Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 38
Found at i:6147144 original size:38 final size:37
Alignment explanation
Indices: 6147070--6147146 Score: 93
Period size: 39 Copynumber: 2.1 Consensus size: 37
6147060 GTTAAAAAAT
* *
6147070 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
6147107 ATTTATATAATTTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-A-TTTTCTTTAAAAAATTGAAAATCATAAA
6147145 AT
1 AT
6147147 GATTTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 8 0.24
38 8 0.24
39 18 0.53
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:6147299 original size:31 final size:31
Alignment explanation
Indices: 6147277--6147347 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
6147267 TTTATTATTC
6147277 AATTACAA-AAAAAAAGATATTTTTAAAAAAA
1 AATTA-AAGAAAAAAAGATATTTTTAAAAAAA
6147308 AATTAAAGAAAAAAAGATATTTTTAAAAAAA
1 AATTAAAGAAAAAAAGATATTTTTAAAAAAA
6147339 AATTAAAGA
1 AATTAAAGA
6147348 CATTTTAGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 2 0.05
31 37 0.95
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (31 bp):
AATTAAAGAAAAAAAGATATTTTTAAAAAAA
Found at i:6154585 original size:30 final size:29
Alignment explanation
Indices: 6154545--6154615 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
6154535 TTTATCGAGC
6154545 CAGTGGTATAATTGAAAGAAAGTCAAAGTT
1 CAGTGGTATAATTGAAA-AAAGTCAAAGTT
* * * *
6154575 CAGTGTTATAATTGGAAAAATTGAAAGTT
1 CAGTGGTATAATTGAAAAAAGTCAAAGTT
*
6154604 CAATGGTATAAT
1 CAGTGGTATAAT
6154616 GACATATCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 20 0.57
30 15 0.43
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (29 bp):
CAGTGGTATAATTGAAAAAAGTCAAAGTT
Found at i:6157811 original size:3 final size:3
Alignment explanation
Indices: 6157803--6157921 Score: 114
Period size: 3 Copynumber: 38.7 Consensus size: 3
6157793 AATGTAATTA
* * * *
6157803 AAT AAT AAT AAT AAT AACA AAT AAT AAT AAT AAC GAT GAT AGAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* *
6157850 AAT AAAT AAT CA- AAT AAT AAT AAT AAT AAAT AAT AAA AAT AAT AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * *
6157896 GAT GAT GAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6157922 CAAGAATAGG
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
2 1 0.01
3 87 0.88
4 11 0.11
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6157894 original size:59 final size:57
Alignment explanation
Indices: 6157797--6157916 Score: 179
Period size: 59 Copynumber: 2.1 Consensus size: 57
6157787 TTGAAAAATG
* *
6157797 TAATTAAATAATAATAATAATAACAAATAATAATAATAACGATGATAGATAATAATAAA
1 TAATCAAATAATAATAATAATAACAAATAAAAATAATAACGATGAT-GATAATAAT-AA
*
6157856 TAATCAAATAATAATAATAATAA-ATAATAAAAATAATAATGATGATGATAATAATAA
1 TAATCAAATAATAATAATAATAACA-AATAAAAATAATAACGATGATGATAATAATAA
6157913 TAAT
1 TAAT
6157917 AATAACAAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
57 6 0.11
58 10 0.18
59 41 0.72
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (57 bp):
TAATCAAATAATAATAATAATAACAAATAAAAATAATAACGATGATGATAATAATAA
Found at i:6160857 original size:14 final size:15
Alignment explanation
Indices: 6160838--6160867 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6160828 ATGCCTTATT
6160838 ACTTAAT-AGACTTG
1 ACTTAATCAGACTTG
6160852 ACTTAATCAGACTTG
1 ACTTAATCAGACTTG
6160867 A
1 A
6160868 GATCTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (15 bp):
ACTTAATCAGACTTG
Found at i:6164880 original size:24 final size:26
Alignment explanation
Indices: 6164820--6164881 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
6164810 GAGTTGAGGG
6164820 TTCTACGCGGT-CATTCAAGACAAAT
1 TTCTACGCGGTCCATTCAAGACAAAT
** *
6164845 TTCTACATGGTCCA-TCGAGACAAA-
1 TTCTACGCGGTCCATTCAAGACAAAT
*
6164869 TTCTACGGGGTCC
1 TTCTACGCGGTCC
6164882 TTTGTGACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 11 0.35
25 18 0.58
26 2 0.06
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (26 bp):
TTCTACGCGGTCCATTCAAGACAAAT
Found at i:6165349 original size:39 final size:34
Alignment explanation
Indices: 6165275--6165342 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
6165265 AAAAATTTCA
* * *
6165275 GGTTCGGGTTGGGTTTTTTTAAGTTTGATATTCG
1 GGTTCGGGTCGGGTTTTTTTAAGTGTAATATTCG
6165309 GGTTCGGGTCGGGTTTTTTTAAGTGTAATATTCG
1 GGTTCGGGTCGGGTTTTTTTAAGTGTAATATTCG
6165343 AGTCGGGGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.13, C:0.07, G:0.32, T:0.47
Consensus pattern (34 bp):
GGTTCGGGTCGGGTTTTTTTAAGTGTAATATTCG
Found at i:6165374 original size:134 final size:132
Alignment explanation
Indices: 6165220--6165471 Score: 314
Period size: 134 Copynumber: 1.9 Consensus size: 132
6165210 TGGTATTTGG
* *
6165220 GTCGGATTTTTTTTAAAAATTCCGAGAT-TGGTCAGA-TTTTTTTTAAAAAATTTC-AGGTTCGG
1 GTCGGATTTTTTTTAAAAATTCCGAGATCGGGTCAGATTTTTTTTTAAAAAA-TTCGAGGTT-AG
* * *
6165282 GTTGGGTTTTTTTAAGTTTGATATTCGGGTTCGGGTCGGGTTTTTTTAAGTGTAATATTCGAGTC
64 G-TCGATTTTTTTAAGTTTGATATTCAGG-TCGGGTCGGG--TTTTTAAGTGTAATATTCGAGTC
6165347 GGGGTCGA
125 GGGGTCGA
** * * *
6165355 GTCGG-TTTTTTTTTTAAATTTCGGGATCGGGTCAGATTTTTTTTTAAAAAATTCGGGGTTAGGT
1 GTCGGATTTTTTTTAAAAATTCCGAGATCGGGTCAGATTTTTTTTTAAAAAATTCGAGGTTAGGT
* *
6165419 CGATTTTTTTAAGTTTGATATTTAGGTCGGGTCGGGTTTTTAAGTGTGATATT
66 CGATTTTTTTAAGTTTGATATTCAGGTCGGGTCGGGTTTTTAAGTGTAATATT
6165472 TGGGTCAGGT
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
131 16 0.16
133 10 0.10
134 41 0.40
135 17 0.17
136 18 0.18
ACGTcount: A:0.20, C:0.08, G:0.26, T:0.46
Consensus pattern (132 bp):
GTCGGATTTTTTTTAAAAATTCCGAGATCGGGTCAGATTTTTTTTTAAAAAATTCGAGGTTAGGT
CGATTTTTTTAAGTTTGATATTCAGGTCGGGTCGGGTTTTTAAGTGTAATATTCGAGTCGGGGTC
GA
Found at i:6165379 original size:30 final size:30
Alignment explanation
Indices: 6165345--6165402 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6165335 AATATTCGAG
* * *
6165345 TCGGGGTCGAGTCGGTTTTTTTTTTAAATT
1 TCGGGATCGAGTCAGATTTTTTTTTAAATT
*
6165375 TCGGGATCGGGTCAGATTTTTTTTTAAA
1 TCGGGATCGAGTCAGATTTTTTTTTAAA
6165403 AAATTCGGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.47
Consensus pattern (30 bp):
TCGGGATCGAGTCAGATTTTTTTTTAAATT
Found at i:6165410 original size:32 final size:30
Alignment explanation
Indices: 6165355--6165428 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
6165345 TCGGGGTCGA
* * * *
6165355 GTCGGTTTTTTTTTTAAATTTCGGGATCGG
1 GTCGATTTTTTTTTAAAAATTCGGGATCAG
* *
6165385 GTCAGATTTTTTTTTAAAAAATTCGGGGTTAG
1 GTC-GATTTTTTTTT-AAAAATTCGGGATCAG
6165417 GTCGATTTTTTT
1 GTCGATTTTTTT
6165429 AAGTTTGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 3 0.08
31 19 0.53
32 14 0.39
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.50
Consensus pattern (30 bp):
GTCGATTTTTTTTTAAAAATTCGGGATCAG
Found at i:6166050 original size:18 final size:16
Alignment explanation
Indices: 6166010--6166056 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
6166000 GATTCAGATT
6166010 CAGATTCCAATTCCTA
1 CAGATTCCAATTCCTA
* *
6166026 TAGATTCCAATTCATTCA
1 CAGATTCCAATTC-CT-A
6166044 CAGATTCCAATTC
1 CAGATTCCAATTC
6166057 TCTCATAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 13 0.50
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (16 bp):
CAGATTCCAATTCCTA
Found at i:6172699 original size:8 final size:8
Alignment explanation
Indices: 6172686--6172719 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
6172676 ACCACAACGA
6172686 TTAATTTG
1 TTAATTTG
6172694 TTAATTTG
1 TTAATTTG
6172702 TTAATTTG
1 TTAATTTG
*
6172710 TTAATCTG
1 TTAATTTG
6172718 TT
1 TT
6172720 TTTCAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.62
Consensus pattern (8 bp):
TTAATTTG
Found at i:6180422 original size:20 final size:20
Alignment explanation
Indices: 6180393--6180436 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6180383 AGGATATCGG
*
6180393 TACTGAAAGAATAATACCGA
1 TACTGAAAGAACAATACCGA
* *
6180413 TACTGGAAGAACAATACTGA
1 TACTGAAAGAACAATACCGA
6180433 TACT
1 TACT
6180437 ATAAGGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (20 bp):
TACTGAAAGAACAATACCGA
Found at i:6182854 original size:18 final size:19
Alignment explanation
Indices: 6182833--6182870 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
6182823 AAATCATAGA
*
6182833 AAAGAA-TAATTATCCATT
1 AAAGAACTAATCATCCATT
6182851 AAAGAACTTAATCATCCATT
1 AAAGAAC-TAATCATCCATT
6182871 GTGAACTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAGAACTAATCATCCATT
