTCGGATTAATTCG
Found at i:6573118 original size:37 final size:38
Alignment explanation
Indices: 6573020--6573120 Score: 132
Period size: 37 Copynumber: 2.6 Consensus size: 38
6573010 CTTCGAGTCA
*
6573020 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAA-TT--TACTTCGGATTAATCCG
* *
6573061 ATGAGACACTGGGTGCCAATTTACTTCGGTTTAA-CCG
1 ATGAGACACTGGGTGTCAATTTACTTCGGATTAATCCG
*
6573098 ATGAGACACTAGGTGTCAATTTA
1 ATGAGACACTGGGTGTCAATTTA
6573121 TTACTTCAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 23 0.42
38 12 0.22
40 2 0.04
41 18 0.33
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (38 bp):
ATGAGACACTGGGTGTCAATTTACTTCGGATTAATCCG
Found at i:6578140 original size:136 final size:138
Alignment explanation
Indices: 6577919--6578165 Score: 338
Period size: 136 Copynumber: 1.8 Consensus size: 138
6577909 TATACATGTG
*
6577919 TCATAAGACCTAGTTTTAAGTCCATGGAAAAATAAAGCCCACATAACACAAATAAAAGACTAACA
1 TCATAAGACCCAGTTTTAAGTCCATGGAAAAATAAAGCCCACATAACACAAATAAAAGACTAACA
* * * *
6577984 AAATAGATCTAGCAACAAGTCCATTAATACATGAAATGCTACTTCCAAACATACTAAAACCTATA
66 AAATAAATCAAACAACAAGTCCACTAATACATGAAATGCTACTTCCAAACATACTAAAACCTATA
6578049 TATAAGCA
131 TATAAGCA
* ** * *
6578057 TCATAAGCCCCAGTTTTAAGTCCATGGGGATA-AAAGCCCACCTAAC-CAAAT-AAAGACTAACA
1 TCATAAGACCCAGTTTTAAGTCCATGGAAAAATAAAGCCCACATAACACAAATAAAAGACTAACA
* * * *
6578119 AAATAAATCAAACAAAGAAGTCCACTGATGCATGAAATGTTACTTCC
66 AAATAAATCAAAC-AACAAGTCCACTAATACATGAAATGCTACTTCC
6578166 TAATTTACAT
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
135 21 0.22
136 33 0.35
137 13 0.14
138 27 0.29
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.22
Consensus pattern (138 bp):
TCATAAGACCCAGTTTTAAGTCCATGGAAAAATAAAGCCCACATAACACAAATAAAAGACTAACA
AAATAAATCAAACAACAAGTCCACTAATACATGAAATGCTACTTCCAAACATACTAAAACCTATA
TATAAGCA
Found at i:6601015 original size:68 final size:68
Alignment explanation
Indices: 6600906--6601043 Score: 242
Period size: 68 Copynumber: 2.0 Consensus size: 68
6600896 GGAACGAATC
6600906 TCAAGGAAAACTTGTTCTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTCTTT
1 TCAAGGAAAACTTGTTCTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTCTTT
6600971 ATT
66 ATT
* *
6600974 TCAAGGAAAACTT-TTATTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTTTT
1 TCAAGGAAAACTTGTT-CTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTCTT
6601038 TATT
65 TATT
6601042 TC
1 TC
6601044 GGGTTAGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 2 0.03
68 65 0.97
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (68 bp):
TCAAGGAAAACTTGTTCTTAGTTGAGCCCATATCTATCTTCGCCGCCTATAAAGCATGGTTCTTT
ATT
Found at i:6602787 original size:26 final size:25
Alignment explanation
Indices: 6602750--6602830 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 25
6602740 GTACACCACA
*
6602750 GCTCTTATGAGCGTCCTG-TTATATG
1 GCTCTTATGAGCTTCCTGATTA-ATG
* *
6602775 GCTCTTCATGAGCTTCCCGATTAAAG
1 GCTCTT-ATGAGCTTCCTGATTAATG
*
6602801 GCTCTTTATGAACTTCCTGATTAATG
1 GCTC-TTATGAGCTTCCTGATTAATG
6602827 GCTC
1 GCTC
6602831 CTCGGAGCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
25 6 0.13
26 36 0.77
27 5 0.11
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCTGATTAATG
Found at i:6602979 original size:25 final size:26
Alignment explanation
Indices: 6602931--6602990 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
6602921 TGGCTCGCAT
