Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 15 of 135
Found at i:6376462 original size:54 final size:53
Alignment explanation
Indices: 6376299--6376464 Score: 197
Period size: 54 Copynumber: 3.1 Consensus size: 53
6376289 TATAACAGTT
* * *
6376299 ATTTTACCCAATGGGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATT
1 ATTTTACCC-ATGGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTC
* * * *
6376353 ATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAGTC
1 ATTTTACCC-ATGGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTC
* * * * *
6376407 ATTTTACCCATCGAGGGTATTTCGATCATTTTACCCATCGAAGTTATTTCGGTC
1 ATTTTACCCAT-GGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTC
6376461 ATTT
1 ATTT
6376465 GCCTACGAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 93 0.99
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (53 bp):
ATTTTACCCATGGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTC
Found at i:6390266 original size:15 final size:17
Alignment explanation
Indices: 6390227--6390267 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
6390217 TGTTATTTGA
*
6390227 AATTTTATCCAACACTT
1 AATTTTATCCAACACTC
6390244 ACATTTTATCCAAC-C-C
1 A-ATTTTATCCAACACTC
6390260 AATTTTAT
1 AATTTTAT
6390268 TTTTTATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 1 0.05
17 2 0.09
18 12 0.55
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTTATCCAACACTC
Found at i:6391019 original size:20 final size:20
Alignment explanation
Indices: 6390996--6391035 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6390986 TCTCATACCA
* *
6390996 ACAAATATTCAATCATAATT
1 ACAAATAATAAATCATAATT
*
6391016 ACAATTAATAAATCATAATT
1 ACAAATAATAAATCATAATT
6391036 CATTCATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (20 bp):
ACAAATAATAAATCATAATT
Found at i:6392398 original size:98 final size:98
Alignment explanation
Indices: 6392224--6392404 Score: 317
Period size: 98 Copynumber: 1.8 Consensus size: 98
6392214 GTACAATAAA
*
6392224 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
6392289 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
* *
6392322 ACTTTAAAAGAACATCCACTTCTCCAAGATTTATGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
6392387 CCTTTAAAATCCCAAACT
66 CCTCTAAAATCCCAAACT
6392405 NNNNNNNNNN
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 78 1.00
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:6394871 original size:45 final size:45
Alignment explanation
Indices: 6394809--6395147 Score: 189
Period size: 45 Copynumber: 7.7 Consensus size: 45
6394799 CGGTTTTAAA
6394809 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-CTTCAGC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTT-AGC
** *
6394854 CTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTTGCTTAGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCATGCTTAGC
* * * *
6394899 GTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--ATGC-GA-T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTTAGC
* * * * **
6394940 CTGCT-CTCTGTAAC-TCTAGAGG-GATAAGA-TCTG--AGGTTTTAAT
1 CTGCTCCACTGCAACTTC-AG-GGAGATAAGACT-TGCCATG-CTTAGC
* * **
6394983 CTGCTCCAATGCAACTTCAGGGAGATATGA-TT---ATCGACTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-G-C-TTAGC
* * *
6395027 CTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCAT-CTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTT-AGC
* * * * *
6395072 CTGC-CTCACTGCAACTTCA-AGAGGATAAGGCTTG-CTTACTTAGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCATGCTTAGC
6395116 CTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT
6395148 AGATGCGATC
Statistics
Matches: 236, Mismatches: 32, Indels: 53
0.74 0.10 0.17
Matches are distributed among these distances:
39 3 0.01
40 19 0.08
41 7 0.03
42 3 0.01
43 13 0.06
44 86 0.36
45 96 0.41
46 7 0.03
48 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTTAGC
Found at i:6395064 original size:218 final size:217
Alignment explanation
Indices: 6394660--6395159 Score: 766
Period size: 218 Copynumber: 2.3 Consensus size: 217
6394650 TGCTTAGGGA
* * **
6394660 GATAAGACCTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATATGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* * * *
6394725 CTCTCTGTAACTTTCGAGAGATAAGTTCTGAGATTTTAATCCACTCCACTGCAACTTCAAGGAGA
66 CTCTCTGTAACTCTAGAGAGATAAGATCTGAGATTTTAATCCACTCCAATGCAACTTCAAGGAGA
**
6394790 TAGGATTACCGGTTTTAAACTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGCC
131 TAGGATTACCGACTTTAAACTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGCC
*
6394855 TGCCTCACTGCAACTTCAGGAG
196 TGCCTCACTGCAACTTCAAGAG
* *
6394877 GATAAGACTTGCTTTGCTTAGTGTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
1 GATAAGACTTGC-TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
* * ** *
6394942 GCTCTCTGTAACTCTAGAGGGATAAGATCTGAGGTTTTAATCTGCTCCAATGCAACTTCAGGGAG
65 GCTCTCTGTAACTCTAGAGAGATAAGATCTGAGATTTTAATCCACTCCAATGCAACTTCAAGGAG
* * * * * *
6395007 ATATGATTATCGACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGT
130 ATAGGATTACCGACTTTAAACTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGC
6395072 CTGCCTCACTGCAACTTCAAGAG
195 CTGCCTCACTGCAACTTCAAGAG
*
6395095 GATAAGGCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
6395160 TTATCTTCAC
Statistics
Matches: 255, Mismatches: 27, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
217 62 0.24
218 193 0.76
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (217 bp):
GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
CTCTCTGTAACTCTAGAGAGATAAGATCTGAGATTTTAATCCACTCCAATGCAACTTCAAGGAGA
TAGGATTACCGACTTTAAACTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGCC
TGCCTCACTGCAACTTCAAGAG
Found at i:6407493 original size:61 final size:61
Alignment explanation
Indices: 6407428--6407630 Score: 156
Period size: 61 Copynumber: 3.2 Consensus size: 61
6407418 CATAAAAAAA
6407428 ACTAAATTGAATTGCAATTACTATATATGAGGTATATCTGCAAATAAATAAAAGTAAAAGG
1 ACTAAATTGAATTGCAATTACTATATATGAGGTATATCTGCAAATAAATAAAAGTAAAAGG
* ** * * * * **** * *
6407489 ACTAATTTGAACGCGCGAATTACATAGAGGGTCTGGAAGGGAAAGGACCAAATTAAAGAACA-TA
1 ACTAAATTGAA-TTGC-AATTAC-TATA---TAT-G-AGGTATATCTGCAAA-TAAATAAAAGT-
**
6407553 AAAAAA
56 AAAAGG
*
6407559 ACTAAATTGAATTGCAATTACAATATATGAGGTATATCTGCAAATAAATAAAAGTAAAAGG
1 ACTAAATTGAATTGCAATTACTATATATGAGGTATATCTGCAAATAAATAAAAGTAAAAGG
*
6407620 ACTAATTTGAA
1 ACTAAATTGAA
6407631 CGCGCGAATT
Statistics
Matches: 99, Mismatches: 32, Indels: 22
0.65 0.21 0.14
Matches are distributed among these distances:
61 31 0.31
62 12 0.12
63 7 0.07
64 5 0.05
67 4 0.04
68 7 0.07
69 12 0.12
70 21 0.21
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (61 bp):
ACTAAATTGAATTGCAATTACTATATATGAGGTATATCTGCAAATAAATAAAAGTAAAAGG
Found at i:6407557 original size:131 final size:132
Alignment explanation
Indices: 6407412--6407675 Score: 503
Period size: 131 Copynumber: 2.0 Consensus size: 132
6407402 AAATAAATAA
*
6407412 AAAGAACATAAAAAAAACTAAATTGAATTGCAATTACTATATATGAGGTATATCTGCAAATAAAT
1 AAAGAACATAAAAAAAACTAAATTGAATTGCAATTACAATATATGAGGTATATCTGCAAATAAAT
6407477 AAAAGTAAAAGGACTAATTTGAACGCGCGAATTACATAGAGGGTCTGGAAGGGAAA-GGACCAAA
66 AAAAGTAAAAGGACTAATTTGAACGCGCGAATTACATAGAGGGTCTGGAAGGGAAATGGACCAAA
6407541 TT
131 TT
6407543 AAAGAACATAAAAAAAACTAAATTGAATTGCAATTACAATATATGAGGTATATCTGCAAATAAAT
1 AAAGAACATAAAAAAAACTAAATTGAATTGCAATTACAATATATGAGGTATATCTGCAAATAAAT
6407608 AAAAGTAAAAGGACTAATTTGAACGCGCGAATTACATAGAGGGTCTGGAAGGGAAATTGGACCAA
66 AAAAGTAAAAGGACTAATTTGAACGCGCGAATTACATAGAGGGTCTGGAAGGGAAA-TGGACCAA
6407673 ATT
130 ATT
6407676 GAAATTTGTA
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
131 120 0.92
133 10 0.08
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (132 bp):
AAAGAACATAAAAAAAACTAAATTGAATTGCAATTACAATATATGAGGTATATCTGCAAATAAAT
AAAAGTAAAAGGACTAATTTGAACGCGCGAATTACATAGAGGGTCTGGAAGGGAAATGGACCAAA
TT
Found at i:6409646 original size:76 final size:76
Alignment explanation
Indices: 6409390--6409648 Score: 306
Period size: 76 Copynumber: 3.4 Consensus size: 76
6409380 ACAAGATCGG
* * * *
6409390 TTGTGTCCCTAGCACTAGTTGGATAAA-CTGAC-AATGTTTTGTGCCCAGTGCTAGTCGGATAAA
1 TTGTGTGCCTAGCACTAGTCGAATAAATC-GACAAAGGTTTT-TGCCCAGTGCTAGTCGGATAAA
6409453 CCGACGATGATAA
64 CCGACGATGATAA
* ** ** * * **
6409466 TCGTGTGCCTAGCACTAGTCGAATAAATTTACAAAGGTTTGCGCCCAATGCTAGTTGGATAATTC
1 TTGTGTGCCTAGCACTAGTCGAATAAATCGACAAAGGTTTTTGCCCAGTGCTAGTCGGATAAACC
6409531 GACGATGATAA
66 GACGATGATAA
* * * *
6409542 TTATGTGCCTAGCATTAGTCAAATAAATCGACAAAGGTTTTTGCCCAGCGCTAGTCGGATAAACC
1 TTGTGTGCCTAGCACTAGTCGAATAAATCGACAAAGGTTTTTGCCCAGTGCTAGTCGGATAAACC
* *
6409607 GACGATAATAC
66 GACGATGATAA
*
6409618 TTGTGTGCCGAGCACTAGTCGAATAAATCGA
1 TTGTGTGCCTAGCACTAGTCGAATAAATCGA
6409649 TAACACATAC
Statistics
Matches: 149, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
76 143 0.96
77 6 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (76 bp):
TTGTGTGCCTAGCACTAGTCGAATAAATCGACAAAGGTTTTTGCCCAGTGCTAGTCGGATAAACC
GACGATGATAA
Found at i:6414453 original size:334 final size:334
Alignment explanation
Indices: 6413562--6414647 Score: 1312
Period size: 334 Copynumber: 3.2 Consensus size: 334
6413552 GGTTAAAATT
* * * * *
6413562 CAATTATTGTGCCCATTATTGAATCTAGTTCTGTTTAGGAAAGTG-AAAAAAGTTATGGATCATT
1 CAATTGTTGTTCCCATTATTGATTCTAGTTCTGTTTAGGAAAGTGAAAAAAAGTTATGGGTGATT
* * * * * * *
6413626 CGATGTAGTTAAATCATATCTTTCTCTCTCT-TATGTAATATTTTGTCT-AAAATAATGATTATG
66 CGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATAATTTGTCTGAAAA-AACGATTATG
* * * *
6413689 TC-TTCAGATCTAAGAATGTGCCACTCTTTCGATATAGATAGGATCGTAACCTTTACCTTAATTT
130 TCTTTCAGATCTAAGAATGTGCCATTCATTCGATATAGATACGATCGTAACCTTCACCTTAATTT
6413753 TAATTCAATT-GGAGACAGATTCTCTCCC-CATTCTCTAAAGGATGATTTAAAACAAGGAAGATA
195 TAATTCAATTGGGA-ACAGATTCTCTCCCTC-TTCTCTAAAGGATGATTTAAAACAAGGAAGATA
* * * * * * *
6413816 ATCGATGTATGATGTATCTATC-CAAAATTATGATTATATCACTGAGATCTAAAAACATTTCATG
258 ATCAATGTATGATGTAT-T-TCACAAAATTATGATTATATCGCTTAGATCTGAGAACGTCTCATG
6413880 TGTTGGATAGTAGGA
321 TGTTGGA-AGTAGGA
* * * * * * * *
6413895 CAACTGTTGTCCCCACTATTGATTTTGGTTCTATTTTGGAAAGTGAAAAAAAGTTATGGGGGATT
1 CAATTGTTGTTCCCATTATTGATTCTAGTTCTGTTTAGGAAAGTGAAAAAAAGTTATGGGTGATT
* * * *
6413960 CGATGTAGTTAATTCAAATCA-GTCTTTCTTTATATGTCATACTTTGTCTGAAATAACGATTATG
66 CGATGTAGTTAATTCAAAT-ATTTCTTTCTCTATATGTCATAATTTGTCTGAAAAAACGATTATG
* * * * * *
6414024 TCTATCAGATCTAAGAATGTGCCATTCATTCGATATAGATACGACCATATCCTTCACATTAATTA
130 TCTTTCAGATCTAAGAATGTGCCATTCATTCGATATAGATACGATCGTAACCTTCACCTTAATTT
* *
6414089 TAATTCAATTGGGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAAT
195 TAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAAT
* *
6414154 CAATATATGATGTATTTCCACAAAATTATGATTATATCGCTTAGATCTGAGAACGTGTCATGTGT
260 CAATGTATGATGTATTT-CACAAAATTATGATTATATCGCTTAGATCTGAGAACGTCTCATGTGT
6414219 TGGAGAGCTA-GA
324 TGGA-AG-TAGGA
* * *
6414231 CAATTGTTGTTCCTATTATTGATTCTAGTTCT-TTGAGGAAAGTG-AAAAGAGTTATGGGTGATT
1 CAATTGTTGTTCCCATTATTGATTCTAGTTCTGTTTAGGAAAGTGAAAAAAAGTTATGGGTGATT
*
6414294 CGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATAATTTGTTTGAAAAAACGATTATGT
66 CGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATAATTTGTCTGAAAAAACGATTATGT
* * * * *
6414359 CTTTCAGATCTAAGAACGTGACATTCGTCCGATATAGATACAATCGTAACCTTCACCTTAATTTT
131 CTTTCAGATCTAAGAATGTGCCATTCATTCGATATAGATACGATCGTAACCTTCACCTTAATTTT
* * * * * * * *
6414424 AATTCATTTGGGAATAGATTCTTTCCCTCTTCTTTAAAGGATTACTTAAAAAAAGGAAGGTAATC
196 AATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATC
* * * * * *
6414489 AGTGTATGATGTATTTGTACAAAATTTTGATTATATTGCTTAGATTTGAGAATGTCTCATGTGTT
261 AATGTATGATGTATTT-CACAAAATTATGATTATATCGCTTAGATCTGAGAACGTCTCATGTGTT
*
6414554 GGAAAATAGGA
325 GG-AAGTAGGA
* * * *
6414565 CAATTGATGTTCCCATTATTAATTCTAGTTCTGTTAAGAAAAGTGAAAAAAAGTTATGGGTGATT
1 CAATTGTTGTTCCCATTATTGATTCTAGTTCTGTTTAGGAAAGTGAAAAAAAGTTATGGGTGATT
* *
6414630 CGATATTGTTAATTCAAA
66 CGATGTAGTTAATTCAAA
6414648 GTAGGAATGT
Statistics
Matches: 641, Mismatches: 97, Indels: 27
0.84 0.13 0.04
Matches are distributed among these distances:
333 39 0.06
334 315 0.49
335 49 0.08
336 233 0.36
337 5 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (334 bp):
CAATTGTTGTTCCCATTATTGATTCTAGTTCTGTTTAGGAAAGTGAAAAAAAGTTATGGGTGATT
CGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATAATTTGTCTGAAAAAACGATTATGT