Found at i:6183704 original size:19 final size:19
Alignment explanation
Indices: 6183680--6183721 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
6183670 TATCAGCTAT
6183680 TCACGAAAGCATTAGCGAC
1 TCACGAAAGCATTAGCGAC
6183699 TCACGAAAGCATTAGCGAC
1 TCACGAAAGCATTAGCGAC
6183718 TCAC
1 TCAC
6183722 TCTCACTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.17
Consensus pattern (19 bp):
TCACGAAAGCATTAGCGAC
Found at i:6185095 original size:2 final size:2
Alignment explanation
Indices: 6185088--6185122 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6185078 ATATAGACAA
6185088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6185123 AGACAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6186518 original size:3 final size:3
Alignment explanation
Indices: 6186510--6186600 Score: 146
Period size: 3 Copynumber: 29.7 Consensus size: 3
6186500 AATGTAATTA
* *
6186510 AAT AAT AAT AAC AAT ACT AAT AAT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
6186556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA
6186601 ATAACCCAGA
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
3 76 0.93
4 6 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6186549 original size:34 final size:34
Alignment explanation
Indices: 6186508--6186600 Score: 152
Period size: 34 Copynumber: 2.7 Consensus size: 34
6186498 AAAATGTAAT
* *
6186508 TAAATAATAATAACAATACTAATAATAATAATAA
1 TAAATAATAATAATAATAATAATAATAATAATAA
6186542 TAAATAATAATAATAATAATAATAATAATAATAA
1 TAAATAATAATAATAATAATAATAATAATAATAA
6186576 T-AATAATAAATAATAATAATAATAA
1 TAAATAAT-AATAATAATAATAATAA
6186601 ATAACCCAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 6 0.11
34 50 0.89
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (34 bp):
TAAATAATAATAATAATAATAATAATAATAATAA
Found at i:6186571 original size:40 final size:40
Alignment explanation
Indices: 6186510--6186600 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
6186500 AATGTAATTA
*
6186510 AATAATAATAACAATACTAATAATAATAATAATAAATAAT
1 AATAATAATAACAATAATAATAATAATAATAATAAATAAT
*
6186550 AATAATAATAATAATAATAATAATAATAATAATAAATAAT
1 AATAATAATAACAATAATAATAATAATAATAATAAATAAT
6186590 AATAATAATAA
1 AATAATAATAA
6186601 ATAACCCAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (40 bp):
AATAATAATAACAATAATAATAATAATAATAATAAATAAT
Found at i:6188057 original size:24 final size:24
Alignment explanation
Indices: 6188025--6188083 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
6188015 GATGCCAAAA
*
6188025 TTTGATGAAGAAGTTTTGAA-AATG
1 TTTGATGAAGAA-TTTTAAATAATG
6188049 CTTT-ATGAAAGAATTTTAAATAATG
1 -TTTGATG-AAGAATTTTAAATAATG
6188074 TTTGATGAAG
1 TTTGATGAAG
6188084 TTTTTGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATGAAGAATTTTAAATAATG
Found at i:6188061 original size:25 final size:25
Alignment explanation
Indices: 6188025--6188082 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
6188015 GATGCCAAAA
*
6188025 TTTGATG-AAGAAGTTTTGAA-AATG
1 TTTGATGAAAGAA-TTTTAAATAATG
6188049 CTTT-ATGAAAGAATTTTAAATAATG
1 -TTTGATGAAAGAATTTTAAATAATG
6188074 TTTGATGAA
1 TTTGATGAA
6188083 GTTTTTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (25 bp):
TTTGATGAAAGAATTTTAAATAATG
Found at i:6189227 original size:21 final size:22
Alignment explanation
Indices: 6189201--6189241 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6189191 CCAGGACAGG
*
6189201 GAGTATCGGTACT-CCTTTAAT
1 GAGTATCGATACTACCTTTAAT
6189222 GAGTATCGATACTACCTTTA
1 GAGTATCGATACTACCTTTA
6189242 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGTATCGATACTACCTTTAAT
Found at i:6191315 original size:3 final size:3
Alignment explanation
Indices: 6191307--6191347 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
6191297 AAATGTCTAC
6191307 CTT CTT CTT CTT CTT GCTT -TT CTT -TT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT
6191348 ATTTTACCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:6191352 original size:20 final size:20
Alignment explanation
Indices: 6191311--6191352 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6191301 GTCTACCTTC
*
6191311 TTCTTCTTCTTGCTTTTCTT
1 TTCTTCTTCTTGCTTTTATT
6191331 TTCTTCTTCTT-CTTCTTATT
1 TTCTTCTTCTTGCTT-TTATT
6191351 TT
1 TT
6191353 ACCATCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (20 bp):
TTCTTCTTCTTGCTTTTATT
Found at i:6196322 original size:43 final size:43
Alignment explanation
Indices: 6196230--6196322 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
6196220 AAACAAATTA
*
6196230 ATTTAAAAATAATTATGACTTTATTTTGGAAAATGTGAATTTTT
1 ATTT-AAAATAATTATGACTTTATTTTGGAAAATGTGAATTTTG
* * * *
6196274 ATTTAAAATAATTATG-GTTCTATTTTGGAAATTTTGGATTTTG
1 ATTTAAAATAATTATGACTT-TATTTTGGAAAATGTGAATTTTG
*
6196317 GTTTAA
1 ATTTAA
6196323 TTTGAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.05
43 36 0.86
44 4 0.10
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.49
Consensus pattern (43 bp):
ATTTAAAATAATTATGACTTTATTTTGGAAAATGTGAATTTTG
Found at i:6197151 original size:2 final size:2
Alignment explanation
Indices: 6197144--6197169 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6197134 AATTAACATA
6197144 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6197170 TGTTAGAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6198597 original size:2 final size:2
Alignment explanation
Indices: 6198590--6198628 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6198580 CGATCCCAAC
6198590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6198629 AGGAATTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6198747 original size:18 final size:17
Alignment explanation
Indices: 6198726--6198772 Score: 69
Period size: 16 Copynumber: 2.7 Consensus size: 17
6198716 TATAGATAAA
6198726 TATACTTATATAACAAAT
1 TATA-TTATATAACAAAT
6198744 TATA-TATATAACAAAT
1 TATATTATATAACAAAT
6198760 TATATATATATAA
1 TATAT-TATATAA
6198773 GACAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 16 0.59
18 11 0.41
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (17 bp):
TATATTATATAACAAAT
Found at i:6198751 original size:16 final size:16
Alignment explanation
Indices: 6198732--6198769 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
6198722 TAAATATACT
6198732 TATATAACAAATTATA
1 TATATAACAAATTATA
6198748 TATATAACAAATTATA
1 TATATAACAAATTATA
6198764 TATATA
1 TATATA
6198770 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
TATATAACAAATTATA
Found at i:6203660 original size:13 final size:13
Alignment explanation
Indices: 6203642--6203680 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6203632 TAACACAATG
6203642 TTGTTTTTTGTTT
1 TTGTTTTTTGTTT
6203655 TTGTTTTTGTGTTT
1 TTGTTTTT-TGTTT
* *
6203669 TTATTTATTGTT
1 TTGTTTTTTGTT
6203681 ACCGCATTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.05, C:0.00, G:0.15, T:0.79
Consensus pattern (13 bp):
TTGTTTTTTGTTT
Found at i:6209165 original size:12 final size:12
Alignment explanation
Indices: 6209148--6209172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6209138 AATTAAAATT
6209148 ATTTTTTTATTA
1 ATTTTTTTATTA
6209160 ATTTTTTTATTA
1 ATTTTTTTATTA
6209172 A
1 A
6209173 AAATGACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTTTTTATTA
Found at i:6211349 original size:12 final size:12
Alignment explanation
Indices: 6211332--6211434 Score: 54
Period size: 12 Copynumber: 8.6 Consensus size: 12
6211322 AAACATAATC
*
6211332 CAGGTCAAGTAT
1 CAGGTCAAGAAT
6211344 CAGGTCAA-AAT
1 CAGGTCAAGAAT
6211355 CCAGGTCAAGAATT
1 -CAGGTCAAGAA-T
*
6211369 C-GATC-AGAAT
1 CAGGTCAAGAAT
*
6211379 CCAGGTCAAGTAT
1 -CAGGTCAAGAAT
* *
6211392 CCGATC-AGAAT
1 CAGGTCAAGAAT
*
6211403 CCAGGTCAAGTAT
1 -CAGGTCAAGAAT
* *
6211416 CCGATC-AGAAT
1 CAGGTCAAGAAT
6211427 CCAGGTCA
1 -CAGGTCA
6211435 GGTATTATAA
Statistics
Matches: 66, Mismatches: 15, Indels: 19
0.66 0.15 0.19
Matches are distributed among these distances:
10 1 0.02
11 15 0.23
12 38 0.58
13 11 0.17
14 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (12 bp):
CAGGTCAAGAAT
Found at i:6211355 original size:24 final size:24
Alignment explanation
Indices: 6211328--6211439 Score: 170
Period size: 24 Copynumber: 4.7 Consensus size: 24
6211318 GTCAAAACAT
* * *
6211328 AATCCAGGTCAAGTATCAGGTCAA
1 AATCCAGGTCAAGTATCCGATCAG
* *
6211352 AATCCAGGTCAAGAATTCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