*
6602931 GAGCTTCCCGTTATACAGCTCGGA-A
1 GAGCTTCCCGTTATACAACTCGGATA
6602956 GAGCTTCCCGTTATACAAAC-CGGATA
1 GAGCTTCCCGTTATAC-AACTCGGATA
6602982 -AGCTTCCCG
1 GAGCTTCCCG
6602991 ATACATGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 29 0.91
26 3 0.09
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (26 bp):
GAGCTTCCCGTTATACAACTCGGATA
Found at i:6606060 original size:105 final size:101
Alignment explanation
Indices: 6605950--6606143 Score: 246
Period size: 105 Copynumber: 1.9 Consensus size: 101
6605940 TTTGTAGTGC
* *
6605950 CATAACCCAGTTATGGTCTTATCATCAGAATGT-CATAGCCCAACTATGGTCTTACACATGTATC
1 CATAACCCAGTTATGGTCTTATCATCAAAAT-TCCATAGCCCAACTATGGTCTT--ACAT-T-TA
* *
6606014 TATATTGCCATGGTCCAACCATGGTCTTACATTAAAGGTGT
61 AATATTACCATGGTCCAACCATGGTCTTACATTAAAGGTGT
* * * **
6606055 CATAACCCAGTTATGGTCTTTTCATTAAAATTCCATAGCTCATTTATGGTCTTACATTTAAATAT
1 CATAACCCAGTTATGGTCTTATCATCAAAATTCCATAGCCCAACTATGGTCTTACATTTAAATAT
*
6606120 TACCATGGTTCAACCATGGTCTTA
66 TACCATGGTCCAACCATGGTCTTA
6606144 TCCGTCAATT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
101 27 0.35
102 1 0.01
103 4 0.05
104 1 0.01
105 45 0.58
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (101 bp):
CATAACCCAGTTATGGTCTTATCATCAAAATTCCATAGCCCAACTATGGTCTTACATTTAAATAT
TACCATGGTCCAACCATGGTCTTACATTAAAGGTGT
Found at i:6609051 original size:9 final size:9
Alignment explanation
Indices: 6609037--6609110 Score: 80
Period size: 9 Copynumber: 8.1 Consensus size: 9
6609027 AGTATAAATG
6609037 AGTTATGTA
1 AGTTATGTA
6609046 AGTTATGTA
1 AGTTATGTA
6609055 ATGTATTATGTA
1 A-G--TTATGTA
*
6609067 AGTTATGAA
1 AGTTATGTA
*
6609076 AGTAATGT-
1 AGTTATGTA
6609084 A-TTATGTA
1 AGTTATGTA
*
6609092 AGTTATTTA
1 AGTTATGTA
6609101 AGTTATGTA
1 AGTTATGTA
6609110 A
1 A
6609111 TAAGTTCTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
7 5 0.09
8 2 0.04
9 37 0.69
10 1 0.02
11 1 0.02
12 8 0.15
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:6609063 original size:21 final size:21
Alignment explanation
Indices: 6609039--6609138 Score: 82
Period size: 21 Copynumber: 4.6 Consensus size: 21
6609029 TATAAATGAG
6609039 TTATGTAAGTTATGTAATGTA
1 TTATGTAAGTTATGTAATGTA
6609060 TTATGTAAGTTATGAAAGTAATGTA
1 TTATGTAAGTTAT----GTAATGTA
*
6609085 TTATGTAAGTTATTTAA-GTTA
1 TTATGTAAGTTATGTAATG-TA
* *
6609106 TGTA-ATAAGTTCTGT-AT-TA
1 T-TATGTAAGTTATGTAATGTA
6609125 TATATGTAAGTTAT
1 T-TATGTAAGTTAT
6609139 TTAACTTATG
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
19 5 0.08
20 9 0.14
21 27 0.42
22 2 0.03
25 21 0.33
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (21 bp):
TTATGTAAGTTATGTAATGTA
Found at i:6609259 original size:30 final size:30
Alignment explanation
Indices: 6609223--6609313 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
6609213 AAATTTTATC
* *
6609223 TTAATATAATATAAGTTATGTAATGAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
* *
6609253 TTAATATTATCTAAGTTATGTTATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
6609283 TTAATATTATATAAGTTATGTAATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
6609313 T
1 T
6609314 CTTATCTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.43
Consensus pattern (30 bp):
TTAATATTATATAAGTTATGTAATTAGAAA
Found at i:6609374 original size:22 final size:20
Alignment explanation
Indices: 6609315--6609380 Score: 89
Period size: 20 Copynumber: 3.2 Consensus size: 20