CTTTCAGATCTAAGAATGTGCCATTCATTCGATATAGATACGATCGTAACCTTCACCTTAATTTT
AATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATC
AATGTATGATGTATTTCACAAAATTATGATTATATCGCTTAGATCTGAGAACGTCTCATGTGTTG
GAAGTAGGA
Found at i:6420931 original size:27 final size:28
Alignment explanation
Indices: 6420858--6420935 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 28
6420848 AGGGGATTGG
* *
6420858 TGATTTTACCGCATTATATGATA-TTGA
1 TGATTTTACTGCATTATATGTTATTTGA
* *
6420885 TGATTTTATTGCATTCTATGTTATTTGA
1 TGATTTTACTGCATTATATGTTATTTGA
6420913 TAGATTTT-CTGCATT-TATGTTAT
1 T-GATTTTACTGCATTATATGTTAT
6420936 ACGATGGCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
27 27 0.61
28 11 0.25
29 6 0.14
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (28 bp):
TGATTTTACTGCATTATATGTTATTTGA
Found at i:6429811 original size:33 final size:33
Alignment explanation
Indices: 6429755--6429915 Score: 223
Period size: 33 Copynumber: 4.9 Consensus size: 33
6429745 ACATGAGTGG
**
6429755 TTGGAACATCTATTAGGGCAGCTTCATCAATGA
1 TTGGAACATCTATCGGGGCAGCTTCATCAATGA
* * * *
6429788 TTGAAATATCTATCGGGGTAGCTTCATCATTGA
1 TTGGAACATCTATCGGGGCAGCTTCATCAATGA
* *
6429821 TTGGAACATCTATCAGGGCAGCTTCGTCAATGA
1 TTGGAACATCTATCGGGGCAGCTTCATCAATGA
*
6429854 TTGGAACATCTATCGGGGCAGCTTCATCATTGA
1 TTGGAACATCTATCGGGGCAGCTTCATCAATGA
* *
6429887 TTGGAACATCTATTGGGACAGCTTCATCA
1 TTGGAACATCTATCGGGGCAGCTTCATCA
6429916 TTCTGTTAGA
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 111 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (33 bp):
TTGGAACATCTATCGGGGCAGCTTCATCAATGA
Found at i:6429865 original size:66 final size:66
Alignment explanation
Indices: 6429755--6429915 Score: 252
Period size: 66 Copynumber: 2.4 Consensus size: 66
6429745 ACATGAGTGG
* * *
6429755 TTGGAACATCTATTAGGGCAGCTTCATCAATGATTGAAATATCTATCGGGGTAGCTTCATCATTG
1 TTGGAACATCTATCAGGGCAGCTTCATCAATGATTGAAACATCTATCGGGGCAGCTTCATCATTG
6429820 A
66 A
* *
6429821 TTGGAACATCTATCAGGGCAGCTTCGTCAATGATTGGAACATCTATCGGGGCAGCTTCATCATTG
1 TTGGAACATCTATCAGGGCAGCTTCATCAATGATTGAAACATCTATCGGGGCAGCTTCATCATTG
6429886 A
66 A
*
6429887 TTGGAACATCTAT-TGGGACAGCTTCATCA
1 TTGGAACATCTATCAGGG-CAGCTTCATCA
6429916 TTCTGTTAGA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
65 3 0.03
66 84 0.97
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (66 bp):
TTGGAACATCTATCAGGGCAGCTTCATCAATGATTGAAACATCTATCGGGGCAGCTTCATCATTG
A
Found at i:6435714 original size:16 final size:16
Alignment explanation
Indices: 6435695--6435733 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6435685 TTATTTCTCT
6435695 TTTTATTGAATTTTTA
1 TTTTATTGAATTTTTA
**
6435711 TTTTATTTTATTTTTA
1 TTTTATTGAATTTTTA
*
6435727 GTTTATT
1 TTTTATT
6435734 ATCATGTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTATTGAATTTTTA
Found at i:6435859 original size:11 final size:11
Alignment explanation
Indices: 6435822--6435860 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6435812 TTTCACGAGA
6435822 TTATTTTATTGT
1 TTATTTTA-TGT
*
6435834 TTATTTTATGA
1 TTATTTTATGT
*
6435845 TTATTTTGTGT
1 TTATTTTATGT
6435856 TTATT
1 TTATT
6435861 CTTTATTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (11 bp):
TTATTTTATGT
Found at i:6436342 original size:87 final size:88
Alignment explanation
Indices: 6436212--6436379 Score: 230
Period size: 87 Copynumber: 1.9 Consensus size: 88
6436202 CTTAAATTGA
* ** * * * *
6436212 ATTTATTTTATTTTTAGCCATAGGATTTAGATTTAGGTTTTTAATAGATTTTATTAGATTTTAGT
1 ATTTATTTTATTTTTAGCCATAAGATTTAGATTTAGGGCTTTAAGAGATTTAACTAGATTGTAGT
*
6436277 TTAGAATTTAGGTTATGGATCAG
66 TTAAAATTTAGGTTATGGATCAG
* * *
6436300 ATTTATTTTATTTTTAGCC-TAAGATTTATATTTTGGGCTTTAAGATATTTAACTAGATTGTAGT
1 ATTTATTTTATTTTTAGCCATAAGATTTAGATTTAGGGCTTTAAGAGATTTAACTAGATTGTAGT
6436364 TTAAAATTTAGGTTAT
66 TTAAAATTTAGGTTAT
6436380 TGATTGGATT
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 50 0.72
88 19 0.28
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.51
Consensus pattern (88 bp):
ATTTATTTTATTTTTAGCCATAAGATTTAGATTTAGGGCTTTAAGAGATTTAACTAGATTGTAGT
TTAAAATTTAGGTTATGGATCAG
Found at i:6440000 original size:88 final size:86
Alignment explanation
Indices: 6439875--6440234 Score: 335
Period size: 88 Copynumber: 4.1 Consensus size: 86
6439865 ATAAATTTTT
* * * *
6439875 AAATTAAATAAAATGTATTTCAGGATTTTTTCCCGCCGTTCAACAGATTTTATTCTCTATTTTGA
1 AAATTAAATAAAATCTATTTCAAGATTTATTCCCGCCGTTCAACAGATTTTATTC-CAATTTTGA
*
6439940 TTTTTATTTCCAAATGAATTTTA
65 -TTTTATTTCCAAATGAATATTA
* * * ** * *
6439963 AAACTAAACAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTTA
1 AAATTAAATAAAATCTATTTCAAGATTTATTCCCGCCGTTCAACAGATTTTATTCCA-ATTTTGA
*
6440028 TTTTATTTCCAAACGGGAA-ATTA
65 TTTTATTTCCAAA--TGAATATTA
* * * * * *
6440051 AAGTTAAATAAAATCCATTTCAAGATTTATTCCCGTCGTTCAACGGATTTCATACCAATTTTGAT
1 AAATTAAATAAAATCTATTTCAAGATTTATTCCCGCCGTTCAACAGATTTTATTCCAATTTTGAT
**
6440116 TTTATTTCCAAAACAAGTATTA
66 TTTATTTCCAAATGAA-TATTA
* * * * * * ** *
6440138 AAATTAAAATAAAATATGTTTCGATATTTATTCTCGTCGTTCAATGGATTTTATTCTAATTTTGA
1 AAATT-AAATAAAATCTATTTCAAGATTTATTCCCGCCGTTCAACAGATTTTATTCCAATTTTGA
* * *
6440203 TTTAATTTCCAAAAAGGAGTATTA
65 TTTTATTTCC--AAATGAATATTA
6440227 AAATTAAA
1 AAATTAAA
6440235 ATAGATTTAG
Statistics
Matches: 223, Mismatches: 41, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
85 2 0.01
87 40 0.18
88 164 0.74
89 13 0.06
90 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (86 bp):
AAATTAAATAAAATCTATTTCAAGATTTATTCCCGCCGTTCAACAGATTTTATTCCAATTTTGAT
TTTATTTCCAAATGAATATTA
Found at i:6440160 original size:176 final size:174
Alignment explanation
Indices: 6439873--6440215 Score: 411
Period size: 176 Copynumber: 2.0 Consensus size: 174
6439863 AAATAAATTT
** * * * * *
6439873 TTAAATTAAATAAAATGTATTTCAGGATTTTTTCCCGCCGTTCAACAGATTTTATTCTCTATTTT
1 TTAAATTAAATAAAATCCATTTCAAGATTTATTCCCGCCGTTCAACAGATTTCATACTCAATTTT
** * * *
6439938 GATTTTTATTTCCAAATGAATTTTAAAACTAAACAAAATCTGTTTCGGGATTTATTCCCGCCGTT
66 GATTTTTATTTCCAAAACAATATTAAAACTAAACAAAATATGTTTCGAGATTTATTCCCGCCGTT
* * *
6440003 CAACAGATTTTATTCCATTTTTTTATTTTATTTCCAAACGGGAAA
131 CAACAGATTTTATTCCA-ATTTTGATTTAATTTCCAAACGGGAAA
* *
6440048 TTAAAGTTAAATAAAATCCATTTCAAGATTTATTCCCGTCGTTCAACGGATTTCATAC-CAATTT
1 TTAAA-TTAAATAAAATCCATTTCAAGATTTATTCCCGCCGTTCAACAGATTTCATACTCAATTT
* * * * *
6440112 TGA-TTTTATTTCCAAAACAAGTATTAAAATTAAAATAAAATATGTTTCGATATTTATTCTCGTC
65 TGATTTTTATTTCCAAAACAA-TATTAAAACT-AAACAAAATATGTTTCGAGATTTATTCCCGCC
** *
6440176 GTTCAATGGATTTTATTCTAATTTTGATTTAATTTCCAAA
128 GTTCAACAGATTTTATTCCAATTTTGATTTAATTTCCAAA
6440216 AAGGAGTATT
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
174 15 0.11
175 38 0.27
176 87 0.62
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (174 bp):
TTAAATTAAATAAAATCCATTTCAAGATTTATTCCCGCCGTTCAACAGATTTCATACTCAATTTT
GATTTTTATTTCCAAAACAATATTAAAACTAAACAAAATATGTTTCGAGATTTATTCCCGCCGTT
CAACAGATTTTATTCCAATTTTGATTTAATTTCCAAACGGGAAA
Found at i:6442287 original size:33 final size:33
Alignment explanation
Indices: 6442244--6442402 Score: 221
Period size: 33 Copynumber: 4.8 Consensus size: 33
6442234 TCAACATAAG
6442244 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
* * ** *
6442277 TGATTCGAACATTTATTGGGGCAGCTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
* *
6442310 TGATTGGAACATCTATCAAGGAAGCTTCATCAA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
*
6442343 TGATTGGAACATCTATC-GAGGCAGCTTCATCAT
1 TGATTGGAACATCTATCAG-GGCAGCTTCATCAA
*
6442376 TGATTGGAACATCTATTAGGGCAGCTT
1 TGATTGGAACATCTATCAGGGCAGCTT
6442403 TACCATTCTG
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
33 107 0.99
34 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (33 bp):
TGATTGGAACATCTATCAGGGCAGCTTCATCAA
Found at i:6442326 original size:66 final size:66
Alignment explanation
Indices: 6442244--6442402 Score: 255
Period size: 66 Copynumber: 2.4 Consensus size: 66
6442234 TCAACATAAG
* * *
6442244 TGATTGGAACATCTATCAGGGCAGCTTCATCAATGATTCGAACATTTATTGGGGCAGCTTCATCA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAATGATTCGAACATCTATCGAGGCAGCTTCATCA
6442309 T
66 T
* * *
6442310 TGATTGGAACATCTATCAAGGAAGCTTCATCAATGATTGGAACATCTATCGAGGCAGCTTCATCA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAATGATTCGAACATCTATCGAGGCAGCTTCATCA
6442375 T
66 T
*
6442376 TGATTGGAACATCTATTAGGGCAGCTT
1 TGATTGGAACATCTATCAGGGCAGCTT
6442403 TACCATTCTG
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 84 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (66 bp):
TGATTGGAACATCTATCAGGGCAGCTTCATCAATGATTCGAACATCTATCGAGGCAGCTTCATCA
T
Found at i:6449971 original size:19 final size:19
Alignment explanation
Indices: 6449944--6449982 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6449934 CCCTGTTTTA
6449944 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
*
6449963 CCCTTTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
6449982 C
1 C
6449983 TTCCTTCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.46, G:0.10, T:0.44
Consensus pattern (19 bp):
CCCTCTGCCTCTTCTGTTC
Found at i:6454164 original size:45 final size:44
Alignment explanation
Indices: 6454064--6454173 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
6454054 TTTTCCATTA
6454064 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
6454103 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
6454148 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
6454174 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:6454173 original size:16 final size:16
Alignment explanation
Indices: 6454152--6454189 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
6454142 TTGATTTGCT
*
6454152 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
6454168 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
6454184 AATACA
1 ATTACA
6454190 GTGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:6465462 original size:41 final size:41
Alignment explanation
Indices: 6465390--6465630 Score: 184
Period size: 41 Copynumber: 5.9 Consensus size: 41
6465380 TAAATTATTT
* * *
6465390 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACTGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTCCTCAAAAACACTGC
* * *
6465431 TAAAGCCCAGAGCATTAGCGGCGTTTCCTCAAAAGC-GTCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTCCTCAAAAACACT-GC
* * * * *
6465472 TAAATCCCTGAGCATTAGCAGCACTTTCC-CAAAAA-AGCGGC
1 TAAAGCCCAGAGCATTAGCGGCGC-TTCCTCAAAAACA-CTGC
* * * * * *
6465513 TAATGCTCAGGGCTTTAGCGGCGCTTCCCCAAAAACGCTGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTCCTCAAAAACACTGC
** * * * *
6465554 TAAAGCCTTGAGCATTAGCAGCACTTCCCCAAAAAACACCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTCCTC-AAAAACACTGC
* *
6465596 TAAAGCCTTA-AGCATTAGTGGCGCTTCCTCAAAAA
1 TAAAGCC-CAGAGCATTAGCGGCGCTTCCTCAAAAA
6465631 TGCCGCTAAA
Statistics
Matches: 153, Mismatches: 39, Indels: 16
0.74 0.19 0.08
Matches are distributed among these distances:
40 5 0.03
41 111 0.73
42 36 0.24
43 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (41 bp):
TAAAGCCCAGAGCATTAGCGGCGCTTCCTCAAAAACACTGC
Found at i:6465531 original size:82 final size:81
Alignment explanation
Indices: 6465390--6465644 Score: 262
Period size: 82 Copynumber: 3.1 Consensus size: 81
6465380 TAAATTATTT
* * * * *
6465390 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACTGCTAAAGCCCAGAGCATTAGCGGCGT
1 TAAATCCCTGAGCATTAGCAGCACTTTCCCAAAAA-ACGGCTAAAGCCCAGAGCATTAGCGGCGC
* *
6465455 TTCCTCAAAAGCG-TCGC
65 TTCCCCAAAAACGCT-GC
* * * *
6465472 TAAATCCCTGAGCATTAGCAGCACTTTCCCAAAAAAGCGGCTAATGCTCAGGGCTTTAGCGGCGC
1 TAAATCCCTGAGCATTAGCAGCACTTTCCCAAAAAA-CGGCTAAAGCCCAGAGCATTAGCGGCGC
6465537 TTCCCCAAAAACGCTGC
65 TTCCCCAAAAACGCTGC
* * * * * *
6465554 TAAAGCCTTGAGCATTAGCAGCACTTCCCCAAAAAACACCGCTAAAGCCTTA-AGCATTAGTGGC
1 TAAATCCCTGAGCATTAGCAGCACTTTCCC-AAAAA-ACGGCTAAAGCC-CAGAGCATTAGCGGC
* * *
6465618 GCTTCCTCAAAAATGCCGC
63 GCTTCCCCAAAAACGCTGC
6465637 TAAATCCC
1 TAAATCCC
6465645 CGAAAGCTCA
Statistics
Matches: 142, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
81 1 0.01
82 94 0.66
83 45 0.32
84 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (81 bp):
TAAATCCCTGAGCATTAGCAGCACTTTCCCAAAAAACGGCTAAAGCCCAGAGCATTAGCGGCGCT
TCCCCAAAAACGCTGC
Found at i:6465630 original size:123 final size:124
Alignment explanation
Indices: 6465404--6465639 Score: 262
Period size: 123 Copynumber: 1.9 Consensus size: 124
6465394 TCCCTGAGCA