6211376 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
6211400 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
*
6211424 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
6211440 TATAATAGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:6213963 original size:18 final size:18
Alignment explanation
Indices: 6213936--6213977 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6213926 CAACGGTCAA
*
6213936 CGGGTTAACGGGTCAGGT
1 CGGGTCAACGGGTCAGGT
*
6213954 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCAGGT
6213972 CGGGTC
1 CGGGTC
6213978 GGGTTATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.21, G:0.48, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCAGGT
Found at i:6216023 original size:24 final size:24
Alignment explanation
Indices: 6216006--6216117 Score: 163
Period size: 24 Copynumber: 4.7 Consensus size: 24
6215996 ATCAAAACAT
* *
6216006 AATCCAGGTCAAGTATCAGGTCAA
1 AATCCAGGTCAAGTATCAGATCAG
6216030 AATCCAGGTCAAGTATTC-GATCAG
1 AATCCAGGTCAAGTA-TCAGATCAG
*
6216054 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
*
6216078 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
*
6216102 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
6216118 TATAATAGAA
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
23 2 0.02
24 79 0.95
25 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAG
Found at i:6216027 original size:12 final size:12
Alignment explanation
Indices: 6216010--6216094 Score: 52
Period size: 12 Copynumber: 7.1 Consensus size: 12
6216000 AAACATAATC
6216010 CAGGTCAAGTAT
1 CAGGTCAAGTAT
*
6216022 CAGGTCAA-AAT
1 CAGGTCAAGTAT
6216033 CCAGGTCAAGTATT
1 -CAGGTCAAGTA-T
* *
6216047 C-GATC-AGAAT
1 CAGGTCAAGTAT
6216057 CCAGGTCAAGTAT
1 -CAGGTCAAGTAT
* * *
6216070 CCGATC-AGAAT
1 CAGGTCAAGTAT
6216081 CCAGGTCAAGTAT
1 -CAGGTCAAGTAT
6216094 C
1 C
6216095 CGATCAGAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
10 1 0.02
11 10 0.19
12 31 0.58
13 10 0.19
14 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (12 bp):
CAGGTCAAGTAT
Found at i:6218443 original size:13 final size:13
Alignment explanation
Indices: 6218427--6218456 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6218417 CAACGGGTCA
6218427 GGTCGGGTAAGCG
1 GGTCGGGTAAGCG
*
6218440 GGTCGGGTCAGCG
1 GGTCGGGTAAGCG
6218453 GGTC
1 GGTC
6218457 AGTCGGTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.53, T:0.17
Consensus pattern (13 bp):
GGTCGGGTAAGCG
Found at i:6224093 original size:20 final size:20
Alignment explanation
Indices: 6224070--6224109 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6224060 ATTCATATTT
*
6224070 AATAAAATATAAAAATATAA
1 AATAAAATAGAAAAATATAA
* *
6224090 AATAATATAGACAAATATAA
1 AATAAAATAGAAAAATATAA
6224110 TTATATAATT
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:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (20 bp):
AATAAAATAGAAAAATATAA
Found at i:6224096 original size:18 final size:19
Alignment explanation
Indices: 6224075--6224144 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
6224065 TATTTAATAA
6224075 AATATAA-AAATATAAAAT
1 AATATAACAAATATAAAAT
6224093 AATATAGACAAATAT--AAT
1 AATATA-ACAAATATAAAAT
* *
6224111 TATATAATTAAATATAAAAT
1 AATATAA-CAAATATAAAAT
*
6224131 -ATAAAACAAATATA
1 AATATAACAAATATA
6224145 TATATATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 1 0.02
18 27 0.63
19 6 0.14
20 9 0.21
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (19 bp):
AATATAACAAATATAAAAT
Found at i:6224116 original size:36 final size:36
Alignment explanation
Indices: 6224076--6224164 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 36
6224066 ATTTAATAAA
*
6224076 ATATAAAAATATAAAATAATATAGACAAATATA-AT-T
1 ATATAAAAATATAAAAT-ATA-AAACAAATATATATAT
6224112 ATATAATTAAATATAAAATATAAAACAAATATATATAT
1 ATATAA--AAATATAAAATATAAAACAAATATATATAT
*
6224150 ATATATAAAAGATAA
1 ATATA-AAAATATAA
6224165 TAATGTACAC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
36 16 0.35
37 12 0.26
38 17 0.37
39 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (36 bp):
ATATAAAAATATAAAATATAAAACAAATATATATAT
Found at i:6224130 original size:38 final size:38
Alignment explanation
Indices: 6224082--6224154 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
6224072 TAAAATATAA
*
6224082 AAATATAAAATAATATAGACAAATATA-AT-TATATAATT
1 AAATATAAAAT-ATA-AAACAAATATATATATATATAATT
6224120 AAATATAAAATATAAAACAAATATATATATATATA
1 AAATATAAAATATAAAACAAATATATATATATATA
6224155 TAAAAGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 10 0.31
37 5 0.16
38 17 0.53
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (38 bp):
AAATATAAAATATAAAACAAATATATATATATATAATT
Found at i:6225749 original size:24 final size:22
Alignment explanation
Indices: 6225717--6225765 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
6225707 TTACTATTAT
* *
6225717 ATATATATTTATGAATATATAAAA
1 ATATATATTCAT-AA-AAATAAAA
*
6225741 ATATTTATTCATAAAAATAAAA
1 ATATATATTCATAAAAATAAAA
6225763 ATA
1 ATA
6225766 CTATTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 2 0.09
24 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATATATTCATAAAAATAAAA
Found at i:6227255 original size:12 final size:12
Alignment explanation
Indices: 6227167--6227260 Score: 88
Period size: 12 Copynumber: 7.8 Consensus size: 12
6227157 AATTAATAAT
6227167 AATAATAATAAT-
1 AATAATAAT-ATG
6227179 AATAATAATAAT-
1 AATAATAAT-ATG
6227191 AATAATAATAAT-
1 AATAATAAT-ATG
6227203 AATAATAATAAT-
1 AATAATAAT-ATG
*
6227215 AATAATAATATT
1 AATAATAATATG
*
6227227 AATAATAATATT
1 AATAATAATATG
6227239 AATAATAATATG
1 AATAATAATATG
* *
6227251 GATAAAAATA
1 AATAATAATA
6227261 ATATGGATAA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
11 2 0.03
12 76 0.97
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AATAATAATATG
Found at i:6227260 original size:15 final size:15
Alignment explanation
Indices: 6227242--6227273 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6227232 TAATATTAAT
6227242 AATAATATGGATAAA
1 AATAATATGGATAAA
6227257 AATAATATGGATAAA
1 AATAATATGGATAAA
6227272 AA
1 AA
6227274 ATAGTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (15 bp):
AATAATATGGATAAA
Found at i:6227263 original size:3 final size:3
Alignment explanation
Indices: 6227160--6227248 Score: 160
Period size: 3 Copynumber: 29.7 Consensus size: 3
6227150 TAATATAAAT
6227160 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
6227208 TAA TAA TAA TAA TAA TAT TAA TAA TAA TAT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6227249 TGGATAAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6228225 original size:113 final size:113
Alignment explanation
Indices: 6227554--6228194 Score: 1104
Period size: 113 Copynumber: 5.7 Consensus size: 113
6227544 AGATAATATC
* * * *
6227554 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
6227618 TCATTCATGAACTTTCTTTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
6227667 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
6227732 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
6227780 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
6227845 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
6227893 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
6227958 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*** * *
6228006 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
6228071 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*** * * *
6228119 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
6228184 TCATTATGAAC
66 TCATTATGAAC
6228195 TCTACCTTGC
Statistics
Matches: 514, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
113 453 0.88
114 61 0.12
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (113 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
Found at i:6228936 original size:52 final size:52
Alignment explanation
Indices: 6228869--6229061 Score: 377
Period size: 52 Copynumber: 3.7 Consensus size: 52
6228859 ATTATGTCCA
*
6228869 ATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
6228921 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
6228973 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
6229025 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
6229062 TGGCAAATTC