6609305 ATTAGAAATC
6609315 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
6609335 TTATC-CAACTCAATTATATAAG
1 TTATCTTAA-T--ATTATATAAG
6609357 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
6609377 TTAT
1 TTAT
6609381 GTAAGGTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 2 0.05
20 20 0.50
22 16 0.40
23 2 0.05
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:6609431 original size:40 final size:40
Alignment explanation
Indices: 6609387--6609468 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
6609377 TTATGTAAGG
6609387 TTATGTATGAAAGCTATGCAAGTTATGTAATGTATCAATT
1 TTATGTATGAAAGCTATGCAAGTTATGTAATGTATCAATT
* * *
6609427 TTATGTATGTAGGTTATGCAAGTTATGTAATGTATCAATT
1 TTATGTATGAAAGCTATGCAAGTTATGTAATGTATCAATT
6609467 TT
1 TT
6609469 TAAAAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (40 bp):
TTATGTATGAAAGCTATGCAAGTTATGTAATGTATCAATT
Found at i:6609635 original size:35 final size:35
Alignment explanation
Indices: 6609596--6609692 Score: 112
Period size: 35 Copynumber: 2.8 Consensus size: 35
6609586 ACATTTAAGT
6609596 TATTTAAGTAATGTAAGTT-A-TAAATTTTAAAAATA
1 TATTTAAGTAA--TAAGTTAATTAAATTTTAAAAATA
*
6609631 TATTT-ATTAATAAGTTAAATTAAATTTTAAAAATA
1 TATTTAAGTAATAAGTT-AATTAAATTTTAAAAATA
*
6609666 TATTT-ATTAATAAGTTAAATTAAATTT
1 TATTTAAGTAATAAGTT-AATTAAATTT
6609693 ATTAATAAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
32 6 0.10
34 5 0.09
35 47 0.81
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (35 bp):
TATTTAAGTAATAAGTTAATTAAATTTTAAAAATA
Found at i:6612624 original size:24 final size:25
Alignment explanation
Indices: 6612578--6612625 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
6612568 ATTATTTTTA
6612578 ATTGTTCAATTTTTTAAAATTGAAAT
1 ATTGTTCAA-TTTTTAAAATTGAAAT
*
6612604 ATTGTTCAA-TTTTAAATTTGAA
1 ATTGTTCAATTTTTAAAATTGAA
6612626 TTATGATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
26 9 0.43
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (25 bp):
ATTGTTCAATTTTTAAAATTGAAAT
Found at i:6612738 original size:27 final size:28
Alignment explanation
Indices: 6612679--6612742 Score: 76
Period size: 33 Copynumber: 2.1 Consensus size: 28
6612669 TTTTGGTATC
6612679 TTAAAATTTAAATAATTCTATTATTCTGCAAAT
1 TTAAAATTTAAATAATTCTATTA---T--AAAT
6612712 TTAAAATTTAAATAATTCTATTA-AAAT
1 TTAAAATTTAAATAATTCTATTATAAAT
6612739 TTAA
1 TTAA
6612743 TACTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
27 8 0.26
33 23 0.74
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (28 bp):
TTAAAATTTAAATAATTCTATTATAAAT
Found at i:6612918 original size:7 final size:7
Alignment explanation
Indices: 6612888--6612922 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
6612878 TCCATAAAAT
*
6612888 CCTAAAA
1 CCTAAAC
6612895 CCTAAAC
1 CCTAAAC
6612902 CCTAAAC
1 CCTAAAC
*
6612909 CCTAAGC
1 CCTAAAC
6612916 CCTAAAC
1 CCTAAAC
6612923 TACGAGGCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.43, C:0.40, G:0.03, T:0.14
Consensus pattern (7 bp):
CCTAAAC
Found at i:6613147 original size:13 final size:13
Alignment explanation
Indices: 6613129--6613153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6613119 CTAAACCCTA
6613129 AACCCTTAACCCC
1 AACCCTTAACCCC
6613142 AACCCTTAACCC
1 AACCCTTAACCC
6613154 TTAATTAAAC
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:0.52, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:6613155 original size:7 final size:7