* * * ** * * **
6465404 TTAGCGGCGCTTTCTCAAAAACACTGCTAAAGCCCAGAGCATTAGCGGCGTTTCCTCAAAAGCGT
1 TTAGCGGCGCTTCCCCAAAAACACTGCTAAAGCCCAGAGCATTAGCAGCACTTCCCCAAAAACAC
* * *
6465469 CGCTAAATCCCTGAGCATTAGCAGCACTTTCCCAAAAAA-GCGGCTAATGCTCAGGGCT
66 CGCTAAAGCCCTAAGCATTAGCAGCACTTTCCCAAAAAATGCCGCTAATGCTCAGGGCT
* **
6465527 TTAGCGGCGCTTCCCCAAAAACGCTGCTAAAGCCTTGAGCATTAGCAGCACTTCCCCAAAAAACA
1 TTAGCGGCGCTTCCCCAAAAACACTGCTAAAGCCCAGAGCATTAGCAGCACTTCCCC-AAAAACA
* ** *
6465592 CCGCTAAAGCCTTAAGCATTAGTGGCGC-TTCCTC-AAAAATGCCGCTAA
65 CCGCTAAAGCCCTAAGCATTAGCAGCACTTTCC-CAAAAAATGCCGCTAA
6465640 ATCCCCGAAA
Statistics
Matches: 91, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
123 57 0.63
124 34 0.37
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (124 bp):
TTAGCGGCGCTTCCCCAAAAACACTGCTAAAGCCCAGAGCATTAGCAGCACTTCCCCAAAAACAC
CGCTAAAGCCCTAAGCATTAGCAGCACTTTCCCAAAAAATGCCGCTAATGCTCAGGGCT
Found at i:6468118 original size:13 final size:14
Alignment explanation
Indices: 6468100--6468134 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6468090 TTTGGTTCAG
*
6468100 TTAGATTT-CATAT
1 TTAGATTTCCAAAT
6468113 TTAGATTTCCAAAT
1 TTAGATTTCCAAAT
6468127 TTAGATTT
1 TTAGATTT
6468135 TCCTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (14 bp):
TTAGATTTCCAAAT
Found at i:6474687 original size:16 final size:16
Alignment explanation
Indices: 6474666--6474708 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
6474656 ACTGTGAAAA
*
6474666 AAAACTATAGACTGAG
1 AAAACTATAGAATGAG
* *
6474682 AAAACTGTAGAATGTG
1 AAAACTATAGAATGAG
*
6474698 AAAACTCTAGA
1 AAAACTATAGA
6474709 TAATGAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.21
Consensus pattern (16 bp):
AAAACTATAGAATGAG
Found at i:6476496 original size:27 final size:27
Alignment explanation
Indices: 6476458--6476665 Score: 245
Period size: 27 Copynumber: 7.7 Consensus size: 27
6476448 CGATTCATGC
*
6476458 TAAAATGACCGAAATACCCTCAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
6476485 TAAAATGACCGAAATACCCTCAAAGGT
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
6476512 TAAATTGATCGAAATACCCCCGAAGGA
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
6476539 TAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
6476566 TAAAATGACTGAAATACCCTCAAAGGT
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
6476593 TAAATTGATCGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** * *
6476620 TAAAATGATTGAAATACCCCCGCAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
6476647 TAAAATGACCGAAATACCC
1 TAAAATGACCGAAATACCC
6476666 AAAATACCCT
Statistics
Matches: 155, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:6476530 original size:54 final size:54
Alignment explanation
Indices: 6476458--6477067 Score: 627
Period size: 54 Copynumber: 11.1 Consensus size: 54
6476448 CGATTCATGC
* * * *
6476458 TAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCGAAATACCCTCAAAGGT
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * * *
6476512 TAAATTGATCGAAATACCCCCGAAGGATAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * * *
6476566 TAAAATGA-CTGAAATACCCTCAAAGGTTAAATTGATCGAAATACCCCCGAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * *
6476620 TAAAATGATTGAAATACCCCCGCAGGGTAAAATGACCGAAATACCCAAAATACCCTGGAAAGTG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCC----T---C--G-AAGGG
* * * * *
6476684 TAAAATGA-CTGAAATACTCGCGAATGGTAAAATGACCAAAATACCCTCAAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* ** *
6476738 TAAAATGATCGAAATATCCTCGAAGGGTAAAATGACTAAAATATCCTCGAA-GG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * * *
6476791 TAAAATGATCGAAGTACCCTTGAAGGGTAAAACGAGCGAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* ***
6476845 TAAAATGA-CTAAAATACCCTCGAAGGGTAAAATGATTAAAATACCCTCGAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * * *
6476899 TAAAATGATTGAAATACCCCCGAAGGGTAAAATGATCGAAATACCCTCAAAAGG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * * * *
6476953 TAAAATGATCGAAATATCCTCAAAGGGTAAAATGATCGAAATACCCCCAAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
* * *
6477007 TAAAATGATCGAAATACCC-CAAAAGGTAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
6477060 TAAAATGA
1 TAAAATGA
6477068 CTGATATACC
Statistics
Matches: 461, Mismatches: 78, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
53 83 0.18
54 330 0.72
55 1 0.00
57 1 0.00
60 1 0.00
61 1 0.00
63 1 0.00
64 43 0.09
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (54 bp):
TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGG
Found at i:6476593 original size:81 final size:80
Alignment explanation
Indices: 6476458--6477078 Score: 574
Period size: 81 Copynumber: 7.6 Consensus size: 80
6476448 CGATTCATGC
* * * * *
6476458 TAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCGAAATACCCTCAAAGGTTAAATTGATCG
1 TAAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGATCG
6476523 AAATACCCCCGAAGG
66 AAATACCCCCGAAGG
* * *
6476538 ATAAAATGACTGAAATACCCTTGAAGGGTAAAATGACTGAAATACCCTCAAAGGTTAAATTGATC
1 -TAAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGATC
6476603 GAAATACCCCCGAAGGG
65 GAAATACCCCCGAA-GG
* * * * *
6476620 TAAAATGATTGAAATACCCCCGCAGGGTAAAATGACCGAAATACCCAAAATACCCTGGAAAGTGT
1 TAAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCC----T---C---AAAGGGT
* *
6476685 AAAATGA-CTGAAATACTCGCGAATGG
56 AAAATGATC-GAAATACCCCCGAA-GG
** * * *
6476711 TAAAATGACCAAAATACCCTCAAAGGGTAAAATGA-TCGAAATATCCTCGAAGGGTAAAATGA-C
1 TAAAATGACTGAAATACCCTCGAAGGGTAAAATGACT-GAAATACCCTCAAAGGGTAAAATGATC
* * *
6476774 TAAAATATCCTCGAAGG
65 -GAAATACCCCCGAAGG
* * * **
6476791 TAAAATGA-TCGAAGTACCCTTGAAGGGTAAAACGAGC-GAAATACCCTTGAAGGGTAAAATGA-
1 TAAAATGACT-GAAATACCCTCGAAGGGTAAAATGA-CTGAAATACCCTCAAAGGGTAAAATGAT
* *
6476853 CTAAAATACCCTCGAAGGG
64 C-GAAATACCCCCGAA-GG
* * * * *
6476872 TAAAATGATTAAAATACCCTCGAAGGGTAAAATGATTGAAATACCCCCGAAGGGTAAAATGATCG
1 TAAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGATCG
**
6476937 AAATACCCTCAAAAGG
66 AAATACCC-CCGAAGG
* * *
6476953 TAAAATGA-TCGAAATATCCTCAAAGGGTAAAATGA-TCGAAATACCCCCAAAGGGTAAAATGAT
1 TAAAATGACT-GAAATACCCTCGAAGGGTAAAATGACT-GAAATACCCTCAAAGGGTAAAATGAT
**
6477016 CGAAATACCCCAAAAGG
64 CGAAATACCCCCGAAGG
** *
6477033 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACTGATATACCC
1 TAAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCC
6477079 CTAGGAATTA
Statistics
Matches: 457, Mismatches: 58, Indels: 51
0.81 0.10 0.09
Matches are distributed among these distances:
80 115 0.25
81 269 0.59
82 6 0.01
84 1 0.00
85 1 0.00
87 1 0.00
88 1 0.00
90 1 0.00
91 62 0.14
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (80 bp):
TAAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGATCG
AAATACCCCCGAAGG
Found at i:6476717 original size:27 final size:27
Alignment explanation
Indices: 6476667--6477078 Score: 410
Period size: 27 Copynumber: 15.3 Consensus size: 27
6476657 GAAATACCCA
* *
6476667 AAATACCCTGGAAAGTGTAAAATGACTG
1 AAATACCCTCG-AAGGGTAAAATGACTG
* * * **
6476695 AAATACTCGCGAATGGTAAAATGACCA
1 AAATACCCTCGAAGGGTAAAATGACTG
*
6476722 AAATACCCTCAAAGGGTAAAATGA-TCG
1 AAATACCCTCGAAGGGTAAAATGACT-G
* *
6476749 AAATATCCTCGAAGGGTAAAATGACTA
1 AAATACCCTCGAAGGGTAAAATGACTG
*
6476776 AAATATCCTCGAA-GGTAAAATGA-TCG
1 AAATACCCTCGAAGGGTAAAATGACT-G
* * *
6476802 AAGTACCCTTGAAGGGTAAAACGAGC-G
1 AAATACCCTCGAAGGGTAAAATGA-CTG
* *
6476829 AAATACCCTTGAAGGGTAAAATGACTA
1 AAATACCCTCGAAGGGTAAAATGACTG
* *
6476856 AAATACCCTCGAAGGGTAAAATGATTA
1 AAATACCCTCGAAGGGTAAAATGACTG
*
6476883 AAATACCCTCGAAGGGTAAAATGATTG
1 AAATACCCTCGAAGGGTAAAATGACTG
*
6476910 AAATACCCCCGAAGGGTAAAATGA-TCG
1 AAATACCCTCGAAGGGTAAAATGACT-G
* *
6476937 AAATACCCTCAAAAGGTAAAATGA-TCG
1 AAATACCCTCGAAGGGTAAAATGACT-G
* *
6476964 AAATATCCTCAAAGGGTAAAATGA-TCG
1 AAATACCCTCGAAGGGTAAAATGACT-G
* *
6476991 AAATACCCCCAAAGGGTAAAATGA-TCG
1 AAATACCCTCGAAGGGTAAAATGACT-G
* * **
6477018 AAATACCC-CAAAAGGTAAAATGACCA
1 AAATACCCTCGAAGGGTAAAATGACTG
6477044 AAATACCCTCGAAGGGTAAAATGACTG
1 AAATACCCTCGAAGGGTAAAATGACTG
*
6477071 ATATACCC
1 AAATACCC
6477079 CTAGGAATTA
Statistics
Matches: 331, Mismatches: 43, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.00
26 44 0.13
27 277 0.84
28 9 0.03
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATGACTG
Found at i:6477451 original size:28 final size:30
Alignment explanation
Indices: 6477410--6477494 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
6477400 CATTGTACTG
*
6477410 ATTACTATATTGGGCTAAGGCCCACA-A-T
1 ATTACTGTATTGGGCTAAGGCCCACACACT
* *
6477438 GTTACTGTATTGGGCTAAGACCCACACACT
1 ATTACTGTATTGGGCTAAGGCCCACACACT
*
6477468 ATTACTGTAATGGGCTAAGGCCCACAC
1 ATTACTGTATTGGGCTAAGGCCCACAC
6477495 TGCACTGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 23 0.47
29 1 0.02
30 25 0.51
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (30 bp):
ATTACTGTATTGGGCTAAGGCCCACACACT
Found at i:6478316 original size:17 final size:17
Alignment explanation
Indices: 6478296--6478331 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6478286 CTTAAATTAG
*
6478296 GGAAAACTAAGACTGTA
1 GGAAAACTAAAACTGTA
6478313 GGAAAACTAAAACTGTA
1 GGAAAACTAAAACTGTA
6478330 GG
1 GG
6478332 TAGACTCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.25, T:0.17
Consensus pattern (17 bp):
GGAAAACTAAAACTGTA
Found at i:6484045 original size:27 final size:26
Alignment explanation
Indices: 6484007--6484658 Score: 619
Period size: 27 Copynumber: 24.3 Consensus size: 26
6483997 TACAATTCGT
6484007 GGTAAAATGACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCTCA-AG
*
6484034 GGTAAAATGACCGAAATACCCCCGAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
* * *
6484061 GTTAAAATTACCGATATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
* *
6484088 GGTAAAATGACCGAAATATCCTTGAAG
1 GGTAAAATGACCGAAATA-CCCTCAAG
* *
6484115 GGTAAAATGACCGATATACCCTTGAAG
1 GGTAAAATGACCGAAATACCC-TCAAG
** * *
6484142 GGTAAAATGACTAAAATACCCCTGAAA
1 GGTAAAATGACCGAAATA-CCCTCAAG
*
6484169 GGTAAAATGATCGAAATACCCTCAAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
**
6484196 GG-AAAATGACTAAAATACCCTCAACG
1 GGTAAAATGACCGAAATACCCTCAA-G
**
6484222 GGTAAAATGATTGAAATA-CCTCGAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
* * *
6484248 GATAAAAATTACCGATATACCCTCGAAG
1 GGT-AAAATGACCGAAATACCCTC-AAG
* *
6484276 GGTAAAATGACCGAAATATCCTTGAAG
1 GGTAAAATGACCGAAATA-CCCTCAAG
* *
6484303 GGTAAAATGACCGATATACCCTTGAAG
1 GGTAAAATGACCGAAATACCC-TCAAG
** * *
6484330 GGTAAAATGACTAAAATACCCCTGAAA
1 GGTAAAATGACCGAAATA-CCCTCAAG
*
6484357 GGTAAAATGATCGAAATACCCTCAAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
**
6484384 GG-AAAATGACTAAAATACCCTCAACG
1 GGTAAAATGACCGAAATACCCTCAA-G
**
6484410 GGTAAAATGATTGAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
* ** * *
6484437 GATAAAATGATTGAAATACCTTCGAAA
1 GGTAAAATGACCGAAATACCCTC-AAG
** * *
6484464 GGTAAAATGATTGAAATACCCCCGAAT
1 GGTAAAATGACCGAAATACCCTC-AAG
6484491 GGTAAAATGACCGAAATACCCTCAAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
*
6484518 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
*
6484545 GGTAAAATGACCGAAATATCCTCGAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
* ** *
6484572 AGTAAAATGATAGAAATACCC-AAAG
1 GGTAAAATGACCGAAATACCCTCAAG
*
6484597 GGTAAAATGACCTAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTC-AAG
6484624 GGTAAAATGACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCTCA-AG
6484651 GGTAAAAT
1 GGTAAAAT
6484659 TACTAATATA
Statistics
Matches: 526, Mismatches: 79, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
25 24 0.05
26 60 0.11
27 417 0.79
28 25 0.05
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCTCAAG
Found at i:6484327 original size:188 final size:188
Alignment explanation
Indices: 6484010--6484658 Score: 891
Period size: 188 Copynumber: 3.5 Consensus size: 188
6484000 AATTCGTGGT
** * * * *
6484010 AAAATGACCGAAATACCCTCATA-GGGTAAAATGACCGAAATACCCCCGAAGGTTAAAATTACCG
1 AAAATGACTAAAATACCCTCA-ACGGGTAAAATGACTGAAATACCCTCGAAGGATAAAATGACCG
*
6484074 ATATACCCTCGAAGGGTAAAATGACCGAAATATCCTTGAAGGGTAAAATGACCGATATACCCTTG
65 AAATACCCTCGAAGGGTAAAATGACCGAAATATCCTTGAAGGGTAAAATGACCGATATACCCTTG
6484139 AAGGGTAAAATGACTAAAATACCCCTGAAAGGTAAAATGATCGAAATACCCTCAAAGGG
130 AAGGGTAAAATGACTAAAATACCCCTGAAAGGTAAAATGATCGAAATACCCTCAAAGGG
* *
6484198 AAAATGACTAAAATACCCTCAACGGGTAAAATGATTGAAATA-CCTCGAAGGATAAAAATTACCG