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 140 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (52 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
Found at i:6229112 original size:182 final size:182
Alignment explanation
Indices: 6228921--6229255 Score: 661
Period size: 182 Copynumber: 1.8 Consensus size: 182
6228911 GTCCAACCAG
6228921 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
6228986 AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
66 AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
6229051 GAAGATGCTATTGGCAAATTCATATTCTAAATTCAATGCTTGATTCTGTCCA
131 GAAGATGCTATTGGCAAATTCATATTCTAAATTCAATGCTTGATTCTGTCCA
6229103 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
6229168 AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
66 AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
*
6229233 GAAGATGCTATTGGCATATTCAT
131 GAAGATGCTATTGGCAAATTCAT
6229256 TTGTTCCAGT
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 152 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (182 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
GAAGATGCTATTGGCAAATTCATATTCTAAATTCAATGCTTGATTCTGTCCA
Found at i:6229174 original size:52 final size:52
Alignment explanation
Indices: 6229103--6229243 Score: 282
Period size: 52 Copynumber: 2.7 Consensus size: 52
6229093 ATTCTGTCCA
6229103 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
6229155 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
6229207 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
6229244 TGGCATATTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (52 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
Found at i:6229205 original size:234 final size:234
Alignment explanation
Indices: 6228790--6229243 Score: 863
Period size: 234 Copynumber: 1.9 Consensus size: 234
6228780 CACTTCTTCG
* *
6228790 GATCAAATAACTCAAATAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
1 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
*
6228855 CTTGATTATGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCA
66 CTTGATTATGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
6228920 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
131 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
6228985 AAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
196 AAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
6229024 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
1 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
*
6229089 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 CTTGATTATGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
6229154 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
131 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
6229219 AAAGAACACTTCCAGAAGATGCTAT
196 AAAGAACACTTCCAGAAGATGCTAT
6229244 TGGCATATTC
Statistics
Matches: 215, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
234 215 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (234 bp):
GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
CTTGATTATGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
AAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:6230052 original size:16 final size:17
Alignment explanation
Indices: 6230014--6230058 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
6230004 AATATAAAAT
*
6230014 AATAAATTGAATTTCAAA
1 AATAAATTGAATCTC-AA
6230032 AATAAATTGAATCTC-A
1 AATAAATTGAATCTCAA
6230048 AATAAATTGAA
1 AATAAATTGAA
6230059 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:6241781 original size:24 final size:22
Alignment explanation
Indices: 6241749--6241797 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
6241739 TTACTATTAT
* *
6241749 ATATATATTTATGAATATATAAAA
1 ATATATATTCAT-AA-AAATAAAA
*
6241773 ATATTTATTCATAAAAATAAAA
1 ATATATATTCATAAAAATAAAA
6241795 ATA
1 ATA
6241798 CTATTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 2 0.09
24 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATATATTCATAAAAATAAAA
Found at i:6243318 original size:15 final size:15
Alignment explanation
Indices: 6243300--6243331 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6243290 TAATATTAAT
6243300 AATAATATGGATAAA
1 AATAATATGGATAAA
6243315 AATAATATGGATAAA
1 AATAATATGGATAAA
6243330 AA
1 AA
6243332 ATAGTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (15 bp):
AATAATATGGATAAA
Found at i:6243321 original size:3 final size:3
Alignment explanation
Indices: 6243205--6243306 Score: 168
Period size: 3 Copynumber: 33.7 Consensus size: 3
6243195 TAATATAAAT
6243205 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
6243253 TAA TAA TAA TAAA TAA TAT TAA TAA TAA TAT TAA TAA TAA TAT TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6243299 TAA TAA TA
1 TAA TAA TA
6243307 TGGATAAAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
3 89 0.97
4 3 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6244409 original size:129 final size:130
Alignment explanation
Indices: 6244229--6244488 Score: 495
Period size: 129 Copynumber: 2.0 Consensus size: 130
6244219 CCATGTACAA
6244229 GCACTTTTAGAATTGGAGTTATTGCATGTCTTTCTTTGAAAAGGATAATATTATTAAAGTTAAAT
1 GCACTTTTAGAATTGGAGTTATTGCATGTCTTTCTTTGAAAAGGATAATATTATTAAAGTTAAAT
*
6244294 TAAGAACCAACCAAAGTTAAAGATTTCATTAAAAAAAACTTAAGCTTAAAT-AAGGAAAAAGAGT
66 TAAGAACCAACCAAAGTTAAAGATTTCAGTAAAAAAAACTTAAGCTTAAATGAAGGAAAAAGAGT
6244358 GCACTTTTAGAATTGGAGTTATTGCATGTCTTTCTTTGAAAAGGATAATATTATTAAAGTTAAAT
1 GCACTTTTAGAATTGGAGTTATTGCATGTCTTTCTTTGAAAAGGATAATATTATTAAAGTTAAAT
*
6244423 TAAGAACCAACCAAAGTTAAAGATTTCAGTAAAAAAAACTTAAGCTTAAATGGAGGAAAAAGAGT
66 TAAGAACCAACCAAAGTTAAAGATTTCAGTAAAAAAAACTTAAGCTTAAATGAAGGAAAAAGAGT
6244488 G
1 G
6244489 TCCATTGCCA
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
129 115 0.90
130 13 0.10
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (130 bp):
GCACTTTTAGAATTGGAGTTATTGCATGTCTTTCTTTGAAAAGGATAATATTATTAAAGTTAAAT
TAAGAACCAACCAAAGTTAAAGATTTCAGTAAAAAAAACTTAAGCTTAAATGAAGGAAAAAGAGT
Found at i:6246052 original size:38 final size:38
Alignment explanation
Indices: 6245978--6246052 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 38
6245968 TCGGGTCGGT
* * * *
6245978 CGGGTTGGGTTCGGGTCGGGTGGAGGGTATATATTTTC
1 CGGGTTGGGTTCGGGTCAGGTGAAGGATATAAATTTTC
*
6246016 CGGGTTTGG-TCGGGTCAGGTGAAGGATATAAAATTTT
1 CGGGTTGGGTTCGGGTCAGGTGAAGGATAT-AAATTTT
6246053 TGGGTCAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.17, C:0.09, G:0.40, T:0.33
Consensus pattern (38 bp):
CGGGTTGGGTTCGGGTCAGGTGAAGGATATAAATTTTC
Found at i:6254886 original size:6 final size:6
Alignment explanation
Indices: 6254875--6254907 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
6254865 AGCTATTCAA
6254875 CTTTTC CTTTTC CTTTTC CTTTTC CTTTTC CTT
1 CTTTTC CTTTTC CTTTTC CTTTTC CTTTTC CTT
6254908 ATGTGGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
CTTTTC
Found at i:6255174 original size:15 final size:15
Alignment explanation
Indices: 6255154--6255182 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6255144 GGCAATTAAG
6255154 TGCATATGCAATTGT
1 TGCATATGCAATTGT
6255169 TGCATATGCAATTG
1 TGCATATGCAATTG
6255183 ATTTGCGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (15 bp):
TGCATATGCAATTGT
Found at i:6256567 original size:19 final size:18
Alignment explanation
Indices: 6256528--6256568 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6256518 AGTATTTGTC
*
6256528 ATTTTAATAAAAATAATA
1 ATTTTAATAAAAATAAAA
*
6256546 ATTTTAATTAAAATAACAA
1 ATTTTAATAAAAATAA-AA
6256565 ATTT
1 ATTT
6256569 GCGGTCTGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTTAATAAAAATAAAA
Found at i:6256795 original size:25 final size:25
Alignment explanation
Indices: 6256763--6256810 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
6256753 AAACACAATG
6256763 ATATTTAATTATTTCGAGAAAAAGT
1 ATATTTAATTATTTCGAGAAAAAGT
6256788 ATATTTAATTATTTCGAGAAAAA
1 ATATTTAATTATTTCGAGAAAAA
6256811 TTAACCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (25 bp):
ATATTTAATTATTTCGAGAAAAAGT
Found at i:6260597 original size:28 final size:27
Alignment explanation
Indices: 6260544--6260608 Score: 103
Period size: 28 Copynumber: 2.4 Consensus size: 27
6260534 AAAAATCGGG
* *
6260544 TTCGGGTCGGGTTTTTTAAGTTTGATA
1 TTCGGGTCGGCTTTTTTAAGTGTGATA
6260571 TTCGGGTCAGGCTTTTTTAAGTGTGATA
1 TTCGGGTC-GGCTTTTTTAAGTGTGATA
6260599 TTCGGGTCGG
1 TTCGGGTCGG