Alignment explanation
Indices: 6613117--6613176 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
6613107 AACTATAAAC
*
6613117 CCCTAAA
1 CCCTTAA
*
6613124 CCCTAAA
1 CCCTTAA
6613131 CCCTTAA
1 CCCTTAA
*
6613138 CCC-CAA
1 CCCTTAA
6613144 CCCTTAA
1 CCCTTAA
6613151 CCCTTAA
1 CCCTTAA
6613158 ---TTAAA
1 CCCTT-AA
6613163 CCCTTAA
1 CCCTTAA
6613170 CCCTTAA
1 CCCTTAA
6613177 ACACCAACCT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
6 5 0.11
7 34 0.76
8 2 0.04
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (7 bp):
CCCTTAA
Found at i:6613290 original size:15 final size:15
Alignment explanation
Indices: 6613224--6613291 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
6613214 CCATATCCCT
6613224 TAAACCT-TAAATCA
1 TAAACCTATAAATCA
* *
6613238 TAGAACATATAAAAACTA
1 TA-AACCTAT-AAATC-A
**
6613256 TAAACCCCTAAATCCA
1 TAAACCTATAAAT-CA
6613272 -AAACCTATAAATCA
1 TAAACCTATAAATCA
6613286 TAAACC
1 TAAACC
6613292 CTTAACTCGT
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
14 4 0.10
15 19 0.47
16 5 0.12
17 9 0.22
18 3 0.08
ACGTcount: A:0.53, C:0.24, G:0.01, T:0.22
Consensus pattern (15 bp):
TAAACCTATAAATCA
Found at i:6613467 original size:39 final size:39
Alignment explanation
Indices: 6613422--6613497 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
6613412 CCCATATCCC
*
6613422 TTAAACCTTAAATCATAGA-ACATATATAAACTATAAATT
1 TTAAACCCTAAATCATA-ACACATATATAAACTATAAATT
* * *
6613461 TTAAACCCTGATTCATAACATATATATAAACTATAAA
1 TTAAACCCTAAATCATAACACATATATAAACTATAAA
6613498 GTGTAAGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (39 bp):
TTAAACCCTAAATCATAACACATATATAAACTATAAATT
Found at i:6614284 original size:114 final size:114
Alignment explanation
Indices: 6614061--6614414 Score: 290
Period size: 114 Copynumber: 3.1 Consensus size: 114
6614051 TTCCTCTATT
* * * * * ** *
6614061 TTGCGGCG-TTTCTAAGAAAGCGCCACTAAAGTC-TCTAAAACCTAAATAAAAAACGACTACGTT
1 TTGCGGCGTTTTC-CAGTAAGCGCCACT-AACTCTTCGAAAACATAAACGAAAAACGGCTACGTT
* * * *
6614124 TTCTTAACAGTTTTACGGCGCTT-TG-TCAAAAGCGCCTCCAAATCTTGGCTA
64 TTCTTAACAGTTTTGCGGCGCTTATGAT--AAAGCGCCGCTAATTCTTGGCTA
* * * * * *
6614175 TTGCGGCATTTTTC-GATAATCGCCACTATCGTCTT-GAAAAGATAAACGAAAAACGGCAACGTT
1 TTGCGGCGTTTTCCAG-TAAGCGCCACTAAC-TCTTCGAAAACATAAACGAAAAACGGCTACGTT
* *
6614238 TTCTTAACAGTTTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTT-GATCG
64 TTCTTAACAGTTTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTTGGCT-A
* * * ** *
6614289 TTGCGGCGTTTTCCAGTAAGCGCCACTAACTTTTCTAAAACCTAAACTTAAAACGGCTACATTTT
1 TTGCGGCGTTTTCCAGTAAGCGCCACTAACTCTTCGAAAACATAAACGAAAAACGGCTACGTTTT
* * * * * * *
6614354 CTTAGCAGTTTTTGTGGCGTTTATGATAAAACGCTGGTAATTCTTGACTA
66 CTTAACAG-TTTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTTGGCTA
6614404 TTGCGGCGTTT
1 TTGCGGCGTTT
6614415 CTAAAGAAAG
Statistics
Matches: 188, Mismatches: 41, Indels: 21
0.75 0.16 0.08
Matches are distributed among these distances:
113 7 0.04
114 130 0.69
115 49 0.26
116 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (114 bp):
TTGCGGCGTTTTCCAGTAAGCGCCACTAACTCTTCGAAAACATAAACGAAAAACGGCTACGTTTT
CTTAACAGTTTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTTGGCTA
Found at i:6614457 original size:115 final size:114
Alignment explanation
Indices: 6614061--6614459 Score: 264
Period size: 114 Copynumber: 3.5 Consensus size: 114