1 AAAATGACTAAAATACCCTCAACGGGTAAAATGACTGAAATACCCTCGAAGGAT-AAAATGACCG
*
6484262 ATATACCCTCGAAGGGTAAAATGACCGAAATATCCTTGAAGGGTAAAATGACCGATATACCCTTG
65 AAATACCCTCGAAGGGTAAAATGACCGAAATATCCTTGAAGGGTAAAATGACCGATATACCCTTG
6484327 AAGGGTAAAATGACTAAAATACCCCTGAAAGGTAAAATGATCGAAATACCCTCAAAGGG
130 AAGGGTAAAATGACTAAAATACCCCTGAAAGGTAAAATGATCGAAATACCCTCAAAGGG
* **
6484386 AAAATGACTAAAATACCCTCAACGGGTAAAATGATTGAAATACCCTCGAAGGATAAAATGATTGA
1 AAAATGACTAAAATACCCTCAACGGGTAAAATGACTGAAATACCCTCGAAGGATAAAATGACCGA
* * ** * ** * * **
6484451 AATACCTTCGAAAGGTAAAATGATTGAAATACCCCCGAATGGTAAAATGACCGAAATACCCTCAA
66 AATACCCTCGAAGGGTAAAATGACCGAAATATCCTTGAAGGGTAAAATGACCGATATACCCTTGA
* * * * * *
6484516 AGGGTAAAATGACTGAAATA-CCCTCGAAGGGTAAAATGACCGAAATATCCTCGAAGAGT
131 AGGGTAAAATGACTAAAATACCCCT-GAAAGGTAAAATGATCGAAATACCCTCAAAG-GG
* *
6484575 AAAATGA-TAGAAATA-CC-CAAAGGGTAAAATGACCT-AAATACCCTCGAAGGGTAAAATGACC
1 AAAATGACTA-AAATACCCTCAACGGGTAAAATGA-CTGAAATACCCTCGAAGGATAAAATGACC
6484636 GAAATACCCTC-ATAGGGTAAAAT
64 GAAATACCCTCGA-AGGGTAAAAT
6484659 TACTAATATA
Statistics
Matches: 419, Mismatches: 34, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
186 1 0.00
187 70 0.17
188 324 0.77
189 24 0.06
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (188 bp):
AAAATGACTAAAATACCCTCAACGGGTAAAATGACTGAAATACCCTCGAAGGATAAAATGACCGA
AATACCCTCGAAGGGTAAAATGACCGAAATATCCTTGAAGGGTAAAATGACCGATATACCCTTGA
AGGGTAAAATGACTAAAATACCCCTGAAAGGTAAAATGATCGAAATACCCTCAAAGGG
Found at i:6484870 original size:26 final size:26
Alignment explanation
Indices: 6484836--6484910 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 26
6484826 TTGCCACAAA
* *
6484836 TACTATTACTGGCAGCTCTGCTGCGT
1 TACTATTACTAGAAGCTCTGCTGCGT
* *
6484862 TACTGTTACTAGAAGCTTTGCTGCGT
1 TACTATTACTAGAAGCTCTGCTGCGT
* * * * *
6484888 CACTAGTACCAGTAGCTTTGCTG
1 TACTATTACTAGAAGCTCTGCTG
6484911 TGATATTGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
TACTATTACTAGAAGCTCTGCTGCGT
Found at i:6485053 original size:28 final size:28
Alignment explanation
Indices: 6485016--6485106 Score: 110
Period size: 28 Copynumber: 3.1 Consensus size: 28
6485006 ATTGCATTAT
* * *
6485016 ACTGATTACTATATTAGGCTAAGGCCCTC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
*
6485045 ACTGTTACTGTATTGGGCTAAGACCCACAC
1 ACTGTTACTGTATTGGGCTAAG-GCC-CAC
*
6485075 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
6485103 ACTG
1 ACTG
6485107 CACTGATACT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 23 0.43
29 8 0.15
30 23 0.43
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:6485080 original size:30 final size:30
Alignment explanation
Indices: 6485044--6485104 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
6485034 CTAAGGCCCT
*
6485044 CACTGTTACTGTATTGGGCTAAGACCCACA
1 CACTGTTACTGTAATGGGCTAAGACCCACA
*
6485074 CACTGTTACTGTAATGGGCTAAGGCCCACA
1 CACTGTTACTGTAATGGGCTAAGACCCACA
6485104 C
1 C
6485105 TGCACTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (30 bp):
CACTGTTACTGTAATGGGCTAAGACCCACA
Found at i:6486233 original size:28 final size:29
Alignment explanation
Indices: 6486176--6486233 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
6486166 TTTAAATAAA
* *
6486176 TATGGACTTTTATTTATGATTTGGATTTT
1 TATGGACTTTTATTGATGATTTGGACTTT
*
6486205 TATGGAC-TTTATTGCTG-TTTGAGACTTT
1 TATGGACTTTTATTGATGATTTG-GACTTT
6486233 T
1 T
6486234 TATTTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.16
28 14 0.56
29 7 0.28
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.55
Consensus pattern (29 bp):
TATGGACTTTTATTGATGATTTGGACTTT
Found at i:6486233 original size:29 final size:29
Alignment explanation
Indices: 6486176--6486236 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
6486166 TTTAAATAAA
*
6486176 TATGGACTTTTATTTATGATTTGGATTTT
1 TATGGACTTTTATTGATGATTTGGATTTT
*
6486205 TATGGAC-TTTATTGCTG-TTTGAGACTTTT
1 TATGGACTTTTATTGATGATTTG-GA-TTTT
6486234 TAT
1 TAT
6486237 TTTAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.14
28 10 0.36
29 14 0.50
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.56
Consensus pattern (29 bp):
TATGGACTTTTATTGATGATTTGGATTTT
Found at i:6488443 original size:21 final size:22
Alignment explanation
Indices: 6488412--6488452 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6488402 ATTGCACAAA
6488412 CAAAACATTAAAACATACATTT
1 CAAAACATTAAAACATACATTT
* *
6488434 CAAAA-ATTAATATATACAT
1 CAAAACATTAAAACATACAT
6488453 AACATAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (22 bp):
CAAAACATTAAAACATACATTT
Found at i:6501079 original size:25 final size:25
Alignment explanation
Indices: 6501037--6501090 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
6501027 TTTTCTCAAA
*
6501037 AATTTAATTAATATAAAATATTA-AT
1 AATTTAATAAATATAAAA-ATTAGAT
6501062 AATTTAATAAAT-TGAAAAATTAGAT
1 AATTTAATAAATAT-AAAAATTAGAT
6501087 AATT
1 AATT
6501091 AAATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
AATTTAATAAATATAAAAATTAGAT
Found at i:6501673 original size:16 final size:15
Alignment explanation
Indices: 6501654--6501695 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6501644 AAAGCTGATA
6501654 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
6501670 ATAATGAATATAATT
1 ATAATTAATATAATT
6501685 ATATATTAATA
1 ATA-ATTAATA
6501696 ATGATCATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:6501814 original size:30 final size:30
Alignment explanation
Indices: 6501757--6501818 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
6501747 GCTTTTTGAA
* *
6501757 AATATATACAAAAAGAGGCATCTAATTTTT
1 AATATATACAAAAAGAGGCACCAAATTTTT
*
6501787 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATATACAAAAAGAGGC-ACCAAATTTTT
6501817 AA
1 AA
6501819 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATATACAAAAAGAGGCACCAAATTTTT
Found at i:6508168 original size:27 final size:26
Alignment explanation
Indices: 6508137--6508198 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
6508127 AAAGGTTTTT
** *
6508137 AAATGACTGAAATACCCTTGAAGGGTA
1 AAATGACCAAAATACCCCT-AAGGGTA
*
6508164 AAATGACCAAAATACCCCTAGGGGTA
1 AAATGACCAAAATACCCCTAAGGGTA
*
6508190 AAATTACCA
1 AAATGACCA
6508199 TTTTACCCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (26 bp):
AAATGACCAAAATACCCCTAAGGGTA
Found at i:6508426 original size:22 final size:21
Alignment explanation
Indices: 6508364--6508430 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
6508354 GGAGGAAGTG
*
6508364 TATGGCTTGTAGCCATTCTGT
1 TATGGCTTTTAGCCATTCTGT
* *
6508385 TCAAGGCTTATT-GCCTTTCTGCT
1 T-ATGGCTT-TTAGCCATTCTG-T
6508408 TATGGCTTTTAGCCATTCTGT
1 TATGGCTTTTAGCCATTCTGT
6508429 TA
1 TA
6508431 ACTGGCAGCG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
21 6 0.16
22 28 0.76
23 3 0.08
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (21 bp):
TATGGCTTTTAGCCATTCTGT
Found at i:6508464 original size:46 final size:46
Alignment explanation
Indices: 6508406--6508520 Score: 167
Period size: 46 Copynumber: 2.5 Consensus size: 46
6508396 TGCCTTTCTG
* * * *
6508406 CTTATGGCTTTTAGCCATTCTGTTAACTGGCAGCGTTGCTGCGATA
1 CTTATGGCTTTTAGCCGTTCTGTTAACTGGCAGCATCGCTGCAATA
*
6508452 CTTATGGCTTTTAGCCGTTCTATTAACTGGCAGCATCGCTGCAATA
1 CTTATGGCTTTTAGCCGTTCTGTTAACTGGCAGCATCGCTGCAATA
* *
6508498 CTTATGGTTTTTAGTCGTTCTGT
1 CTTATGGCTTTTAGCCGTTCTGT
6508521 CTACGGTATC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (46 bp):
CTTATGGCTTTTAGCCGTTCTGTTAACTGGCAGCATCGCTGCAATA
Found at i:6511377 original size:20 final size:19
Alignment explanation
Indices: 6511354--6511400 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
6511344 AAACGAAAAG
6511354 AAATTAACCTAACATGAATT
1 AAATTAACCTAA-ATGAATT
* *
6511374 AAATTCAAGCTAAATTAATT
1 AAATT-AACCTAAATGAATT
6511394 AAATTAA
1 AAATTAA
6511401 TCATTGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 16 0.67
21 6 0.25
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (19 bp):
AAATTAACCTAAATGAATT
Found at i:6530949 original size:28 final size:28
Alignment explanation
Indices: 6530913--6530974 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
6530903 CAGTAGAAGT
6530913 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
6530941 ACAGTGTGGGCCTTAGCCTAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
6530969 ATCAGT
1 A-CAGT
6530975 ACAATGCAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:6531154 original size:26 final size:25
Alignment explanation
Indices: 6531080--6531156 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 25
6531070 ACGCCAATAT
* *
6531080 TGCAGCAAAGCTGGCAGTAATAATGA
1 TGCAGCAAAGCT-GCAGTAATAGTAA
* *
6531106 CGCAGCAAAGCTTCCAGTAATAGTAA
1 TGCAGCAAAGC-TGCAGTAATAGTAA
6531132 TGCAGCAAAGCTGCTAGTAATAGTA
1 TGCAGCAAAGCTGC-AGTAATAGTA
6531157 TATGTTGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.05
26 40 0.93
27 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (25 bp):
TGCAGCAAAGCTGCAGTAATAGTAA
Found at i:6531771 original size:27 final size:27
Alignment explanation
Indices: 6531348--6531770 Score: 499
Period size: 27 Copynumber: 15.7 Consensus size: 27
6531338 TACCTTATGG
* *
6531348 GGGTATTTCGGTCATTTTACCCTTTGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
** *
6531375 GGGTATTTCAATCATTTTACCCTACGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
6531402 GGTTATTTCAGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** *
6531429 GGGTATTTCAATCATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
6531456 GGGTACTTCAGTCATTTTACCCTTTGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
6531483 GGGTATTTCGGTTATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
6531510 GGGTATTTCAGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * * * *
6531537 GGGTATTTC-ATCTTTTTACCATTTGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
6531563 GGGTATTTCGGTCATTTTACCCTTTGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
6531590 GGGTATTTCGATCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
6531617 GGGTATTTCGATCATTTTACCCTTC-A
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * * *
6531643 GGGGTATTTTGGTTATTTTACCCTACGG
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* *
6531671 GGGTATTTTGGTCATTTTGCCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** * * *
6531698 GGGTATTTTTGTTATTTTACCCTTTGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
6531725 GGGTATTTCGATCATTTTAGCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
6531752 GGGTATTTCGGTCATTTTA
1 GGGTATTTCGGTCATTTTA
6531771 GGCCCATTAC
Statistics
Matches: 339, Mismatches: 54, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
26 22 0.06
27 317 0.94
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTTCGA
Found at i:6543923 original size:7 final size:7
Alignment explanation
Indices: 6543911--6543944 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
6543901 ATTTTCTTAG
6543911 TTTTATT
1 TTTTATT
6543918 TTTTATT
1 TTTTATT
6543925 TTTTATT
1 TTTTATT
*
6543932 TTTATCTT
1 TTT-TATT
6543940 TTTTA
1 TTTTA
6543945 AATTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:6544892 original size:41 final size:41
Alignment explanation
Indices: 6544834--6544939 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 41
6544824 ATTAACCTTG
6544834 AATTGCACATACGTGCCCCTGTTTGTACTTGGGTACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTGGGTACCCCTA
* * *
6544875 TATTGCACATATGTGCCCC-GATTTGTACTTTGGTACCCCTA
1 AATTGCACATACGTGCCCCTG-TTTGTACTTGGGTACCCCTA
* *
6544916 AATTACACATGCGTGCCCCTGTTT
1 AATTGCACATACGTGCCCCTGTTT
6544940 ACACACCGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.02
41 54 0.96
42 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTGGGTACCCCTA
Found at i:6545150 original size:37 final size:37
Alignment explanation
Indices: 6545109--6545183 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
6545099 ATTTTATCAA
6545109 GATTGTAAATAGGTATCTTTTTGGTATACTTAGAATG
1 GATTGTAAATAGGTATCTTTTTGGTATACTTAGAATG
6545146 GATTGTAAATAGGTATCTTTTTGGTATACTTAGAATG
1 GATTGTAAATAGGTATCTTTTTGGTATACTTAGAATG
6545183 G
1 G
6545184 TATGAAAGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.43
Consensus pattern (37 bp):
GATTGTAAATAGGTATCTTTTTGGTATACTTAGAATG
Found at i:6554805 original size:41 final size:41
Alignment explanation
Indices: 6554719--6554828 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
6554709 AGTTAATTAA
*