6260609 GTTGGATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 10 0.29
28 25 0.71
ACGTcount: A:0.14, C:0.11, G:0.32, T:0.43
Consensus pattern (27 bp):
TTCGGGTCGGCTTTTTTAAGTGTGATA
Found at i:6260624 original size:32 final size:32
Alignment explanation
Indices: 6260539--6260641 Score: 115
Period size: 32 Copynumber: 3.3 Consensus size: 32
6260529 TAAAAAAAAA
* *
6260539 TCGGGTTCGGGTCGGGTTTTTTAAGTTTGATAT
1 TCGGG-TCGGGTAGGATTTTTTAAGTTTGATAT
* *
6260572 TCGGGTC----AGGCTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTAGGATTTTTTAAGTTTGATAT
*
6260600 TCGGGTCGGGTTGGATTTTTTAAGTTTGATAT
1 TCGGGTCGGGTAGGATTTTTTAAGTTTGATAT
*
6260632 TCAGGTCGGG
1 TCGGGTCGGG
6260642 ACGGGTAGGG
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
28 25 0.42
32 29 0.49
33 5 0.08
ACGTcount: A:0.15, C:0.10, G:0.33, T:0.43
Consensus pattern (32 bp):
TCGGGTCGGGTAGGATTTTTTAAGTTTGATAT
Found at i:6261252 original size:16 final size:16
Alignment explanation
Indices: 6261231--6261286 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
6261221 AGGTTTCAGA
6261231 TTCAGATTCCAATTCC
1 TTCAGATTCCAATTCC
6261247 TTCAGATTCCAATTCC
1 TTCAGATTCCAATTCC
*
6261263 TTTACAGATTCTAATTCC
1 -TT-CAGATTCCAATTCC
*
6261281 CTCAGA
1 TTCAGA
6261287 AACATTCCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
16 20 0.56
17 3 0.08
18 13 0.36
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.38
Consensus pattern (16 bp):
TTCAGATTCCAATTCC
Found at i:6263160 original size:33 final size:33
Alignment explanation
Indices: 6263123--6263185 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
6263113 TTCCTCCGGA
*
6263123 ACCTCCTGCCCCAATTAGAGCCAGTCCTCCACC
1 ACCTCCTCCCCCAATTAGAGCCAGTCCTCCACC
* * *
6263156 ACCTCCTCCCCCCATTAGTGCCAGTTCTCC
1 ACCTCCTCCCCCAATTAGAGCCAGTCCTCC
6263186 TGTGCCACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.17, C:0.49, G:0.11, T:0.22
Consensus pattern (33 bp):
ACCTCCTCCCCCAATTAGAGCCAGTCCTCCACC
Found at i:6268008 original size:20 final size:20
Alignment explanation
Indices: 6267979--6268016 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6267969 TTTCAAAGGA
6267979 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
6267999 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
6268017 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:6268071 original size:64 final size:66
Alignment explanation
Indices: 6267979--6268188 Score: 227
Period size: 65 Copynumber: 3.2 Consensus size: 66
6267969 TTTCAAAGGA
* * * *
6267979 ATGCACCGATGCAC-CAATCCATGCATCGATGCAC-CAATGAATAAATTG-AACATCGAATGCAT
1 ATGCATCGATGCACAC-AGCCATGCATCGATGCACTC-ATGGATATATTGAAACATCGAATGCAT
6268041 TTT
64 TTT
* * *
6268044 ATGCATCAATGCACACA-CCATGCATCGATGCACTCATGGTTTTA-TGAAAACATCGAATGCATT
1 ATGCATCGATGCACACAGCCATGCATCGATGCACTCATGGATATATTG-AAACATCGAATGCATT
*
6268107 TG
65 TT
* * * * *
6268109 ATGCATCGATGCACA-AGACATGCATTGATGCACTCA-GGCTATTTTGAAACATCAAATGCATTT
1 ATGCATCGATGCACACAGCCATGCATCGATGCACTCATGGATATATTGAAACATCGAATGCATTT
6268172 T
66 T
6268173 ATGCATCGATGCACAC
1 ATGCATCGATGCACAC
6268189 TTAGTGCACC
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
63 2 0.02
64 57 0.46
65 63 0.51
66 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (66 bp):
ATGCATCGATGCACACAGCCATGCATCGATGCACTCATGGATATATTGAAACATCGAATGCATTT
T
Found at i:6274057 original size:23 final size:21
Alignment explanation
Indices: 6274007--6274066 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 21
6273997 ATCCCTTTGT
*
6274007 ATGTGCATTGATACA-TCATGA
1 ATGTGCA-TGATGCACTCATGA
6274028 A-GATGCACTGATGCACTCATTGA
1 ATG-TGCA-TGATGCACTCA-TGA
6274051 ATGTGCATCGATGCAC
1 ATGTGCAT-GATGCAC
6274067 AAGGCCATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.03
21 11 0.34
22 4 0.12
23 15 0.47
24 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (21 bp):
ATGTGCATGATGCACTCATGA
Found at i:6276832 original size:65 final size:66
Alignment explanation
Indices: 6276763--6276920 Score: 209
Period size: 65 Copynumber: 2.4 Consensus size: 66
6276753 TAAATTGAAC
*
6276763 ATCGAATGCATTTTATGCATCGATGCATATA-TCATACATCGATGCACTCAGGGTT-TTATGAAA
1 ATCGAATGCATTTTATGCATCGATGCATA-AGACATACATCGATGCACTCA-GGTTATTATGAAA
6276826 -AT
64 CAT
* * * * *
6276828 ATCGAATGCATTTGATGCATCGATGCACAAGACATGCATTGATGCACTCAGGTTATTTTGAAACA
1 ATCGAATGCATTTTATGCATCGATGCATAAGACATACATCGATGCACTCAGGTTATTATGAAACA
6276893 T
66 T
6276894 -T-GAATGCATTTTATGCATCGATGCATA
1 ATCGAATGCATTTTATGCATCGATGCATA
6276921 CTTAGTGCAC
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 29 0.35
65 51 0.62
66 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (66 bp):
ATCGAATGCATTTTATGCATCGATGCATAAGACATACATCGATGCACTCAGGTTATTATGAAACA
T
Found at i:6279019 original size:35 final size:35
Alignment explanation
Indices: 6278979--6279048 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
6278969 AGTATCCTCT
6278979 TTCATTCA-ATAAAGCTAGTTCACTAATTAAACTAG
1 TTCATTCATATAAA-CTAGTTCACTAATTAAACTAG
* * *
6279014 TTCATTCATTTAAACTGGTTCATTAATTAAACTAG
1 TTCATTCATATAAACTAGTTCACTAATTAAACTAG
6279049 CTCTTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.39
Consensus pattern (35 bp):
TTCATTCATATAAACTAGTTCACTAATTAAACTAG
Found at i:6279026 original size:18 final size:17
Alignment explanation
Indices: 6278979--6279048 Score: 79
Period size: 18 Copynumber: 4.0 Consensus size: 17
6278969 AGTATCCTCT
6278979 TTCATTCAA-TAAAGCTAG
1 TTCATT-AATTAAA-CTAG
*
6278997 TTCACTAATTAAACTAG
1 TTCATTAATTAAACTAG
* *
6279014 TTCATTCATTTAAACTGG
1 TTCATT-AATTAAACTAG
6279032 TTCATTAATTAAACTAG
1 TTCATTAATTAAACTAG
6279049 CTCTTTATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
17 20 0.45
18 24 0.55
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.39
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:6279490 original size:25 final size:25
Alignment explanation
Indices: 6279462--6279516 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
6279452 AAGTATTCAA
6279462 GGCTGATTTAATCATCCAAACCAAG
1 GGCTGATTTAATCATCCAAACCAAG
*
6279487 GGCTGATTTAATCATTCAAACCAAG
1 GGCTGATTTAATCATCCAAACCAAG
6279512 GGCTG
1 GGCTG
6279517 TTCATATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (25 bp):
GGCTGATTTAATCATCCAAACCAAG
Found at i:6282549 original size:17 final size:18
Alignment explanation
Indices: 6282513--6282582 Score: 74
Period size: 18 Copynumber: 4.0 Consensus size: 18
6282503 AGTATCCTCT
6282513 TTCACTCAA-TAAAGCTAG
1 TTCACTCAATTAAA-CTAG
6282531 TTCACT-AATTAAACTAG
1 TTCACTCAATTAAACTAG
* * *
6282548 TTCATTCATTTAAACTGG
1 TTCACTCAATTAAACTAG
*
6282566 TTCA-TTAATTAAACTAG
1 TTCACTCAATTAAACTAG
6282583 CTCTTTATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
17 21 0.48
18 23 0.52
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (18 bp):
TTCACTCAATTAAACTAG
Found at i:6283028 original size:25 final size:25
Alignment explanation
Indices: 6282996--6283075 Score: 142
Period size: 25 Copynumber: 3.2 Consensus size: 25
6282986 AAGCATTCAA
6282996 GGCTGATTTAATCATCCAAACCAAG
1 GGCTGATTTAATCATCCAAACCAAG
*
6283021 GGTTGATTTAATCATCCAAACCAAG
1 GGCTGATTTAATCATCCAAACCAAG
*
6283046 GGCTGATTTAATCATTCAAACCAAG
1 GGCTGATTTAATCATCCAAACCAAG
6283071 GGCTG
1 GGCTG
6283076 TTCATATCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (25 bp):
GGCTGATTTAATCATCCAAACCAAG
Found at i:6283402 original size:21 final size:22
Alignment explanation
Indices: 6283378--6283421 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
6283368 TTAAGGCCAT
**
6283378 ATTCAGCTTCAAAAT-ATCTAG
1 ATTCAGCCCCAAAATGATCTAG
*
6283399 ATTCATCCCCAAAATGATCTAG
1 ATTCAGCCCCAAAATGATCTAG
6283421 A
1 A
6283422 ATATTCATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (22 bp):
ATTCAGCCCCAAAATGATCTAG
Found at i:6284505 original size:24 final size:24
Alignment explanation
Indices: 6284473--6284518 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
6284463 TAGAGACATA
6284473 TTGTTCATACTAAGAAGATGCAGT
1 TTGTTCATACTAAGAAGATGCAGT
*
6284497 TTGTTCATACTGAGAAGATGCA
1 TTGTTCATACTAAGAAGATGCA
6284519 TAGGCAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (24 bp):
TTGTTCATACTAAGAAGATGCAGT
Found at i:6290136 original size:16 final size:17
Alignment explanation
Indices: 6290115--6290150 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6290105 TTAATGTTAT
6290115 TTTAAAATTAAATT-AA
1 TTTAAAATTAAATTGAA
*
6290131 TTTAAATTTAAATTGAA
1 TTTAAAATTAAATTGAA
6290148 TTT