6614051 TTCCTCTATT
* * * * * *
6614061 TTGCGGCGTTTCT-AAGAAAGCGCCACTAAA-GTCTCTAAAACCTAAATAAAAAACGACTACGTT
1 TTGCGGCGTTT-TAAAGAAAGCGCCACTAAATGT-TCGAAAACCTAAACAGAAAACGGCAACATT
* * * * *
6614124 TTCTTAACAGTTTTACGGCGCTT-TG-TCAAAAGCGCCTCCAAATCTTG-GCTA
64 TTCTTAACAGTTTTGCGGCGCTTATGAT-AAAA-CGCCGCTAATTCTTGATC-A
* ** * * ** *
6614175 TTGCGGCATTTT-TCGATAATCGCCACT--ATCGTCTTGAAAAGATAAAC-GAAAAACGGCAACG
1 TTGCGGCGTTTTAAAGA-AAGCGCCACTAAAT-GT-TCGAAAACCTAAACAG-AAAACGGCAACA
* *
6614236 TTTTCTTAACAGTTTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTTGATCG
62 TTTTCTTAACAGTTTTGCGGCGCTTATGATAAAACGCCGCTAATTCTTGATCA
** * * * * ** *
6614289 TTGCGGCGTTTTCCAGTAAGCGCCACTAACTTTTCTAAAACCTAAACTTAAAACGGCTACATTTT
1 TTGCGGCGTTTTAAAGAAAGCGCCACTAAATGTTCGAAAACCTAAACAGAAAACGGCAACATTTT
* * * * *
6614354 CTTAGCAGTTTTTGTGGCGTTTATGATAAAACGCTGGTAATTCTTGA-CTA
66 CTTAACAG-TTTTGCGGCGCTTATGATAAAACGCCGCTAATTCTTGATC-A
* *
6614404 TTGCGGCGTTTCTAAAGAAAGCGCCAC-AAATGTT-GAAAAGCTCAACAAGAAAACGG
1 TTGCGGCGTTT-TAAAGAAAGCGCCACTAAATGTTCGAAAACCTAAAC-AGAAAACGG
6614460 GGTCGTTTAA
Statistics
Matches: 220, Mismatches: 50, Indels: 29
0.74 0.17 0.10
Matches are distributed among these distances:
112 1 0.00
113 3 0.01
114 138 0.63
115 64 0.29
116 14 0.06
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (114 bp):
TTGCGGCGTTTTAAAGAAAGCGCCACTAAATGTTCGAAAACCTAAACAGAAAACGGCAACATTTT
CTTAACAGTTTTGCGGCGCTTATGATAAAACGCCGCTAATTCTTGATCA
Found at i:6617344 original size:3 final size:3
Alignment explanation
Indices: 6617336--6617363 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6617326 ATTTTGACAG
6617336 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
6617364 GTCTAAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6619948 original size:10 final size:10
Alignment explanation
Indices: 6619933--6619962 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
6619923 ACCAACCAAT
6619933 CAAATTTCAA
1 CAAATTTCAA
6619943 CAAATTTCAA
1 CAAATTTCAA
*
6619953 CAAGTTTCAA
1 CAAATTTCAA
6619963 TCCTTAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (10 bp):
CAAATTTCAA
Found at i:6640980 original size:20 final size:20
Alignment explanation
Indices: 6640929--6640986 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
6640919 AAGTAAGCTA
*
6640929 AATATGTTTTTTGAAGATTAG
1 AATAT-TTTTTTCAAGATTAG
* *
6640950 AATATATTTTTCAATATTAG
1 AATATTTTTTTCAAGATTAG
*
6640970 AATATTTTTTTTAAGAT
1 AATATTTTTTTCAAGAT
6640987 GCTATACAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (20 bp):
AATATTTTTTTCAAGATTAG
Found at i:6642560 original size:6 final size:6
Alignment explanation
Indices: 6642551--6642577 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6642541 TCTTCCATTT
6642551 CCCTTC CCCTTC CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCC
6642578 CATCCTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTTC
Found at i:6649762 original size:80 final size:80
Alignment explanation
Indices: 6649659--6649821 Score: 326
Period size: 80 Copynumber: 2.0 Consensus size: 80
6649649 GTTGAAGTTT
6649659 CAAGACGATGAATTATGGAGTAATGATGAATTAGAAGAGACTAATTATATTCGTGGGCCTAAACT
1 CAAGACGATGAATTATGGAGTAATGATGAATTAGAAGAGACTAATTATATTCGTGGGCCTAAACT
6649724 CTCAATCTATGATGA
66 CTCAATCTATGATGA
6649739 CAAGACGATGAATTATGGAGTAATGATGAATTAGAAGAGACTAATTATATTCGTGGGCCTAAACT
1 CAAGACGATGAATTATGGAGTAATGATGAATTAGAAGAGACTAATTATATTCGTGGGCCTAAACT