6554719 CCCTGAATTGCACATA-GATG-CCCTGTTTCTACTTCAATAC
1 CCCTGAATTGCACATACG-TGCCCCTATTTCTACTTCAATAC
* ***
6554759 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTTGGTAC
1 CCCTGAATTGCACATACGTGCCCCTATTTCTACTTCAATAC
6554800 CCCTGAATTGCACATACGTGCCCCTATTT
1 CCCTGAATTGCACATACGTGCCCCTATTT
6554829 ACACTCTTGT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
40 18 0.29
41 45 0.71
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.33
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTATTTCTACTTCAATAC
Found at i:6554848 original size:41 final size:41
Alignment explanation
Indices: 6554760--6554850 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
6554750 CTTCAATACC
** **
6554760 CCTGAATTGCACATACGTGCCCCTATTTGTACTTTGGTACC
1 CCTGAATTGCACATACGTGCCCCTATTTACACTTTGGTAAA
6554801 CCTGAATTGCACATACGTGCCCCTATTTACACTCTT-GTAAA
1 CCTGAATTGCACATACGTGCCCCTATTTACACT-TTGGTAAA
**
6554842 TTTGAATTG
1 CCTGAATTG
6554851 AGTAATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 41 0.95
42 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (41 bp):
CCTGAATTGCACATACGTGCCCCTATTTACACTTTGGTAAA
Found at i:6557200 original size:106 final size:106
Alignment explanation
Indices: 6557004--6557216 Score: 284
Period size: 106 Copynumber: 2.0 Consensus size: 106
6556994 AAAATGAGCA
* * * * ** * *
6557004 TTCTTATTTTTGAGAATTTGAGACATCGTGTCCTACCTTACGGGCCATGATTTTCTTCCCGATTA
1 TTCTTATTTTCGAGAATTAGAGACATCATGTCCTAACTTACAAGACATGATTTTCTTCCCGACTA
*
6557069 ACTCAAAATACGAAGACATTCTTCATAAAATTTGATTTAAT
66 ACTCAAAATACGAAGACATTCTTCATAAAATTTGATGTAAT
*
6557110 TTCTTATTTTCGAGAATTCAG-GACGTCATGTCCTAACTTACAAGACATGATTTTCTTCCCGACT
1 TTCTTATTTTCGAGAATT-AGAGACATCATGTCCTAACTTACAAGACATGATTTTCTTCCCGACT
* * * *
6557174 AACTCGAAATATGAAGGCATTTTTCATAAAATTTGATGTAAT
65 AACTCAAAATACGAAGACATTCTTCATAAAATTTGATGTAAT
6557216 T
1 T
6557217 AGTGATATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 91 0.99
107 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (106 bp):
TTCTTATTTTCGAGAATTAGAGACATCATGTCCTAACTTACAAGACATGATTTTCTTCCCGACTA
ACTCAAAATACGAAGACATTCTTCATAAAATTTGATGTAAT
Found at i:6562551 original size:23 final size:24
Alignment explanation
Indices: 6562505--6562559 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
6562495 TAAAACAAAT
*
6562505 AATAATAATAAAGAAAGAAAGAAAG
1 AATAATAATAAAGAAAGAGA-AAAG
*
6562530 AAATAATAATAAGGAAAG-GAAAAG
1 -AATAATAATAAAGAAAGAGAAAAG
6562554 AATAAT
1 AATAAT
6562560 GGATGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 6 0.22
24 4 0.15
25 1 0.04
26 16 0.59
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (24 bp):
AATAATAATAAAGAAAGAGAAAAG
Found at i:6568503 original size:14 final size:14
Alignment explanation
Indices: 6568484--6568514 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6568474 TGATTGTTTT
6568484 TAATCTAAATTTAC
1 TAATCTAAATTTAC
*
6568498 TAATCTAATTTTAC
1 TAATCTAAATTTAC
6568512 TAA
1 TAA
6568515 GAATGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATCTAAATTTAC
Found at i:6574091 original size:50 final size:50
Alignment explanation
Indices: 6574030--6574130 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 50
6574020 ACATAGGAGT
* * * *
6574030 TCTCATATCGGTGCCCATGCCATGTGCCAGACATGATCTTACGGGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACC
* * * * *
6574080 TCTCATCTCGGTGTCAACGCCATGTCCCATACATGGTCTTACATGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACC
6574130 T
1 T
6574131 ATAATAACCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.27
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACC
Found at i:6590568 original size:16 final size:16
Alignment explanation
Indices: 6590547--6590578 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6590537 ATCCCAACCT
*
6590547 TATGTAGTATGTCATG
1 TATGTAGTATGCCATG
6590563 TATGTAGTATGCCATG
1 TATGTAGTATGCCATG
6590579 CTCAGAATGA
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:0.09, G:0.25, T:0.41
Consensus pattern (16 bp):
TATGTAGTATGCCATG
Found at i:6590707 original size:27 final size:26
Alignment explanation
Indices: 6590634--6590720 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
6590624 GAACAAATCA
* *
6590634 GTCA-TTTACCCTCTAGGGGCATTACG
1 GTCATTTTACCCT-TGGGGGTATTACG
* *
6590660 GTCATTTTA-CCTTGCAAGGGTATTTCG
1 GTCATTTTACCCTTG--GGGGTATTACG
6590687 GTCATTTTACCCTATGGGGGTATTACG
1 GTCATTTTACCCT-TGGGGGTATTACG
6590714 GTCATTT
1 GTCATTT
6590721 AACAACCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.02
26 7 0.14
27 37 0.74
28 3 0.06
29 2 0.04
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCCTTGGGGGTATTACG
Found at i:6594843 original size:43 final size:43
Alignment explanation
Indices: 6594790--6594974 Score: 282
Period size: 43 Copynumber: 4.3 Consensus size: 43
6594780 TTTTATAACT
6594790 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * **
6594833 AAACGCCGCTAAAGACCAAGACCTTTAGTGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
6594876 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* **
6594919 AAACGCCGCTAAAGAACATGGA-CTTTAGCGGCGCTTACCCCAC
1 AAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTCCCAC
6594962 AAACGCCGCTAAA
1 AAACGCCGCTAAA
6594975 AATACAGTTC
Statistics
Matches: 128, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 126 0.98
44 2 0.02
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:6594892 original size:86 final size:86
Alignment explanation
Indices: 6594767--6594974 Score: 294
Period size: 86 Copynumber: 2.4 Consensus size: 86
6594757 AGGGTCGCTA
*
6594767 ACTTTAGCGGCG-TTTTTATAACTAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
1 ACTTTAGCGGCGCTTTTT-TCAC-AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
*
6594831 ACAAACGCCGCTAAAGACCA-AG
64 ACAAACGCCGCTAAAGAACATAG
* *
6594853 ACCTTTAGTGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCCA
1 A-CTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCA
*
6594918 CAAACGCCGCTAAAGAACATGG
65 CAAACGCCGCTAAAGAACATAG
****
6594940 ACTTTAGCGGCGCTTACCCCACAAACGCCGCTAAA
1 ACTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAA
6594975 AATACAGTTC
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
86 89 0.82
87 15 0.14
88 5 0.05
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (86 bp):
ACTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
AAACGCCGCTAAAGAACATAG
Found at i:6598064 original size:24 final size:24
Alignment explanation
Indices: 6598032--6598091 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
6598022 CGTTGAAGGC
6598032 AGAAATAGATAACTTAAACAAATT
1 AGAAATAGATAACTTAAACAAATT
* *
6598056 AGAAATAGATAAATTAAACAACTT
1 AGAAATAGATAACTTAAACAAATT
6598080 AG-AATAGATAAC
1 AGAAATAGATAAC
6598092 AGTAGTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23
Consensus pattern (24 bp):
AGAAATAGATAACTTAAACAAATT
Found at i:6599722 original size:16 final size:16
Alignment explanation
Indices: 6599690--6599723 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6599680 ACATACCTAA
* *
6599690 ATATATATCCATCCAT
1 ATATATATCAATACAT
6599706 ATATATATCAATACAT
1 ATATATATCAATACAT
6599722 AT
1 AT
6599724 TTTAACTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATATCAATACAT
Found at i:6599809 original size:14 final size:13
Alignment explanation
Indices: 6599783--6599808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6599773 TGGTTTAGAT
6599783 TAAATTTTTAAAA
1 TAAATTTTTAAAA
6599796 TAAATTTTTAAAA
1 TAAATTTTTAAAA
6599809 AAACTAATTA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATTTTTAAAA
Found at i:6600287 original size:14 final size:15
Alignment explanation
Indices: 6600268--6600300 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6600258 CTTAAACCAA
6600268 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
6600282 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
6600297 AATC
1 AATC
6600301 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:6600861 original size:110 final size:110
Alignment explanation
Indices: 6600689--6601016 Score: 446
Period size: 110 Copynumber: 3.0 Consensus size: 110
6600679 ATAGACAGAT
* *
6600689 AAAGCTCAGAAAACGGCGCCGTTTGGATTTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
1 AAAGCTCAAAAAACGGCGCCGTTTGGA--TTTTTTTTGCGGCACTTTCCCAAAAACGCCGCTAAA
* * * * *
6600754 GCCCTGAGTATTAGCGACGCTTTCTTAAAAACGCCACTAAATCTATG
64 ACCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGCTAAATCCACG
* *
6600801 AAAGCTCAAAAAACGGCGCCGTTTGGATTTTTTTTGCGGCACTTTCCCAAAAATGCCGCTAAATC
1 AAAGCTCAAAAAACGGCGCCGTTTGGATTTTTTTTGCGGCACTTTCCCAAAAACGCCGCTAAAAC
6600866 CCTGAGCATTAGC-AGCGCTTTCTTAAAAACGCCGCTAAATCCACG
66 CCTGAGCATTAGCGA-CGCTTTCTTAAAAACGCCGCTAAATCCACG
* * * **
6600911 AAAGATCACAAAACGGCGCCG-TTGGGTTTATTTTTTTGGCACTTTCCCAAAAACGCCGC-AAAA
1 AAAGCTCAAAAAACGGCGCCGTTTGGATTT-TTTTTGCGGCACTTTCCCAAAAACGCCGCTAAAA
* * *
6600974 TCTTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCC
65 CCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGCTAAATCC
6601017 CTGAGCATTA
Statistics
Matches: 195, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
109 50 0.26
110 119 0.61
112 26 0.13
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (110 bp):
AAAGCTCAAAAAACGGCGCCGTTTGGATTTTTTTTGCGGCACTTTCCCAAAAACGCCGCTAAAAC
CCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGCTAAATCCACG
Found at i:6601012 original size:150 final size:151
Alignment explanation
Indices: 6600849--6601168 Score: 518
Period size: 150 Copynumber: 2.1 Consensus size: 151
6600839 GCACTTTCCC
*
6600849 AAAAATGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
1 AAAAACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
*
6600914 GATCACAAAACGGCGCCGTTGGGTTTATTTTTTT-GGCACTTTCCCAAAAACGCCGCAAAAT-CT
66 GATCACAAAACGGCGCCGTTGGGTTT-TTTTTTTCGGCACTTTCCCAAAAACGCCGCAAAATCCC
*
6600977 TGAGCATTAGCGGCGCTTTCTT
130 TGAGCATTACCGGCGCTTTCTT
*
6600999 AAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
1 AAAAACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
* * * * *
6601064 GCTCAGAAAACGGCGCCGTTTGGTTTTTTTTTTGCGGCACTTTTCCAAAAACGCCGCTAAATCCC
66 GATCACAAAACGGCGCCGTTGGGTTTTTTTTTT-CGGCACTTTCCCAAAAACGCCGCAAAATCCC
6601129 TGAGCATTACCGGCGCTTTCTT
130 TGAGCATTACCGGCGCTTTCTT
*
6601151 AAAAACGCAGCTAAATCC
1 AAAAACGCCGCTAAATCC
6601169 ACGAAAGCTC
Statistics
Matches: 157, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
149 7 0.04
150 86 0.55
151 25 0.16
152 39 0.25
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (151 bp):
AAAAACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
GATCACAAAACGGCGCCGTTGGGTTTTTTTTTTCGGCACTTTCCCAAAAACGCCGCAAAATCCCT
GAGCATTACCGGCGCTTTCTT
Found at i:6601034 original size:41 final size:41
Alignment explanation
Indices: 6600959--6601057 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 41
6600949 GCACTTTCCC
* *
6600959 AAAAACGCCGCAAAAT-CTTGAGCATTAGCGGCGCTTTCTT
1 AAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTT
6600999 AAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTT
1 AAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTT
6601040 AAAAACGCCGCTAAATCC
1 AAAAACGCCGCTAAATCC
6601058 ACGAAAGCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 15 0.27
41 41 0.73
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTT
Found at i:6601180 original size:111 final size:111
Alignment explanation
Indices: 6600999--6601462 Score: 698
Period size: 112 Copynumber: 4.2 Consensus size: 111
6600989 GCGCTTTCTT
*
6600999 AAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
1 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
* *
6601064 GCTCAGAAAACGGCGCCGTTTGGTTTTTTTTTTGCGGCACTTTTCC
66 GCTCAGAAAACGGCGCCGTTGGGTTTTTTTTTTGCGGCACTTTCCC
* * *
6601110 AAAAACGCCGCTAAATCCCTGAGCATTACCGGCGCTTTCTTAAAAACGCAGCTAAATCCACGAAA
1 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
* * *
6601175 GCTCAGAAAACGACGCTGTTGGG-TTTTTTTTTGCGGCGCTTTCCC
66 GCTCAGAAAACGGCGCCGTTGGGTTTTTTTTTTGCGGCACTTTCCC
* * *
6601220 AAAAATGCCGCTAAAGCCCTGAGCATTAGCGACGC-TTCTTAAAAGCGCCGCTAAATCCACGAAA
1 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
* * * *
6601284 TCTCAGAAAACGGCACCGTTGGGATTATTTTTTTTGCAGCGCTTTCCC
66 GCTCAGAAAACGGCGCCGTTGGG-TT-TTTTTTTTGCGGCACTTTCCC
* * *
6601332 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTTAAAAACACCGCTAAATCCACAAAA
1 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
* *
6601397 GCTCAGAAAATGGCGCCGTTGGGTTTATTTTTTTGAGGCACTTTCCC