1 TTT
6290151 TTCTCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAAAATTAAATTGAA
Found at i:6290362 original size:24 final size:23
Alignment explanation
Indices: 6290333--6290389 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
6290323 TATCTAATCT
6290333 ATAATATAAAGAAT-AAATAAATAA
1 ATAATATAAA-AATAAAATAAA-AA
*
6290357 ATAATATTATAAATAAAATAAAAA
1 ATAATA-TAAAAATAAAATAAAAA
6290381 ATGAATATA
1 AT-AATATA
6290390 TTCCTTGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (23 bp):
ATAATATAAAAATAAAATAAAAA
Found at i:6290618 original size:21 final size:21
Alignment explanation
Indices: 6290593--6290635 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6290583 AAAAGTAATA
**
6290593 GATGACGACGTTGACGATGAT
1 GATGACGACGACGACGATGAT
6290614 GATGACGACGACGACGATGAT
1 GATGACGACGACGACGATGAT
6290635 G
1 G
6290636 GTAGTGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.35, T:0.19
Consensus pattern (21 bp):
GATGACGACGACGACGATGAT
Found at i:6291377 original size:19 final size:20
Alignment explanation
Indices: 6291333--6291377 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
6291323 TATATTTTTT
*
6291333 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
6291353 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
6291372 AATAAA
1 AATAAA
6291378 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:6292506 original size:18 final size:19
Alignment explanation
Indices: 6292478--6292513 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
6292468 GGGATTGTTT
6292478 GGTGTGCGGTGGTGCTGGC
1 GGTGTGCGGTGGTGCTGGC
6292497 GGTG-GCGGTGGTGCTGG
1 GGTGTGCGGTGGTGCTGG
6292514 TGGCAGCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.14, G:0.61, T:0.25
Consensus pattern (19 bp):
GGTGTGCGGTGGTGCTGGC
Found at i:6294641 original size:47 final size:47
Alignment explanation
Indices: 6294567--6294661 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
6294557 AAATAATTTC
* *
6294567 TTGCTAGAGGTGACCGAAACCAGCTCTAGTTGTTATACATTAAAGAA
1 TTGCTAGAGGTGACCGAAACCAACTCTAGTTGTTACACATTAAAGAA
*
6294614 TTGCTAGAGGTG-CCTGAAACCAACTCTAGTTGTTACACATTCAAGAA
1 TTGCTAGAGGTGACC-GAAACCAACTCTAGTTGTTACACATTAAAGAA
6294661 T
1 T
6294662 CACTAAAGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 2 0.05
47 42 0.95
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (47 bp):
TTGCTAGAGGTGACCGAAACCAACTCTAGTTGTTACACATTAAAGAA
Found at i:6294688 original size:47 final size:47
Alignment explanation
Indices: 6294574--6294692 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 47
6294564 TTCTTGCTAG
* ** *
6294574 AGGTGACC-GAAACCAGCTCTAGTTGTTATACATTAAAGAATTGCTAG
1 AGGTG-CCTGAAACCAGCTCTAGTTGTTACACATTAAAGAATCACTAA
* *
6294621 AGGTGCCTGAAACCAACTCTAGTTGTTACACATTCAAGAATCACTAA
1 AGGTGCCTGAAACCAGCTCTAGTTGTTACACATTAAAGAATCACTAA
**
6294668 AGGTG-CTCGAAACTGGCTCTAGTTG
1 AGGTGCCT-GAAACCAGCTCTAGTTG
6294693 ACCAAATAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
46 4 0.07
47 57 0.93
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (47 bp):
AGGTGCCTGAAACCAGCTCTAGTTGTTACACATTAAAGAATCACTAA
Found at i:6296467 original size:47 final size:47
Alignment explanation
Indices: 6296350--6296471 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
6296340 AATTTAGTCG
* * * *
6296350 ACTAGAGCTAGTTTCGGGCATCTCTAGCGATTCTTGAATGTGTAACA
1 ACTAGAGCTGGTTTCGGGCACCTCTAGCGATTCTTGAACGTATAACA
* * * * *
6296397 ACTAGAGCCGATTTTGGGTACCTCTAG-GAATTCTTTAACGTATAACA
1 ACTAGAGCTGGTTTCGGGCACCTCTAGCG-ATTCTTGAACGTATAACA
*
6296444 ACTAGAGCTGGTTTCAGGCACCTCTAGC
1 ACTAGAGCTGGTTTCGGGCACCTCTAGC
6296472 AAGAAATTAT
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
46 1 0.02
47 58 0.98
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (47 bp):
ACTAGAGCTGGTTTCGGGCACCTCTAGCGATTCTTGAACGTATAACA
Found at i:6297182 original size:17 final size:19
Alignment explanation
Indices: 6297162--6297198 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6297152 AAATCCGAAT
6297162 AAATT-AAAAT-AATAAAA
1 AAATTAAAAATAAATAAAA
6297179 AAATTAAAAATAAATAAAA
1 AAATTAAAAATAAATAAAA
6297198 A
1 A
6297199 TATCTAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 5 0.28
19 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATTAAAAATAAATAAAA
Found at i:6309337 original size:3 final size:3
Alignment explanation
Indices: 6309329--6309395 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
6309319 TTCATTTTAA
** * * *
6309329 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATC ATT ATT ATT AAT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
6309377 AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT A-TT ATT ATT
6309396 TAAATATTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:6310914 original size:54 final size:53
Alignment explanation
Indices: 6310811--6310915 Score: 124
Period size: 53 Copynumber: 2.0 Consensus size: 53
6310801 ATAATTTTAC
* * * * *
6310811 ATTTATTATTATTTTATTTATTTATAGTCATTGTTTAGTTATTTTTTTACTTA
1 ATTTATTATTATTTTATATATTTATAATCATTCTTTAATTATTGTTTTACTTA
6310864 ATTT-TTATTATTTTAATATATTT-TAAATCATTACTTTAATTATTGTTTTACT
1 ATTTATTATTATTTT-ATATATTTAT-AATCATT-CTTTAATTATTGTTTTACT
6310916 ATATTATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
52 11 0.25
53 17 0.39
54 16 0.36
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (53 bp):
ATTTATTATTATTTTATATATTTATAATCATTCTTTAATTATTGTTTTACTTA
Found at i:6311627 original size:20 final size:20
Alignment explanation
Indices: 6311604--6311668 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
6311594 AGAAATTAAA
6311604 AATTCATTTATTTAATTTTT
1 AATTCATTTATTTAATTTTT
* *
6311624 AATTCTTTTCTTTCAATTTTT
1 AATTCATTTATTT-AATTTTT
* *
6311645 TATT-ATTTA-TTATTTTTT
1 AATTCATTTATTTAATTTTT
*
6311663 TATTCA
1 AATTCA
6311669 GGTATTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 10 0.27
19 3 0.08
20 14 0.38
21 10 0.27
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTCATTTATTTAATTTTT
Found at i:6316278 original size:19 final size:21
Alignment explanation
Indices: 6316250--6316301 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
6316240 CTCATCCAGC
*
6316250 AAAG-AAAAAAAGAGG-AA-A
1 AAAGAAAAAAAAAAGGAAAGA
6316268 AAAGAAAAAAAAAAGGAAAGA
1 AAAGAAAAAAAAAAGGAAAGA
6316289 AATAGAAAAAAAA
1 AA-AGAAAAAAAA
6316302 TTAAATCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
20 2 0.07
21 3 0.10
22 10 0.34
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAAAAAGGAAAGA
Found at i:6318668 original size:83 final size:83
Alignment explanation
Indices: 6318567--6318951 Score: 689
Period size: 83 Copynumber: 4.6 Consensus size: 83
6318557 GAACAAATGT
*
6318567 AATGTGCTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAACCAA
1 AATGTGCT-CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
*
6318632 TCATTGAATTTGGAAGATG
65 TCATTGAATTTAGAAGATG
* *
6318651 AATGTGCTCATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTGGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
6318716 CATTGAATTTAGAAGATG
66 CATTGAATTTAGAAGATG
* *
6318734 AATGTGCTCATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
6318799 CATTGAATTTAGAAGATG
66 CATTGAATTTAGAAGATG
6318817 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
*
6318882 CATTGAATTTGGAAGATG
66 CATTGAATTTAGAAGATG
*
6318900 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
6318952 TGGTAGGAAC
Statistics
Matches: 289, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
83 281 0.97
84 8 0.03
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
CATTGAATTTAGAAGATG
Found at i:6321621 original size:22 final size:22
Alignment explanation
Indices: 6321592--6321646 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
6321582 ATCTACACTC
6321592 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
6321614 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
6321636 TTCAAAGATGA
1 TTCAAAGATGA
6321647 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:6323035 original size:76 final size:76
Alignment explanation
Indices: 6322322--6323009 Score: 1196
Period size: 76 Copynumber: 9.0 Consensus size: 76
6322312 CTATTTCTCA
* * *
6322322 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGAGGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
6322387 ATCCTTCGGGT
66 AGCCTTCGGGT
*
6322398 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
6322463 ATCCTTCGGGT
66 AGCCTTCGGGT
*