6649804 CTCAATCTATGATGA
66 CTCAATCTATGATGA
6649819 CAA
1 CAA
6649822 ACCTATGTGG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (80 bp):
CAAGACGATGAATTATGGAGTAATGATGAATTAGAAGAGACTAATTATATTCGTGGGCCTAAACT
CTCAATCTATGATGA
Found at i:6655628 original size:18 final size:18
Alignment explanation
Indices: 6655583--6655628 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
6655573 CTTCCTTAAT
6655583 TTTTGATTTA-TTATTTTA
1 TTTT-ATTTATTTATTTTA
*
6655601 TTTTAGTTATTTATTTTAA
1 TTTTATTTATTTATTTT-A
6655620 TTTT-TTTAT
1 TTTTATTTAT
6655629 CTAACTTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 15 0.62
19 5 0.21
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTTATTTATTTATTTTA
Found at i:6656919 original size:24 final size:25
Alignment explanation
Indices: 6656855--6656920 Score: 89
Period size: 24 Copynumber: 2.6 Consensus size: 25
6656845 AAAAATAAAA
6656855 ATTTATCAAAATATTATAATTTTTTT
1 ATTTATCAAAATA-TATAATTTTTTT
* *
6656881 ATTTATTAAAGTATAT-ATTTTTTT
1 ATTTATCAAAATATATAATTTTTTT
*
6656905 ATTTACCAAAATATAT
1 ATTTATCAAAATATAT
6656921 CAAAAAAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 21 0.60
25 3 0.09
26 11 0.31
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (25 bp):
ATTTATCAAAATATATAATTTTTTT
Found at i:6657022 original size:27 final size:27
Alignment explanation
Indices: 6656992--6657056 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
6656982 CGCCAATGGG
6656992 ATTGGCGGCACCAATGGTGCCAATAAT-
1 ATTGGCGGCACCAATGGTGCCAA-AATA
*
6657019 ATTGGCGGCACCAATGGTGCCAAACTA
1 ATTGGCGGCACCAATGGTGCCAAAATA
6657046 ATTGGCGGCAC
1 ATTGGCGGCAC
6657057 TACTAGTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAATA
Found at i:6657283 original size:3 final size:3
Alignment explanation
Indices: 6657277--6657308 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6657267 ATTATTATTA
6657277 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
6657309 AGTATTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:6658091 original size:18 final size:18
Alignment explanation
Indices: 6658068--6658105 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6658058 GGTTGGTGGT
6658068 GAAGAAGAAGGTGCTGGC
1 GAAGAAGAAGGTGCTGGC
* *
6658086 GAAGAAGAATGTGGTGGC
1 GAAGAAGAAGGTGCTGGC
6658104 GA
1 GA
6658106 TTATTGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.45, T:0.13
Consensus pattern (18 bp):
GAAGAAGAAGGTGCTGGC
Found at i:6662870 original size:26 final size:26
Alignment explanation
Indices: 6662838--6662887 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
6662828 CAGGTTTTTT
6662838 TATATATTTTTTGGTAAATAAAAATA
1 TATATATTTTTTGGTAAATAAAAATA
6662864 TATATATTTTTTGGTAAATAAAAA
1 TATATATTTTTTGGTAAATAAAAA
6662888 AAACTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
TATATATTTTTTGGTAAATAAAAATA
Found at i:6663544 original size:5 final size:5
Alignment explanation
Indices: 6663534--6663715 Score: 60
Period size: 5 Copynumber: 36.6 Consensus size: 5
6663524 AAAACATACT
* * * ** *
6663534 TTTTC TTTTC TTTT- TTTCC CTTCC TTCCC TCTTC TTCTTC TTTT- TTTT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC
* * * * *
6663582 TTCTC TTTTCC TTTCC TTTTC TTTCC TTCTTTC TTTCTT TTTTC TTCTCC
1 TTTTC TTTT-C TTTTC TTTTC TTTTC -T-TTTC TTT-TC TTTTC TT-TTC
* * *
6663632 TTTCC TTTTC TTCTTC -TTTC -TTTC TTTT- TTTCTC TTCTC TTCTCC