66 GCTCAGAAAACGGCGCCGTTGGGTTT-TTTTTTTGCGGCACTTTCCC
6601444 AAAAACGCCGCTAAAGCCC
1 AAAAACGCCGCTAAAGCCC
6601463 CGAAAGTTCA
Statistics
Matches: 318, Mismatches: 30, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
109 46 0.14
110 51 0.16
111 85 0.27
112 91 0.29
113 45 0.14
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (111 bp):
AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAA
GCTCAGAAAACGGCGCCGTTGGGTTTTTTTTTTGCGGCACTTTCCC
Found at i:6601221 original size:261 final size:261
Alignment explanation
Indices: 6600726--6601277 Score: 822
Period size: 261 Copynumber: 2.1 Consensus size: 261
6600716 TTTTTTTTTT
** * *
6600726 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGTATTAGCGACGCTTTCTTAAAAACGCCAC
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCAC
* * *
6600791 TAAATCTATGAAAGCTCAAAAAACGGCGCCGTTTGGATTTTTTTTGCGGCACTTTCCCAAAAATG
66 TAAATCCACGAAAGCTCAAAAAACGGCGCCGTTTGGATTTTTTTTGCGGCACTTTCCCAAAAACG
* *
6600856 CCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGATCACA
131 CCGCTAAATCCCTGAGCATTACCAGCGCTTTCTTAAAAACGCAGCTAAATCCACGAAAGATCACA
* * * *
6600921 AAACGGCGCCGTTGGGTTTATTTTTTTGGCACTTTCCCAAAAACGCCGC-AAAATCTTGAGCATT
196 AAACGACGCCGTTGGGTTTATTTTTTCGGCACTTTCCCAAAAACGCCGCTAAAACCCTGAGCATT
6600985 A
261 A
* *
6600986 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCAC
* * *
6601051 TAAATCCACGAAAGCTCAGAAAACGGCGCCGTTTGGTTTTTTTTTTGCGGCACTTTTCCAAAAAC
66 TAAATCCACGAAAGCTCAAAAAACGGCGCCGTTTGG-ATTTTTTTTGCGGCACTTTCCCAAAAAC
* * *
6601116 GCCGCTAAATCCCTGAGCATTACCGGCGCTTTCTTAAAAACGCAGCTAAATCCACGAAAGCTCAG
130 GCCGCTAAATCCCTGAGCATTACCAGCGCTTTCTTAAAAACGCAGCTAAATCCACGAAAGATCAC
* * * *
6601181 AAAACGACGCTGTTGGGTTT-TTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCA
195 AAAACGACGCCGTTGGGTTTATTTTTT-CGGCACTTTCCCAAAAACGCCGCTAAAACCCTGAGCA
6601245 TTA
259 TTA
* *
6601248 GCGACGC-TTCTTAAAAGCGCCGCTAAATCC
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCC
6601278 ACGAAATCTC
Statistics
Matches: 262, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
260 98 0.37
261 145 0.55
262 19 0.07
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (261 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCAC
TAAATCCACGAAAGCTCAAAAAACGGCGCCGTTTGGATTTTTTTTGCGGCACTTTCCCAAAAACG
CCGCTAAATCCCTGAGCATTACCAGCGCTTTCTTAAAAACGCAGCTAAATCCACGAAAGATCACA
AAACGACGCCGTTGGGTTTATTTTTTCGGCACTTTCCCAAAAACGCCGCTAAAACCCTGAGCATT
A
Found at i:6601358 original size:112 final size:111
Alignment explanation
Indices: 6600989--6601462 Score: 684
Period size: 111 Copynumber: 4.3 Consensus size: 111
6600979 AGCATTAGCG
** *
6600989 GCGCTTTCTTAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAA
1 GCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAA
* *
6601054 ATCCACGAAAGCTCAGAAAACGGCGCCGTTTGGTTTTTTTTTTGCG
66 ATCCACGAAAGCTCAGAAAACGGCGCCGTTGGGTTTTTTTTTTGCA
* * * * *
6601100 GCACTTTTCCAAAAACGCCGCTAAATCCCTGAGCATTACCGGCGCTTTCTTAAAAACGCAGCTAA
1 GCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAA
* * *
6601165 ATCCACGAAAGCTCAGAAAACGACGCTGTTGGG-TTTTTTTTTGCG
66 ATCCACGAAAGCTCAGAAAACGGCGCCGTTGGGTTTTTTTTTTGCA
* * *
6601210 GCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGACGC-TTCTTAAAAGCGCCGCTAA
1 GCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAA
* *
6601274 ATCCACGAAATCTCAGAAAACGGCACCGTTGGGATTATTTTTTTTGCA
66 ATCCACGAAAGCTCAGAAAACGGCGCCGTTGGG-TT-TTTTTTTTGCA
* *
6601322 GCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTTAAAAACACCGCTAA
1 GCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAA
* *
6601387 ATCCACAAAAGCTCAGAAAATGGCGCCGTTGGGTTTATTTTTTTG-A
66 ATCCACGAAAGCTCAGAAAACGGCGCCGTTGGGTTT-TTTTTTTGCA
*
6601433 GGCACTTTCCCAAAAACGCCGCTAAAGCCC
1 -GCGCTTTCCCAAAAACGCCGCTAAAGCCC
6601463 CGAAAGTTCA
Statistics
Matches: 325, Mismatches: 32, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
109 46 0.14
110 51 0.16
111 92 0.28
112 91 0.28
113 45 0.14
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (111 bp):
GCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAA
ATCCACGAAAGCTCAGAAAACGGCGCCGTTGGGTTTTTTTTTTGCA
Found at i:6603648 original size:22 final size:22
Alignment explanation
Indices: 6603590--6603648 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
6603580 GAATGGTATC
6603590 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
6603612 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
6603635 TACATATCAAATCT
1 TACAAATCAAATCT
6603649 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:6608761 original size:21 final size:22
Alignment explanation
Indices: 6608704--6608761 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
6608694 GAATGGTATC
6608704 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
6608726 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
6608749 TAC-AATCAAATCT
1 TACAAATCAAATCT
6608762 AATATCCTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 9 0.28
22 3 0.09
23 14 0.44
24 6 0.19
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:6610869 original size:99 final size:99
Alignment explanation
Indices: 6610723--6610937 Score: 265
Period size: 99 Copynumber: 2.2 Consensus size: 99
6610713 CTGCTCCTAA
* * * *
6610723 AAGATGGAGTTTATACGACTCAACCGGTTTACTCAGAGCGTAAGGTTAACTCAGTTGAAA-CAAA
1 AAGATGGAGTTTATACAAATCAACCGGCTCACTCAGAGCGTAAGGTTAACTCAGTT-AAAGCAAA
*
6610787 TCAAT-TTAACAGTCATATTGGAAGTAGCCTCCAAG
65 T-AATCTCAACAGTCATATTGGAAGTAGCCTCCAAG
* * * * *
6610822 AAGATGGAGTATATACAAATCAACCGGCTCACTC-GGGCCGTAGGGTTAACTTAGTTAAAGCCAA
1 AAGATGGAGTTTATACAAATCAACCGGCTCACTCAGAG-CGTAAGGTTAACTCAGTTAAAGCAAA
** *
6610886 TAATCTCAATGGTCATATTGGAAGTAGCCTCCTAG
65 TAATCTCAACAGTCATATTGGAAGTAGCCTCCAAG
6610921 AAGATGGAGTTTATACA
1 AAGATGGAGTTTATACA
6610938 GCTAAACCGG
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
98 8 0.08
99 91 0.92
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (99 bp):
AAGATGGAGTTTATACAAATCAACCGGCTCACTCAGAGCGTAAGGTTAACTCAGTTAAAGCAAAT
AATCTCAACAGTCATATTGGAAGTAGCCTCCAAG
Found at i:6612586 original size:50 final size:50
Alignment explanation
Indices: 6612511--6612608 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 50
6612501 GAACATACTC
* *
6612511 ACCTACCAAAATCCATTTCTCTCTTGACTATATCTCTATGTTAGTTCATT
1 ACCTACCAAAATCAATTTCTCTCTTGACTATATCTCTATGTTAATTCATT
6612561 ACCTACCAAAATCAATTTCTCTCTTGACTATATCTCTATGTTAATTCA
1 ACCTACCAAAATCAATTTCTCTCTTGACTATATCTCTATGTTAATTCA
6612609 CCCGATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.41
Consensus pattern (50 bp):
ACCTACCAAAATCAATTTCTCTCTTGACTATATCTCTATGTTAATTCATT
Found at i:6615950 original size:69 final size:69
Alignment explanation
Indices: 6615875--6616012 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
6615865 ATAAAAACTG
*
6615875 TTAATATGATTAATTTTAAACAAATCCTAATTCTATGCAAAGTTGATAATATTTAATATATATTA
1 TTAATATGATTAATGTTAAACAAATCCTAATTCTATGCAAAGTTGATAATATTTAATATATATTA
6615940 TAAT
66 TAAT
6615944 TTAATATGATTAATGTTAAACAAATCCTAATTCTATGCAAAGTTGATAATATTTAATATATATTA
1 TTAATATGATTAATGTTAAACAAATCCTAATTCTATGCAAAGTTGATAATATTTAATATATATTA
6616009 TAAT
66 TAAT
6616013 AATTATAATT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (69 bp):
TTAATATGATTAATGTTAAACAAATCCTAATTCTATGCAAAGTTGATAATATTTAATATATATTA
TAAT
Found at i:6616027 original size:22 final size:19
Alignment explanation
Indices: 6615989--6616026 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
6615979 TGCAAAGTTG
6615989 ATAATATTTAATATATATT
1 ATAATATTTAATATATATT
6616008 ATAATAATTATAAT-TATAT
1 ATAAT-ATT-TAATATATAT
6616027 ACTAGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATATTTAATATATATT
Found at i:6616147 original size:30 final size:30
Alignment explanation
Indices: 6616090--6616148 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6616080 TGCCTTTGAA
* *
6616090 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
6616120 AATATTTACAAAAAGAG-CGACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
6616149 GAAAATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:6623166 original size:12 final size:12
Alignment explanation
Indices: 6623139--6623204 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
6623129 TTTAGCCATT
6623139 TTATTTTTATT-
1 TTATTTTTATTG
*
6623150 ATATTTTTATTG
1 TTATTTTTATTG
*
6623162 TTATTTTTAGTG
1 TTATTTTTATTG
* *
6623174 TAATTTTTGTTG
1 TTATTTTTATTG
*
6623186 TCTAATTTTTCTT-
1 T-T-ATTTTTATTG
6623199 TTATTT
1 TTATTT
6623205 GCTTCTGGCA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
11 14 0.32
12 21 0.48
13 1 0.02
14 8 0.18
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.71
Consensus pattern (12 bp):
TTATTTTTATTG
Found at i:6629475 original size:4 final size:4
Alignment explanation
Indices: 6629466--6629499 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
6629456 GCCTTTTCTT
*
6629466 TTTA TTTA TTTA TTTA -TTA TTTA TTTC TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
6629500 TATCCTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6629487 original size:15 final size:15
Alignment explanation
Indices: 6629467--6629498 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6629457 CCTTTTCTTT
6629467 TTATTTATTTATTTA
1 TTATTTATTTATTTA
*
6629482 TTATTTATTTCTTTA
1 TTATTTATTTATTTA
6629497 TT
1 TT
6629499 TTATCCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:6631144 original size:6 final size:6
Alignment explanation
Indices: 6631133--6631159 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6631123 AGTTTATTTG
6631133 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
6631160 CTTAAACTTA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:6634748 original size:2 final size:2
Alignment explanation
Indices: 6634743--6634775 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6634733 TATATATATA
6634743 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
6634776 ACTTAAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6635467 original size:41 final size:41
Alignment explanation
Indices: 6635378--6635498 Score: 140
Period size: 41 Copynumber: 3.0 Consensus size: 41
6635368 NNNNNNNNCA
*
6635378 ATATCAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAAC
1 ATATCAGACTTTAAGTCTAGCAGGC-TAAGTGCCGGTGAAAC
* * * *
6635419 ATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGTG-TAC
1 ATATCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAAAC
*
6635459 -TGAATCAGACTTTAAGTCTAGCAGGCTAAGTGCCAGTGAA
1 AT--ATCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAA
6635499 TTTGTTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 61 0.91
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (41 bp):
ATATCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAAAC
Found at i:6645599 original size:6 final size:6
Alignment explanation
Indices: 6645589--6645660 Score: 119
Period size: 6 Copynumber: 12.2 Consensus size: 6
6645579 AGAAAATATC
*
6645589 AATAAA CATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
*
6645637 AATAAA ACTAAA AAT-AA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
6645661 TGAATAGATT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.08
6 56 0.92
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:6647565 original size:21 final size:19
Alignment explanation
Indices: 6647539--6647581 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
6647529 TTTTCGATAG
*
6647539 AATTTTTGTCATAAAATAATT
1 AATTTTT-T-ATAAAATAATA
6647560 AA-TTTTTATAAAATAATA
1 AATTTTTTATAAAATAATA
6647578 AATT
1 AATT
6647582 GTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 12 0.60
19 2 0.10
20 4 0.20
21 2 0.10
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
AATTTTTTATAAAATAATA
Found at i:6647589 original size:18 final size:18
Alignment explanation
Indices: 6647549--6647590 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6647539 AATTTTTGTC
* *
6647549 ATAAAATAATTAATTTTT
1 ATAAAATAATAAATTTAT
6647567 ATAAAATAATAAATTGTAT
1 ATAAAATAATAAATT-TAT
6647586 -TAAAA
1 ATAAAA
6647591 ATTTGAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAAAATAATAAATTTAT
Found at i:6647649 original size:20 final size:21
Alignment explanation
Indices: 6647605--6647652 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
6647595 GAACATGTTA
6647605 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
6647627 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
6647647 ATTTTT