6322474 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
6322539 AGCCTTCGGGT
66 AGCCTTCGGGT
*
6322550 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
6322615 ATCCTTCAGGT
66 AGCCTTCGGGT
*
6322626 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
6322691 AACCTTCGGGT
66 AGCCTTCGGGT
*
6322702 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
6322767 AACCTTCAGGT
66 AGCCTTCGGGT
*
6322778 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
6322843 AGCCTTCGGGT
66 AGCCTTCGGGT
6322854 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
6322919 AGCCTTCGGGT
66 AGCCTTCGGGT
*
6322930 CATCTGTAAGCCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
6322995 AACCCTTAGGGT
65 AAGCCTTCGGGT
6323007 CAT
1 CAT
6323010 TCATAAGACC
Statistics
Matches: 589, Mismatches: 22, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
76 544 0.92
77 45 0.08
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:6323173 original size:3 final size:3
Alignment explanation
Indices: 6323165--6323228 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
6323155 TTCATTTTAA
** * *
6323165 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
6323213 AAT ATT ATTT ATT ATT
1 ATT ATT A-TT ATT ATT
6323229 TAAATATTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:6323234 original size:18 final size:16
Alignment explanation
Indices: 6323165--6323237 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 16
6323155 TTCATTTTAA
6323165 ATTATTATTATTAAA-
1 ATTATTATTATTAAAT
*
6323180 ATTATTATTATTATTATT
1 ATTATTATTATTA--AAT
*
6323198 ATTATTATTAATAGTAAT
1 ATTATTATTATTA--AAT
6323216 ATTATTTATTATTTAAAT
1 ATTA-TTATTA-TTAAAT
6323234 ATTA
1 ATTA
6323238 CAAAGCCCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
15 13 0.27
17 1 0.02
18 26 0.54
19 6 0.12
20 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (16 bp):
ATTATTATTATTAAAT
Found at i:6324748 original size:54 final size:53
Alignment explanation
Indices: 6324645--6324749 Score: 124
Period size: 53 Copynumber: 2.0 Consensus size: 53
6324635 ATAATTTTAC
* * * * *
6324645 ATTTATTATTATTTTATTTATTTATAGTCATTGTTTAGTTATTTTTTTACTTA
1 ATTTATTATTATTTTATATATTTATAATCATTCTTTAATTATTGTTTTACTTA
6324698 ATTT-TTATTATTTTAATATATTT-TAAATCATTACTTTAATTATTGTTTTACT
1 ATTTATTATTATTTT-ATATATTTAT-AATCATT-CTTTAATTATTGTTTTACT
6324750 ATATTATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
52 11 0.25
53 17 0.39
54 16 0.36
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (53 bp):
ATTTATTATTATTTTATATATTTATAATCATTCTTTAATTATTGTTTTACTTA
Found at i:6324776 original size:35 final size:35
Alignment explanation
Indices: 6324701--6324776 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
6324691 TTACTTAATT
*
6324701 TTTATTATTTTAATATATTTTAAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACTTTA
* * *
6324736 ATTATTGTTTTACTATATTATAAAT-ATATA-TATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACT-TTA
6324771 TTTATT
1 TTTATT
6324777 TAATAATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACTTTA
Found at i:6332817 original size:29 final size:29
Alignment explanation
Indices: 6332782--6332882 Score: 193
Period size: 29 Copynumber: 3.5 Consensus size: 29
6332772 TATTTTATTA
6332782 AGTCATTTGACTATTAAAAATTATAAAAT
1 AGTCATTTGACTATTAAAAATTATAAAAT
*
6332811 AATCATTTGACTATTAAAAATTATAAAAT
1 AGTCATTTGACTATTAAAAATTATAAAAT
6332840 AGTCATTTGACTATTAAAAATTATAAAAT
1 AGTCATTTGACTATTAAAAATTATAAAAT
6332869 AGTCATTTGACTAT
1 AGTCATTTGACTAT
6332883 AATGTTCATT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.39
Consensus pattern (29 bp):
AGTCATTTGACTATTAAAAATTATAAAAT
Found at i:6333427 original size:28 final size:28
Alignment explanation
Indices: 6333387--6333444 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
6333377 AAAAGTAAAC
6333387 TTTATCAGTATTCAGAATAACACAGATT
1 TTTATCAGTATTCAGAATAACACAGATT
6333415 TTTATCAGTATTCAGAATAACACAGATT
1 TTTATCAGTATTCAGAATAACACAGATT
6333443 TT
1 TT
6333445 CAGACTCGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (28 bp):
TTTATCAGTATTCAGAATAACACAGATT
Found at i:6334094 original size:44 final size:44
Alignment explanation
Indices: 6334034--6334213 Score: 252
Period size: 44 Copynumber: 4.1 Consensus size: 44
6334024 CGATAAGGTA
* * ** *
6334034 TTACCCTTGAACATAGCAGAGGAACCTGTAGTAACGGTAAGGAT
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGAC
* *
6334078 TTACCCTTGCATATAGCAGAGGAGCCTACGGTAACGGTAAGGAC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGAC
* **
6334122 TTACCCTTGCACATAGCAAAGGAGTTTGCGGTAACGGTAAGGAC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGAC
* *
6334166 TTACCCTTGCACATAGTAGAGGAGCCCGCGGTAACGGTAAGGAC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGAC
6334210 TTAC
1 TTAC
6334214 AAGTCATAGA
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 119 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (44 bp):
TTACCCTTGCACATAGCAGAGGAGCCTGCGGTAACGGTAAGGAC
Found at i:6334316 original size:24 final size:24
Alignment explanation
Indices: 6334289--6334367 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 24
6334279 AAACGGAGAT
6334289 ATCAAAAATCAAAACAGAATTCAA
1 ATCAAAAATCAAAACAGAATTCAA
* * * * * *
6334313 ATCAGATATCACAATAGAATCCAG
1 ATCAAAAATCAAAACAGAATTCAA
* * * *
6334337 ATCAAAAAACAGAACAAAATTCAT
1 ATCAAAAATCAAAACAGAATTCAA
6334361 ATCAAAA
1 ATCAAAA
6334368 CAGAAATTAG
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.18
Consensus pattern (24 bp):
ATCAAAAATCAAAACAGAATTCAA
Found at i:6336311 original size:23 final size:23
Alignment explanation
Indices: 6336281--6336324 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6336271 ATTACATATA
6336281 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
*
6336304 TGTCCCGAAGGACCGCGTAGA
1 TGTCCCGAAGGACCACGTAGA
6336325 CCCTCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:6338155 original size:20 final size:22
Alignment explanation
Indices: 6338132--6338175 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
6338122 ATACCTTTAC
6338132 ATAAACCAAC-TTATA-TCCAT
1 ATAAACCAACTTTATATTCCAT
*
6338152 ATAAACCATCTTTATATTCCAT
1 ATAAACCAACTTTATATTCCAT
6338174 AT
1 AT
6338176 CTCATCATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 5 0.24
22 7 0.33
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAACCAACTTTATATTCCAT
Found at i:6339513 original size:22 final size:22
Alignment explanation
Indices: 6339480--6339525 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6339470 GCTCAATCGA
*
6339480 CTTAATTCGCTCGGTCACACGG
1 CTTAATTCGCTCGATCACACGG
6339502 CTTAA-TCGGCTCGATCACACGG
1 CTTAATTC-GCTCGATCACACGG
6339524 CT
1 CT
6339526 CGGTCGGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.26
Consensus pattern (22 bp):
CTTAATTCGCTCGATCACACGG
Found at i:6339532 original size:22 final size:22
Alignment explanation
Indices: 6339488--6339557 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
6339478 GACTTAATTC
* * *
6339488 GCTCGGTCACACGGCTTAATCG
1 GCTCGATCACACGGCTCAGTCG
*
6339510 GCTCGATCACACGGCTCGGTCG
1 GCTCGATCACACGGCTCAGTCG
* * *
6339532 GGTCGATCATACTGCTCAGTCG
1 GCTCGATCACACGGCTCAGTCG
6339554 GCTC
1 GCTC
6339558 AAATGGCTCC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.16, C:0.33, G:0.29, T:0.23
Consensus pattern (22 bp):
GCTCGATCACACGGCTCAGTCG
Found at i:6341431 original size:18 final size:19
Alignment explanation
Indices: 6341394--6341431 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6341384 TAATTTTTGT
*
6341394 TTTAATTATAGTGATTTTC
1 TTTAATTATAGAGATTTTC
*
6341413 TTTAATTA-AGAGTTTTTC
1 TTTAATTATAGAGATTTTC
6341431 T
1 T
6341432 CTTTTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTAATTATAGAGATTTTC
Found at i:6342108 original size:30 final size:29
Alignment explanation
Indices: 6342072--6342156 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
6342062 ATGCTTTAGT
6342072 ACTTATTTTAATCAAAAAAATACTTGAGGG
1 ACTTATTTTAA-CAAAAAAATACTTGAGGG
* * * * *
6342102 ACTTATTCTAACCATAAAGATAACTTTAGGT
1 ACTTATTTTAA-CAAAAAAAT-ACTTGAGGG
* *
6342133 ACTTATTTTGACTAAAAAATACTT
1 ACTTATTTTAACAAAAAAATACTT
6342157 TAAGTACTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
29 4 0.09
30 23 0.53
31 16 0.37
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.36
Consensus pattern (29 bp):
ACTTATTTTAACAAAAAAATACTTGAGGG
Found at i:6351298 original size:23 final size:23
Alignment explanation