1 TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTT-TC TTTTC TT-TTC
* * *
6663677 TTTCC TTTTC TTTCC TTCT- TTTTC -TTTC -TTTC -TTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
6663716 CCCTCTCCTT
Statistics
Matches: 136, Mismatches: 26, Indels: 30
0.71 0.14 0.16
Matches are distributed among these distances:
4 35 0.26
5 71 0.52
6 27 0.20
7 3 0.02
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (5 bp):
TTTTC
Found at i:6663615 original size:4 final size:4
Alignment explanation
Indices: 6663599--6663716 Score: 86
Period size: 4 Copynumber: 29.0 Consensus size: 4
6663589 TTCCTTTCCT
*
6663599 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC
* *
6663645 -TTC TTTC TTTC TTTT TTTC TCTTC TCTTC -TCC TTTCC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC T-TTC T-TTC TTTC TTT-C -TTTC TTTC
*
6663691 CTTC -TT- TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
6663717 CCTCTCCTTC
Statistics
Matches: 95, Mismatches: 7, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
3 13 0.14
4 59 0.62
5 17 0.18
6 6 0.06
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:6663620 original size:45 final size:45
Alignment explanation
Indices: 6663564--6663725 Score: 175
Period size: 45 Copynumber: 3.7 Consensus size: 45
6663554 TTCCTTCCCT
*
6663564 CTTC-TTC-TTCTTTTTTTTTTCTCTTTTCCTTTCCTTTTCTTTC
1 CTTCTTTCTTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
6663607 CTTCTTTCTTTC-----TTTTT-TCTTCTCCTTTCCTTTTC-TT-
1 CTTCTTTCTTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
6663644 CTTCTTTCTTTCTTTTTTTCTCTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTCTTTCTTTTTTT-T-TTCTCTTCTCCTTTCCTTTTCTTTC
* *
6663691 CTTCTTTTTCTTTCTTTCTTTCTTTC-CCTCTCCTT
1 CTTC--TTTCTTTCTTT-TTTTTTTCTCTTCTCCTT
6663726 CTGGTCCCCC
Statistics
Matches: 101, Mismatches: 3, Indels: 26
0.78 0.02 0.20
Matches are distributed among these distances:
37 12 0.12
38 2 0.02
39 17 0.17
40 5 0.05
42 2 0.02
43 5 0.05
44 5 0.05
45 21 0.21
46 2 0.02
47 12 0.12
48 3 0.03
49 12 0.12
50 3 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (45 bp):
CTTCTTTCTTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
Found at i:6663697 original size:18 final size:17
Alignment explanation
Indices: 6663592--6663717 Score: 84
Period size: 18 Copynumber: 7.4 Consensus size: 17
6663582 TTCTCTTTTC
6663592 CTTTCCTTTTCTTTCCTT
1 CTTTCCTTTTCTTT-CTT
*
6663610 CTTT-C-TTTCTTTTTT
1 CTTTCCTTTTCTTTCTT
*
6663625 CTTCTCCTTTCCTTTTCTT
1 CTT-TCCTTTTC-TTTCTT
6663644 C-TT-C-TTTCTTTCTT
1 CTTTCCTTTTCTTTCTT
* * * *
6663658 TTTTTCTCTTCTCTTCTC
1 CTTTCCTTTTCT-TTCTT
6663676 CTTTCCTTTTCTTTCCTT
1 CTTTCCTTTTCTTT-CTT
*
6663694 CTTT-TTCTTTCTTTCTTT
1 CTTTCCT-TTTCTTTC-TT
6663712 CTTTCC
1 CTTTCC
6663718 CTCTCCTTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
14 6 0.07
15 10 0.12
16 10 0.12
17 11 0.13
18 40 0.48
19 6 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CTTTCCTTTTCTTTCTT
Found at i:6663837 original size:27 final size:27
Alignment explanation
Indices: 6663762--6663828 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
6663752 TAATATACAC
6663762 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
6663789 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
6663816 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
6663829 CCCATTGGCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Done.