1 ATTTTT
6647653 GACAAATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:6650136 original size:30 final size:30
Alignment explanation
Indices: 6650080--6650137 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
6650070 TTCTTTGAAC
* *
6650080 ATATTTATAAAAAGAGACATCTAATTTTTA
1 ATATTTATAAAAAGAGACACCAAATTTTTA
6650110 ATATTTATAAAAAGAG-CAACCAAATTTT
1 ATATTTATAAAAAGAGAC-ACCAAATTTT
6650138 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (30 bp):
ATATTTATAAAAAGAGACACCAAATTTTTA
Found at i:6654128 original size:30 final size:30
Alignment explanation
Indices: 6654094--6654170 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 30
6654084 AGAATCAGTC
*
6654094 TGGGCCTGAGCCCATTACAATAAAAGTGTG
1 TGGGCCTGAGCCCAATACAATAAAAGTGTG
* * * *
6654124 TGGGCCTTAGCCTAATACAGTAACA--GTG
1 TGGGCCTGAGCCCAATACAATAAAAGTGTG
* *
6654152 TGGGCCTTAGCCTAATACA
1 TGGGCCTGAGCCCAATACA
6654171 GTAATTAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 22 0.52
30 20 0.48
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (30 bp):
TGGGCCTGAGCCCAATACAATAAAAGTGTG
Found at i:6654160 original size:28 final size:28
Alignment explanation
Indices: 6654121--6654174 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
6654111 CAATAAAAGT
6654121 GTGTGGGCCTTAGCCTAATACAGTAACA
1 GTGTGGGCCTTAGCCTAATACAGTAACA
6654149 GTGTGGGCCTTAGCCTAATACAGTAA
1 GTGTGGGCCTTAGCCTAATACAGTAA
6654175 TTAGTACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (28 bp):
GTGTGGGCCTTAGCCTAATACAGTAACA
Found at i:6654339 original size:26 final size:26
Alignment explanation
Indices: 6654291--6654361 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
6654281 ATATCGCAAC
* * * *
6654291 AAAGCTTCCAGTAATAATGACGCAGT
1 AAAGCTGCCAGTAACAGTAACGCAGT
6654317 AAAGCTGCCAGTAACAGTAACGCAGT
1 AAAGCTGCCAGTAACAGTAACGCAGT
*
6654343 AAGGCTGCCAGTAACAGTA
1 AAAGCTGCCAGTAACAGTA
6654362 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
AAAGCTGCCAGTAACAGTAACGCAGT
Found at i:6654565 original size:27 final size:27
Alignment explanation
Indices: 6654535--6654703 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 27
6654525 GGGTAAAACA
6654535 GTCATTTTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* *
6654562 GTCATTGTACTCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
6654589 ATCATTTTA-TCTATCGAGGGTATTTCA
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* * *
6654616 GTTATTTTATCTTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
6654643 GTCATTTTATCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
** * *
6654670 GTCATTTTACCCTTTAAGGGTTTTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
6654697 GTCATTT
1 GTCATTT
6654704 GCCCATGAAT
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.03
27 117 0.96
28 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:6654677 original size:54 final size:55
Alignment explanation
Indices: 6654535--6654703 Score: 211
Period size: 54 Copynumber: 3.1 Consensus size: 55
6654525 GGGTAAAACA
* *
6654535 GTCATTTTACCCTAT-GAGGGTATTTCGGTCATTGTACTCTTCGAGGGTATTTCG
1 GTCATTTTATCCTATCGAGGGTATTTCGGTCATTTTACTCTTCGAGGGTATTTCG
* * *
6654589 ATCATTTTAT-CTATCGAGGGTATTTCAGTTATTTTA-TCTTTCGAGGGTATTTCG
1 GTCATTTTATCCTATCGAGGGTATTTCGGTCATTTTACTC-TTCGAGGGTATTTCG
* ** * *
6654643 GTCATTTTATCCT-TCGAGGGTATTTCGGTCATTTTACCCTTTAAGGGTTTTTCA
1 GTCATTTTATCCTATCGAGGGTATTTCGGTCATTTTACTCTTCGAGGGTATTTCG
6654697 GTCATTT
1 GTCATTT
6654704 GCCCATGAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.06
54 89 0.91
55 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.46
Consensus pattern (55 bp):
GTCATTTTATCCTATCGAGGGTATTTCGGTCATTTTACTCTTCGAGGGTATTTCG
Found at i:6654690 original size:81 final size:81
Alignment explanation
Indices: 6654533--6654703 Score: 213
Period size: 81 Copynumber: 2.1 Consensus size: 81
6654523 AGGGGTAAAA
* *
6654533 CAGTCATTTTACCCTAT-GAGGGTATTTCGGTCATTGTACTCTTCGAGGGTATTTCGATCATTTT
1 CAGTCATTTTA-TCTTTCGAGGGTATTTCGGTCATTGTACTCTTCGAGGGTATTTCGATCATTTT
* *
6654597 ATCTATCGAGGGTATTT
65 ACCTATCAAGGGTATTT
* * *
6654614 CAGTTATTTTATCTTTCGAGGGTATTTCGGTCATTTTA-TCCTTCGAGGGTATTTCGGTCATTTT
1 CAGTCATTTTATCTTTCGAGGGTATTTCGGTCATTGTACT-CTTCGAGGGTATTTCGATCATTTT
* *
6654678 ACCCT-TTAAGGGTTTTT
65 A-CCTATCAAGGGTATTT
6654695 CAGTCATTT
1 CAGTCATTT
6654704 GCCCATGAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 4 0.05
81 71 0.92
82 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (81 bp):
CAGTCATTTTATCTTTCGAGGGTATTTCGGTCATTGTACTCTTCGAGGGTATTTCGATCATTTTA
CCTATCAAGGGTATTT
Found at i:6655732 original size:83 final size:83
Alignment explanation
Indices: 6655593--6655751 Score: 318
Period size: 83 Copynumber: 1.9 Consensus size: 83
6655583 CGAAAATCTT
6655593 TAGTACCTAAAGACTAAATTCGGCAGATGTTACCCCAAGAAGTTCTTCCAAATGCCAAAAATGAC
1 TAGTACCTAAAGACTAAATTCGGCAGATGTTACCCCAAGAAGTTCTTCCAAATGCCAAAAATGAC
6655658 AAACTTTTACCGTGTCTG
66 AAACTTTTACCGTGTCTG
6655676 TAGTACCTAAAGACTAAATTCGGCAGATGTTACCCCAAGAAGTTCTTCCAAATGCCAAAAATGAC
1 TAGTACCTAAAGACTAAATTCGGCAGATGTTACCCCAAGAAGTTCTTCCAAATGCCAAAAATGAC
6655741 AAACTTTTACC
66 AAACTTTTACC
6655752 CCGTAGCTGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
TAGTACCTAAAGACTAAATTCGGCAGATGTTACCCCAAGAAGTTCTTCCAAATGCCAAAAATGAC
AAACTTTTACCGTGTCTG
Found at i:6657833 original size:20 final size:20
Alignment explanation
Indices: 6657808--6657848 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6657798 CACATGGTAG
*
6657808 TGTGTTTGAAAACCGTAACT
1 TGTGTTGGAAAACCGTAACT
* *
6657828 TGTGTTGGGAAATCGTAACT
1 TGTGTTGGAAAACCGTAACT
6657848 T
1 T
6657849 TGCTTCAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (20 bp):
TGTGTTGGAAAACCGTAACT
Found at i:6660019 original size:23 final size:23
Alignment explanation
Indices: 6659991--6660035 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6659981 TTATATAAAT
** *
6659991 TATATTTGTTTTATTTTGTTTTA
1 TATATTTAATTTAATTTGTTTTA
6660014 TATATTTAATTTAATTTGTTTT
1 TATATTTAATTTAATTTGTTTT
6660036 TTTACATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (23 bp):
TATATTTAATTTAATTTGTTTTA
Found at i:6663011 original size:43 final size:43
Alignment explanation
Indices: 6662963--6663048 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
6662953 TTAATTACAA
6662963 CATTATTTAGTCTTGAAGTCATTACACTCAATTAACGTGATTG
1 CATTATTTAGTCTTGAAGTCATTACACTCAATTAACGTGATTG
* *
6663006 CATTATTTAGTCTTGAAGTCATTGCACTCAATTAATGTGATTG
1 CATTATTTAGTCTTGAAGTCATTACACTCAATTAACGTGATTG
6663049 AGCTCTCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (43 bp):
CATTATTTAGTCTTGAAGTCATTACACTCAATTAACGTGATTG
Found at i:6664795 original size:36 final size:36
Alignment explanation
Indices: 6664741--6664870 Score: 118
Period size: 36 Copynumber: 3.5 Consensus size: 36
6664731 ACAAGATTAA
* * *
6664741 TTTTGTGCCTAGCACTAGTCGGATAAATCGACAATG
1 TTTTGCGCCCAGCGCTAGTCGGATAAATCGACAATG
* * *
6664777 TTTTGCGCCCAGTGCTAGTCGGATAAACCGACGATG
1 TTTTGCGCCCAGCGCTAGTCGGATAAATCGACAATG
* * * *
6664813 ATATTCGTGTGCCCAGCACTA-TCGAATAAATCGACAAAG
1 -T-TT--TGCGCCCAGCGCTAGTCGGATAAATCGACAATG
*
6664852 GTTTGCGCCCAGCGCTAGT
1 TTTTGCGCCCAGCGCTAGT
6664871 TAGATAACCG
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
35 12 0.16
36 31 0.42
37 3 0.04
38 2 0.03
39 14 0.19
40 11 0.15
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (36 bp):
TTTTGCGCCCAGCGCTAGTCGGATAAATCGACAATG
Found at i:6664808 original size:76 final size:75
Alignment explanation
Indices: 6664700--6665000 Score: 288
Period size: 76 Copynumber: 4.0 Consensus size: 75
6664690 CCATAATAAG
* * * * * * *
6664700 GTTTTGCGCCTAGCACTAGTCGTATAACCCGACAAGATTAATTTTGTGCCTAGCACTAGTCGGAT
1 GTTTTGCGCCCAGCGCTAGTCGGATAAACCGAC-AGATTAATTGTGTGCCCAGCACTAGTCGAAT
*
6664765 AAATCGACAAT
65 AAATCGACAAA
* *
6664776 GTTTTGCGCCCAGTGCTAGTCGGATAAACCGAC-GATGATATTCGTGTGCCCAGCACTA-TCGAA
1 GTTTTGCGCCCAGCGCTAGTCGGATAAACCGACAGATTA-ATT-GTGTGCCCAGCACTAGTCGAA
6664839 TAAATCGACAAA
64 TAAATCGACAAA
* **
6664851 GGTTTGCGCCCAGCGCTAGTTAGAT-AACCGAC-GATGATAATTGTGTGCCCAGCACTAGTCGAA
1 GTTTTGCGCCCAGCGCTAGTCGGATAAACCGACAGAT--TAATTGTGTGCCCAGCACTAGTCGAA
*
6664914 TAAATCAACAAA
64 TAAATCGACAAA
* * * * * * * * * *
6664926 GGTTTGTGCCCACCACTAGTTGAATAAACCGA-TGATAATACTTGTGTGCCGAGCACTAGTTGAA
1 GTTTTGCGCCCAGCGCTAGTCGGATAAACCGACAGAT--TAATTGTGTGCCCAGCACTAGTCGAA
6664990 TAAATCGACAA
64 TAAATCGACAA
6665001 CACTTACATA
Statistics
Matches: 192, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
74 29 0.15
75 78 0.41
76 85 0.44
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (75 bp):
GTTTTGCGCCCAGCGCTAGTCGGATAAACCGACAGATTAATTGTGTGCCCAGCACTAGTCGAATA
AATCGACAAA
Found at i:6664869 original size:75 final size:75
Alignment explanation
Indices: 6664744--6665000 Score: 329
Period size: 75 Copynumber: 3.4 Consensus size: 75
6664734 AGATTAATTT
* * * * * *
6664744 TGTGCCTAGCACTAGTCGGATAAATCGACAATGTTTTGCGCCCAGTGCTAGTCGGATAAACCGAC
1 TGTGCCCAGCACTAGTCGAATAAATCGACAAAGGTTTGCGCCCAGCGCTAGTTGGATAAACCGAC
6664809 GATGATATTCG
66 GATGATATT-G
*
6664820 TGTGCCCAGCACTA-TCGAATAAATCGACAAAGGTTTGCGCCCAGCGCTAGTTAGAT-AACCGAC
1 TGTGCCCAGCACTAGTCGAATAAATCGACAAAGGTTTGCGCCCAGCGCTAGTTGGATAAACCGAC
6664883 GATGATAATTG
66 GATGAT-ATTG
* * * * * *
6664894 TGTGCCCAGCACTAGTCGAATAAATCAACAAAGGTTTGTGCCCACCACTAGTTGAATAAACCGAT
1 TGTGCCCAGCACTAGTCGAATAAATCGACAAAGGTTTGCGCCCAGCGCTAGTTGGATAAACCGAC
*
6664959 GATAATACTTG
66 GATGATA-TTG
* *
6664970 TGTGCCGAGCACTAGTTGAATAAATCGACAA
1 TGTGCCCAGCACTAGTCGAATAAATCGACAA
6665001 CACTTACATA
Statistics
Matches: 159, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
74 28 0.18
75 76 0.48
76 55 0.35
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (75 bp):
TGTGCCCAGCACTAGTCGAATAAATCGACAAAGGTTTGCGCCCAGCGCTAGTTGGATAAACCGAC
GATGATATTG
Found at i:6668665 original size:23 final size:22
Alignment explanation
Indices: 6668622--6668665 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
6668612 TTTCAAGTCA
6668622 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
6668645 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
6668666 TTAATTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:6668790 original size:23 final size:23
Alignment explanation
Indices: 6668764--6668885 Score: 172
Period size: 23 Copynumber: 5.3 Consensus size: 23
6668754 CTAAGTGCCA
*
6668764 CACTGATATGTAGCCGAAGCAAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
6668787 CACTGAAATATAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
6668810 CACTGAAATGTAGCCGAGGTTAC
1 CACTGATATGTAGCCGAAGCTAC
6668833 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
6668856 TACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
6668879 CACTGAT
1 CACTGAT
6668886 CAATAACACT
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 86 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:6669137 original size:18 final size:17
Alignment explanation
Indices: 6669111--6669149 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
6669101 ATTTTCCTTC
6669111 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
6669128 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
6669146 CACA
1 CACA
6669150 ATTTATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:6671635 original size:47 final size:49
Alignment explanation
Indices: 6671512--6671635 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 49
6671502 GTTTTCACAT
*
6671512 TGCCATAGTCCA-ACTATGGTCTTACACGTAATCACATATCACATACCGA
1 TGCCATAGTCCAGA-TATGGTCTTACACGAAATCACATATCACATACCGA
* * * * *
6671561 TGCCATAGCCCAGCTATAGTCTCACACGAAATCACATATCACA-A-TGA
1 TGCCATAGTCCAGATATGGTCTTACACGAAATCACATATCACATACCGA
*
6671608 TGCCATATTCCAGATATGGTCTTACACG
1 TGCCATAGTCCAGATATGGTCTTACACG
6671636 GAGATTTCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 25 0.40
48 1 0.02
49 37 0.59
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (49 bp):
TGCCATAGTCCAGATATGGTCTTACACGAAATCACATATCACATACCGA
Found at i:6673551 original size:23 final size:22
Alignment explanation
Indices: 6673508--6673551 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
6673498 TTTCAAGTCA
6673508 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
6673531 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
6673552 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:6673677 original size:49 final size:49
Alignment explanation
Indices: 6673620--6673717 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