Indices: 6351271--6351330 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
6351261 AAGACTGTGC
*
6351271 TGAATGATTCAGCAAAACACTGT
1 TGAATGATTTAGCAAAACACTGT
6351294 TGAATGATTTAGCAAAACACTGT
1 TGAATGATTTAGCAAAACACTGT
6351317 TGAATGATTTAGCA
1 TGAATGATTTAGCA
6351331 TTAAAGTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (23 bp):
TGAATGATTTAGCAAAACACTGT
Found at i:6361226 original size:60 final size:60
Alignment explanation
Indices: 6361100--6361226 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
6361090 TCAAACTATG
** * * * * * * *
6361100 ATTAGTGCTTAAATTTTTAAATATTTCAAATTTTATTATTAAATTATGATTCTTATTTTAA
1 ATTAGTGCTTAAACCTTTAAATATTT-AAATTTCATCATCAAACTATGAATCTCATTCTAA
*
6361161 ATTAGTGCTTAAACCTTTGAATA-TTATAATTTCATCATCAAACTATGAATCTCATTCTAA
1 ATTAGTGCTTAAACCTTTAAATATTTA-AATTTCATCATCAAACTATGAATCTCATTCTAA
6361221 ATTAGT
1 ATTAGT
6361227 CCCTAAACTT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 1 0.02
60 34 0.62
61 20 0.36
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.47
Consensus pattern (60 bp):
ATTAGTGCTTAAACCTTTAAATATTTAAATTTCATCATCAAACTATGAATCTCATTCTAA
Found at i:6361234 original size:60 final size:60
Alignment explanation
Indices: 6361144--6361256 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
6361134 ATTATTAAAT
* * * * *
6361144 TATGATTCTTATTTTAAATTAGTGCTTAAACCTTTGA-ATATTATAATTTCATCATCAAAC
1 TATGAATCTCATTCTAAATTAGTCCCTAAA-CTTTGAGATATTATAATTTCATCATCAAAC
* * *
6361204 TATGAATCTCATTCTAAATTAGTCCCTAAACTTTTAGATCTTCTAATTTCATC
1 TATGAATCTCATTCTAAATTAGTCCCTAAACTTTGAGATATTATAATTTCATC
6361257 CCCGAATTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
59 5 0.11
60 39 0.89
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (60 bp):
TATGAATCTCATTCTAAATTAGTCCCTAAACTTTGAGATATTATAATTTCATCATCAAAC
Found at i:6367850 original size:31 final size:31
Alignment explanation
Indices: 6367812--6367871 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
6367802 AAATGTTTCC
6367812 TTCTTAGGAAATGAACAATGAGCAAATTTTA
1 TTCTTAGGAAATGAACAATGAGCAAATTTTA
*
6367843 TTCTTAGGAAATGAATAATGAGCAAATTT
1 TTCTTAGGAAATGAACAATGAGCAAATTT
6367872 GATTTTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (31 bp):
TTCTTAGGAAATGAACAATGAGCAAATTTTA
Found at i:6369042 original size:2 final size:2
Alignment explanation
Indices: 6369035--6369088 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
6369025 TCGAGAAAAG
*
6369035 CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
6369077 CA CA CA TA CA CA
1 CA CA CA CA CA CA
6369089 TACATACATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.46, G:0.00, T:0.04
Consensus pattern (2 bp):
CA
Found at i:6369707 original size:22 final size:22
Alignment explanation
Indices: 6369682--6369733 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
6369672 CAAATTTGAT
6369682 TCACTTGAAACAAAAATTAATA
1 TCACTTGAAACAAAAATTAATA
*
6369704 TCACTTGAAACAAAAATTAATC
1 TCACTTGAAACAAAAATTAATA
6369726 TCACTTGA
1 TCACTTGA
6369734 GATTGTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (22 bp):
TCACTTGAAACAAAAATTAATA
Found at i:6369993 original size:30 final size:31
Alignment explanation
Indices: 6369957--6370015 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
6369947 AACAAACATA
**
6369957 ATCTTTGAGTC-ATTTCTTTTGAAACAAATG
1 ATCTTTGAGTCTATTTCAATTGAAACAAATG
*
6369987 ATCTTTGAGTCTGTTTCAATTGAAACAAA
1 ATCTTTGAGTCTATTTCAATTGAAACAAA
6370016 ATGAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCAATTGAAACAAATG
Found at i:6370816 original size:134 final size:134
Alignment explanation
Indices: 6370610--6370928 Score: 433
Period size: 134 Copynumber: 2.4 Consensus size: 134
6370600 GCGTAGTAAC
*
6370610 CGTGTCATCCCCTGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCCTATATAACCAGCCA
1 CGTGTCAT-CCCTGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCCTAGATAACCAGCCA
* *
6370675 TCCTCATCGCGTAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAA-AACTCTTCATCACGTA
65 TCATCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAAGAACTCTTCATCACGTA
*
6370739 TGAGT
130 TGAGA
*
6370744 CGTGTCATACCCTGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCCTAGATAACCAGCCG
1 CGTGTCAT-CCCTGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCCTAGATAACCAGCCA
* ** * * *
6370809 TCATCATCATGTAGGAACCGAGTTATTGCCCTTCCTAAAGATGGCTAAGAACTCTTCATCGCGTA
65 TCATCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAAGAACTCTTCATCACGTA
6370874 TGAGA
130 TGAGA
* * * * * * * *
6370879 AGTGTCATCCCTCAACCATATTTCTTCATCATGTAGGAACCATGTCACCC
1 CGTGTCATCCCT-GACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC
6370929 TTGGATGACC
Statistics
Matches: 163, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
134 107 0.66
135 56 0.34
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (134 bp):
CGTGTCATCCCTGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCCTAGATAACCAGCCAT
CATCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAAGAACTCTTCATCACGTAT
GAGA
Found at i:6371138 original size:3 final size:3
Alignment explanation
Indices: 6371130--6371173 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6371120 ATTTAATTTA
6371130 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6371174 GTTTTTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6372242 original size:64 final size:62
Alignment explanation
Indices: 6372174--6372336 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 62
6372164 TGGAACACTT
* * *
6372174 AGTGCATCAGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTA
1 AGTGCATC-GTGCA-TAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAATAA-AACCCA
* * * *
6372238 AGTGCATCGGTGCAT-TGCTTGTGCATCGATGCATGAAATGCATTTGATGTTTTAATAAAACCCA
1 AGTGCATC-GTGCATAAG--TGTGCATCGATGCATAAAATGCATTCGATGTTTGAATAAAACCCA
*
6372302 AGTGCATCGATGCATAGAGAGTGCATCGATGCATA
1 AGTGCATCG-TGCATA-AGTGTGCATCGATGCATA
6372337 GAGAGTGCAT
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 77 0.94
65 2 0.02
66 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (62 bp):
AGTGCATCGTGCATAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:6372326 original size:19 final size:19
Alignment explanation
Indices: 6372302--6372354 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
6372292 ATAAAACCCA
6372302 AGTGCATCGATGCATAGAG
1 AGTGCATCGATGCATAGAG
6372321 AGTGCATCGATGCATAGAG
1 AGTGCATCGATGCATAGAG
6372340 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
6372355 GAAATGCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (19 bp):
AGTGCATCGATGCATAGAG
Found at i:6373464 original size:21 final size:21
Alignment explanation
Indices: 6373423--6373483 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
6373413 GTCAGAAGCC
* *
6373423 GGAGCAGGAGGAGGAG-GAGGA
1 GGAGCATGA-GAGGAGCTAGGA
6373444 GGAGCATGAGAGGAGCTAGGA
1 GGAGCATGAGAGGAGCTAGGA
* * * *
6373465 GCAGCTTGTGAGGAACTAG
1 GGAGCATGAGAGGAGCTAG
6373484 CTCCCGGAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.31, C:0.10, G:0.49, T:0.10
Consensus pattern (21 bp):
GGAGCATGAGAGGAGCTAGGA
Found at i:6375102 original size:44 final size:44
Alignment explanation
Indices: 6375013--6375109 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
6375003 ACTCTTGTGC
*
6375013 ATCGATGCACATTCAAGGGCATGCATCGGTGCATCAGCTGATGT
1 ATCGATGCACATTCAAGGGCATGCATCGGTGCATCAGCTAATGT
* * *
6375057 ATCTATGCACATTCAAAGGG-ATGCATCGGTGCA-CTGTTAAGTGT
1 ATCGATGCACATTC-AAGGGCATGCATCGGTGCATCAGCTAA-TGT
6375101 ATCGATGCA
1 ATCGATGCA
6375110 TTAAGCACAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 4 0.09
44 37 0.80
45 5 0.11
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGGCATGCATCGGTGCATCAGCTAATGT
Found at i:6381040 original size:64 final size:64
Alignment explanation
Indices: 6380908--6381066 Score: 194
Period size: 64 Copynumber: 2.5 Consensus size: 64
6380898 TGCACCAAGT
* * ** * * * ***
6380908 GTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGGTGCATTGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGAATAGAGA
* *
6380972 GTGCATCGATGCATGAAATGCATTCGATGTTTTAATAA-AACCCAAGTGTATCGATGAATAGAGA
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAA-AATAACCCAAGTGCATCGATGAATAGAGA
6381036 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
6381067 CAATTTATTC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
64 80 0.98
65 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGAATAGAGA
Done.