6673610 ATATACACGA
6673620 ATACGTAGAGAATTAGCACATAA-TGCCACACTGGATATGTAGCCGAAGC
1 ATACGTAGAGAATTAGCACATAAGTGCCACACT-GATATGTAGCCGAAGC
6673669 ATACGTAGAGAATTAGCACATAAGTGCCACACTGATATGTAGCCGAAGC
1 ATACGTAGAGAATTAGCACATAAGTGCCACACTGATATGTAGCCGAAGC
6673718 TACCACTGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 39 0.81
50 9 0.19
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (49 bp):
ATACGTAGAGAATTAGCACATAAGTGCCACACTGATATGTAGCCGAAGC
Found at i:6673724 original size:23 final size:23
Alignment explanation
Indices: 6673698--6673750 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
6673688 ATAAGTGCCA
*
6673698 CACTGATATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
6673721 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
6673744 CACTGAT
1 CACTGAT
6673751 CAATAACACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATACGTAGCCGAAGCTAC
Found at i:6674031 original size:21 final size:22
Alignment explanation
Indices: 6673992--6674032 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6673982 ATTCACATAT
*
6673992 AAAATATAATTCATAATTTATA
1 AAAATATAACTCATAATTTATA
*
6674014 AAAATATAACT-ATTATTTA
1 AAAATATAACTCATAATTTA
6674033 CACATAGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATATAACTCATAATTTATA
Found at i:6678123 original size:334 final size:334
Alignment explanation
Indices: 6676746--6678638 Score: 2409
Period size: 334 Copynumber: 5.7 Consensus size: 334
6676736 TCCTTCTTCT
* ** *
6676746 CATTATTGATTCTGGTTCTGTTCAGGAAAGTTTAAAAAGTTATGGATGATTCAATGTAGTTAATT
1 CATTATTGATTCTGGTTCT-TTGAGGAAAGTGAAAAAAGTTATGGGTGATTCAATGTAGTTAATT
* * *
6676811 CAAATATTTCTTTCTCTATATGTCATATTTTGTCTG-----A--A--A----TATCAGATCTAAG
65 CAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAACGATTATGTCTATCAAATCTAAG
* * * * * *
6676863 --CGTGCGCCATTC-TTTCGATATAGATAGGATCGTAACCTTCACCTTAATTTTAATAT-AATTA
130 AACGT--GCCATTCGTTT-GATATAGATACGACCATATCCTTCACATTAATTTTAAT-TCAATTG
* * * *
6676924 GGGACAGATTCTCTCCCTATTCTCTAAAGGATGAATGAAAACAAGGAAGATAATCGATGTATGAT
191 GGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGAT
* * * ** * *
6676989 GTATCTATACAAAATTATGATTATATCACAGAGATCTGAAAACGT-TCCATGTGTTGGATAGTAG
256 GTATTTCTACAAAATTATGATTATATCGCTTAGATCTGAGAACGTGT-CATGTGTTGGATAGTTG
** *
6677053 GACAACCGTTGTCCC
320 GACAATTGTTGTTCC
* * * * * *
6677068 CACTATTGATTTTGGTTCTGTTCAAGAAAGTGAAAAAAGTTATGGGGGATTCAATGTATTTAATT
1 CATTATTGATTCTGGTTCT-TTGAGGAAAGTGAAAAAAGTTATGGGTGATTCAATGTAGTTAATT
* * *
6677133 CAAATCTGTCTTTCTCTATATGTCATACTTTATTTGAAATAACGATTATGTCTATCAAATCTAAG
65 CAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAACGATTATGTCTATCAAATCTAAG
* *
6677198 AACGTGCCATTCATTCGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGGGGA
130 AACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGGGGA
* *
6677263 CAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAAATAATCGATGTATGATGTAT
195 CAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGATGTAT
* * *
6677328 TTCTACAAAATTATGATTATATCACTTAGATCTAAGAACGTGTCATGTGTTGGATAGCTGGACAA
260 TTCTACAAAATTATGATTATATCGCTTAGATCTGAGAACGTGTCATGTGTTGGATAGTTGGACAA
6677393 TTGTTTGTTCC
325 TTG-TTGTTCC
* * * *
6677404 TATTATTGATTCTAGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATTTAGTTAATTC
1 CATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCAATGTAGTTAATTC
* * * * * * * *
6677469 AAATCT-TCCTTTTTCTATGTGTCATTCTTTGTTTGAAATAGA-GATTATGTCTTTCAGATCTAG
66 AAATATGT-CTTTCTCTATATGTCATACTTTGTCTGAAATA-ACGATTATGTCTATCAAATCTAA
* * * * * * * * * *
6677532 GAACATGTCGTTCGTCTGATATAGAAACGATCATAACCTGCACCTTAATTTTAATTCAATTGGGA
129 GAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGGGG
* * *
6677597 ACAAATTCTCTCCCTCTTCTCTAAAGGGTAATTTAAAATAAGGAAGATAATCCG-TGT-TGATGT
194 ACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAAT-CGATGTATGATGT
* * * * * ** *
6677660 ATTTGTACGAAATT-TCGATTATATTGCTTAGATCTGAGAGCATGTCATGTGTTGGATACCTAGA
258 ATTTCTACAAAATTAT-GATTATATCGCTTAGATCTGAGAACGTGTCATGTGTTGGATAGTTGGA
6677724 CAATTGTTGTTCC
322 CAATTGTTGTTCC
* * * * *
6677737 CATTATGGATTCTAGTTCATTGAGGAAAGTGAAAAAAGTTATAGGTGATTCGATGTAGTTAATTC
1 CATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCAATGTAGTTAATTC
*
6677802 AAATCTGTCTTTCTCTATATGTCATACTTTGTCTGAAATAACGATTATGTCTATCAAATCTAAGA
66 AAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAACGATTATGTCTATCAAATCTAAGA
* *
6677867 ACGTGCCATTTC-TTTGATAAAGATACGACCATATCCTTCACAGTAATTTTAATTCAATTGGGGA
131 ACGTGCCA-TTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGGGGA
* * * *
6677931 CAAATTCTCTCCCTTTTCTCTAAATGATGATTTAAAGCAAGGAAAATAATCGATGTATGATGTAT
195 CAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGATGTAT
* *
6677996 TTCTACAAAATTATGATTATATCGCTTAGATATGAGAACGTGTCATGTGTTGGATAGTTGGACGA
260 TTCTACAAAATTATGATTATATCGCTTAGATCTGAGAACGTGTCATGTGTTGGATAGTTGGACAA
6678061 TTGTTGTTCC
325 TTGTTGTTCC
* * *
6678071 CATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATAGGTGATTCGATGTTGTTAATTC
1 CATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCAATGTAGTTAATTC
* * *
6678136 AAATATGTCTTTCTCTATATGTCATACTTTTTCTGAAATAACGATTATGTCTATTAGATCTAAGA
66 AAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAACGATTATGTCTATCAAATCTAAGA
* *
6678201 ACATGCCATTCGTTTGATATACATACGACCATATCCTTCACATTAATTTTAATTCAATTGGGGAC
131 ACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGGGGAC
* * * * * *
6678266 AAATTCTCTTCCTTTTCTCTAAAGGTTGATTTAAAGCAAGGAAGATAATCAATGTATGATGTAAT
196 AAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGATGTATT
* *
6678331 TCTACAAAATTATGATTATATTGCTTAGATCTGAGAACGTGTCATGTATTGGATAGTTGGACAAT
261 TCTACAAAATTATGATTATATCGCTTAGATCTGAGAACGTGTCATGTGTTGGATAGTTGGACAAT
* *
6678396 TATTATTCC
326 TGTTGTTCC
* *
6678405 CATTATTGATTCTGGTTCTTTGAGTAAAGTGAAAAAAGTTATGGGTGATTCAATATAG-TAATTC
1 CATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCAATGTAGTTAATTC
* * *
6678469 AAATATGTCTTTCTCTATATGTCATACTTTGCCTGAAA-AATGATTATGTCTATCAAATATAA-A
66 AAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAACGATTATGTCTATCAAATCTAAGA
* * * * *
6678532 ACGTGCCATTTGTTTGATATAGATACGACTATATCCTTCACATTAATTTTAATTTAGTTGGCGAC
131 ACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGGGGAC
*
6678597 AAATCCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGA
196 AAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGA
6678639 TGAGAAAAAT
Statistics
Matches: 1372, Mismatches: 169, Indels: 51
0.86 0.11 0.03
Matches are distributed among these distances:
322 88 0.06
327 1 0.00
329 1 0.00
331 97 0.07
332 23 0.02
333 261 0.19
334 501 0.37
335 370 0.27
336 27 0.02
337 3 0.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (334 bp):
CATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCAATGTAGTTAATTC
AAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAACGATTATGTCTATCAAATCTAAGA
ACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGGGGAC
AAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGATGTATT
TCTACAAAATTATGATTATATCGCTTAGATCTGAGAACGTGTCATGTGTTGGATAGTTGGACAAT
TGTTGTTCC
Found at i:6683849 original size:336 final size:334
Alignment explanation
Indices: 6683233--6683882 Score: 876
Period size: 336 Copynumber: 1.9 Consensus size: 334
6683223 TTCTAACAAA
* * *
6683233 GGAAAATAATCGATGTATGATGTATTTCTTCAAAATTATGATTATACCGCGTAGACCTAAGAACG
1 GGAAAATAATCGATGTATGATGTATTTCTACAAAATTATAATTATACCGCGTAGACCTAAGAACA
* * * * * **
6683298 TGTCATGTGTTGGATAGCTGGACAATTGTTGTTCCTATTATTGATTCTAGTTCTTTGAGGAAAGT
66 TGTCATGTGTTGGATAGCTGGACAATTGATGTTCCCATTAGTAATTCTAGTTCTTGGAAAAAAGT
* * *
6683363 GAAAAAAGTTATGGGTGATTCAATGTAGTTATTTCAAATCTTTCTTTCTCTATATGTCATACTTT
131 AAAAAAAGTTATGGGTGATTCAATGTAGTTAATTCAAATCTTTCTTTCTCTATATATCATACTTT
* * * * * * * *
6683428 GTTTGAAATAGCTATTATGTCTTTCAGATCTAGGAACTTGCCATTCGTCTGATATAGAAACGACC
196 GTCTGAAATAGATAGTATATCTTTCAGATCTAAGAACGTGCCATCCGTCTAATATAGAAACGACC
6683493 GTAACCTTCAGCTTAATTTTAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCCAAAGGGTGAT
261 GTAACCTTCAGCTTAATTTTAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCCAAAGGGTGAT
6683558 TTAAAACAG
326 TTAAAACAG
* * * ** * *
6683567 GGAAGATAATCGGTGTATGATGTATTTGTACAAAATT-TCAATTATATTGCTTAGATCTAAGAAC
1 GGAAAATAATCGATGTATGATGTATTTCTACAAAATTAT-AATTATACCGCGTAGACCTAAGAAC
*
6683631 ATTTCATGTGTTGGATAG-TGGGACAATTGATGTTCCCATTAGTAATTCTAGTTCTGTGGAAAAA
65 ATGTCATGTGTTGGATAGCT-GGACAATTGATGTTCCCATTAGTAATTCTAGTTCT-TGGAAAAA
* *
6683695 AGTTAAAAAAAGTTATGGGTGATTCGATGTTGTTAATTCAAATCTTTCTTTCTCTATATATCATA
128 AG-TAAAAAAAGTTATGGGTGATTCAATGTAGTTAATTCAAATCTTTCTTTCTCTATATATCATA
* *
6683760 CTTTGTCTGAAATA-ATGAGTATATCTTTCAGATCTAAGAACGTGTCATCCGT-TCAATATAGAT
192 CTTTGTCTGAAATAGAT-AGTATATCTTTCAGATCTAAGAACGTGCCATCCGTCT-AATATAGAA
* * * * *
6683823 ATGATCGTAACGTTCAGCTTAATTTTAATTCAATTGGGGATAGATTCTCTCCCTCTTCTC
255 ACGACCGTAACCTTCAGCTTAATTTTAATTCAATTGGGAACAGATTCTCTCCCTCTTCTC
6683883 TTAAGGGAAA
Statistics
Matches: 272, Mismatches: 38, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
333 2 0.01
334 100 0.37
335 9 0.03
336 161 0.59
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (334 bp):
GGAAAATAATCGATGTATGATGTATTTCTACAAAATTATAATTATACCGCGTAGACCTAAGAACA
TGTCATGTGTTGGATAGCTGGACAATTGATGTTCCCATTAGTAATTCTAGTTCTTGGAAAAAAGT
AAAAAAAGTTATGGGTGATTCAATGTAGTTAATTCAAATCTTTCTTTCTCTATATATCATACTTT
GTCTGAAATAGATAGTATATCTTTCAGATCTAAGAACGTGCCATCCGTCTAATATAGAAACGACC
GTAACCTTCAGCTTAATTTTAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCCAAAGGGTGAT
TTAAAACAG
Found at i:6685534 original size:16 final size:16
Alignment explanation
Indices: 6685513--6685545 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6685503 TCCTTAATCT
6685513 TACCATTTAATCTTGG
1 TACCATTTAATCTTGG
6685529 TACCATTTAATCTTGG
1 TACCATTTAATCTTGG
6685545 T
1 T
6685546 TCATTTGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
TACCATTTAATCTTGG
Found at i:6686908 original size:35 final size:35
Alignment explanation
Indices: 6686869--6686939 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
6686859 AAAATATTTT
6686869 ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
1 ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
6686904 ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
1 ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
6686939 A
1 A
6686940 AGAAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (35 bp):
ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
Found at i:6688221 original size:99 final size:99
Alignment explanation
Indices: 6688118--6688327 Score: 280
Period size: 99 Copynumber: 2.1 Consensus size: 99
6688108 CAGGGAGCGC
* *
6688118 AGGGTTAACTCAGTTGAAGCAAATCAAT-TTAATAGTAATATTGGAAGTAGCCTCCTAGAAGATG
1 AGGGTTAACTCAGTTAAAGCAAAT-AATCTCAATAGTAATATTGGAAGTAGCCTCCTAGAAGATG
*
6688182 GAGTATATACAGCTCAACCGGTTTA-CTCAGAACGT
65 GAGTATATACAGCTAAACCGGTTTACCT-AGAACGT
* * * * *
6688217 AGGGTTAACTTAGTTAAAGCCAATAATCTCAATGGTCATGTTGGAAGTAGCCTCCTAGAAGATGG
1 AGGGTTAACTCAGTTAAAGCAAATAATCTCAATAGTAATATTGGAAGTAGCCTCCTAGAAGATGG
* * **
6688282 AGTTTATACAGCTAAATCGGTTTACCTAGAGTGT
66 AGTATATACAGCTAAACCGGTTTACCTAGAACGT
6688316 AGGGTTAACTCA
1 AGGGTTAACTCA
6688328 CTCCAAGAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
98 3 0.03
99 91 0.95
100 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (99 bp):
AGGGTTAACTCAGTTAAAGCAAATAATCTCAATAGTAATATTGGAAGTAGCCTCCTAGAAGATGG
AGTATATACAGCTAAACCGGTTTACCTAGAACGT
Found at i:6688347 original size:99 final size:99
Alignment explanation
Indices: 6688158--6688370 Score: 277
Period size: 99 Copynumber: 2.2 Consensus size: 99
6688148 AATAGTAATA
*
6688158 TTGGAAGTAGCCTCCTAGAAGATGGAGTATATACAGCTCAACCGGTTTACTCAGAACGTAGGGTT
1 TTGGAAGTAGCCTCCTAGAAGATGGAGTATATACAGCTAAACCGGTTTACTCAGAACGTAGGGTT
* * * * * * *
6688223 AACTTAGTTAAAGCCAATAATCTCAATGGTCATG
66 AACTCACTCAAAGCAAAAAAACTCAACGGTCATG
* * **
6688257 TTGGAAGTAGCCTCCTAGAAGATGGAGTTTATACAGCTAAATCGGTTTAC-CTAGAGTGTAGGGT
1 TTGGAAGTAGCCTCCTAGAAGATGGAGTATATACAGCTAAACCGGTTTACTC-AGAACGTAGGGT
*
6688321 TAACTCACTCCAAG-AAAAAACACTCAACGGTCATG
65 TAACTCACTCAAAGCAAAAAA-ACTCAACGGTCATG
6688356 TTGGAAGTAGCCTCC
1 TTGGAAGTAGCCTCC
6688371 AAGATGAGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
98 5 0.05
99 94 0.95
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (99 bp):
TTGGAAGTAGCCTCCTAGAAGATGGAGTATATACAGCTAAACCGGTTTACTCAGAACGTAGGGTT
AACTCACTCAAAGCAAAAAAACTCAACGGTCATG
Done.