Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 21 of 311
Found at i:5961258 original size:19 final size:19
Alignment explanation
Indices: 5961234--5961331 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
5961224 AATCTTTAAG
5961234 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5961253 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5961272 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5961289 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5961308 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
5961329 GAT
1 GAT
5961332 GTAATCTTGG
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5961264 original size:36 final size:35
Alignment explanation
Indices: 5961224--5961331 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
5961214 ATGGAAATAT
5961224 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
5961260 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
5961296 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
5961332 GTAATCTTGG
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:5964156 original size:16 final size:16
Alignment explanation
Indices: 5964135--5964175 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
5964125 CTCGGGCTCG
* *
5964135 AAAAAATTCATATCCA
1 AAAAAATCCAAATCCA
5964151 AAAAAATCCAAATCCA
1 AAAAAATCCAAATCCA
5964167 AATAAAATC
1 AA-AAAATC
5964176 TGATACACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.61, C:0.20, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAATCCAAATCCA
Found at i:5965763 original size:29 final size:28
Alignment explanation
Indices: 5965731--5965785 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
5965721 GAGTTTTGTT
5965731 TTTTAATAA-AATAATAAATTATTAATATG
1 TTTTAATAATAA-AATAAATTA-TAATATG
* *
5965760 TTTTTATAATAAAATAATTTATAATA
1 TTTTAATAATAAAATAAATTATAATA
5965786 CATCTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 16 0.70
30 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
TTTTAATAATAAAATAAATTATAATATG
Found at i:5968489 original size:5 final size:5
Alignment explanation
Indices: 5968474--5968502 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
5968464 ATATTCTAAT
5968474 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
5968503 GTGTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:5972368 original size:41 final size:41
Alignment explanation
Indices: 5972322--5972403 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
5972312 GCTGTGTATG
* * *
5972322 ACACACGGTCGTATGACAACCCATGTCTCAGGCCGTGTGTA
1 ACACACAGTCGTATGACAACCCATGTCCCAGGCCATGTGTA
* * *
5972363 ACACACAGTTGTGTGACAACCCATTTCCCAGGCCATGTGTA
1 ACACACAGTCGTATGACAACCCATGTCCCAGGCCATGTGTA
5972404 CCTTAAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
ACACACAGTCGTATGACAACCCATGTCCCAGGCCATGTGTA
Found at i:5975247 original size:18 final size:20
Alignment explanation
Indices: 5975224--5975260 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
5975214 TTTATACATA
5975224 TGAA-TTTTAAAT-ATTTTT
1 TGAATTTTTAAATAATTTTT
5975242 TGAATTTTTAAATAATTTT
1 TGAATTTTTAAATAATTTT
5975261 CTATAGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TGAATTTTTAAATAATTTTT
Found at i:5976320 original size:20 final size:20
Alignment explanation
Indices: 5976297--5976346 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
5976287 AAATCCAAAT
5976297 TAAAATACTAAAATTCAAGA
1 TAAAATACTAAAATTCAAGA
* *
5976317 TAAAAT-CTTGAAATTCAGGA
1 TAAAATAC-TAAAATTCAAGA
5976337 TAAGAATACT
1 TAA-AATACT
5976347 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 4 0.16
22 1 0.04
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:5978292 original size:28 final size:28
Alignment explanation
Indices: 5978259--5978314 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
5978249 AAAGCACAAA
5978259 AGCTTAATAAAGTCAAATTAACAAAAAC
1 AGCTTAATAAAGTCAAATTAACAAAAAC
5978287 AGCTTAATAAAGTCAAATTAACAAAAAC
1 AGCTTAATAAAGTCAAATTAACAAAAAC
5978315 TATAAAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (28 bp):
AGCTTAATAAAGTCAAATTAACAAAAAC
Found at i:5984761 original size:27 final size:26
Alignment explanation
Indices: 5984724--5984865 Score: 140
Period size: 27 Copynumber: 5.3 Consensus size: 26
5984714 AGCATGGCTG
* *
5984724 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
5984750 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
5984778 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * **
5984805 CCAGATCAGATATTTGTGGCAGAGAAA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * * *
5984832 CTAGATCAGGTATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
5984859 CCAGAAC
1 CCAGAAC
5984866 GCTTCCTCCA
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.05
27 78 0.78
28 17 0.17
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:5984850 original size:54 final size:55
Alignment explanation
Indices: 5984724--5984863 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 55
5984714 AGCATGGCTG
* * **
5984724 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGAAA
* *
5984778 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGAAA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGAAA
* * * * *
5984832 CTAGATCAGGTATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
5984864 ACGCTTCCTC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 56 0.76
55 18 0.24
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (55 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGAAA
Found at i:5986521 original size:26 final size:26
Alignment explanation
Indices: 5986483--5986592 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
5986473 CATGAAATTC
*
5986483 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
5986509 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
* *
5986535 TTATCATAGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
* *
5986561 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
5986587 TTATCA
1 TTATCA
5986593 ATTTGTACCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:5990361 original size:16 final size:17
Alignment explanation
Indices: 5990329--5990361 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5990319 AAAATTTCCC
*
5990329 ATGTTTGTTATATGTAT
1 ATGTTAGTTATATGTAT
5990346 ATGTTAGTTA-ATGTAT
1 ATGTTAGTTATATGTAT
5990362 GATATTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
ATGTTAGTTATATGTAT
Found at i:5991281 original size:18 final size:17
Alignment explanation
Indices: 5991223--5991283 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 17
5991213 ACATTTTACT
*
5991223 TTATATATTATT-TATT
1 TTATATATTATTATATA
5991239 TTACTATA-T-TTATATA
1 TTA-TATATTATTATATA
5991255 TGTA-A-ATTATTATATA
1 T-TATATATTATTATATA
5991271 TTATTATATTATT
1 TTA-TATATTATT
5991284 TTTTATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
14 1 0.03
15 6 0.17
16 16 0.44
17 7 0.19
18 6 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TTATATATTATTATATA
Found at i:5995029 original size:40 final size:40
Alignment explanation
Indices: 5994985--5995077 Score: 177
Period size: 40 Copynumber: 2.3 Consensus size: 40
5994975 TCTTTCAATA
5994985 AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
1 AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
5995025 AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
1 AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
*
5995065 AAATCATCATATA
1 AAATCAGCATATA
5995078 CTTCCAGCAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (40 bp):
AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
Found at i:5997306 original size:19 final size:20
Alignment explanation
Indices: 5997282--5997319 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5997272 GAAACTACAT
5997282 TATTTT-CTAAACCAGAAGC
1 TATTTTACTAAACCAGAAGC
*
5997301 TATTTTACTAAACTAGAAG
1 TATTTTACTAAACCAGAAG
5997320 AGAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (20 bp):
TATTTTACTAAACCAGAAGC
Found at i:6000313 original size:26 final size:26
Alignment explanation
Indices: 6000291--6000372 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 26
6000281 AAAAAATGTG
* *
6000291 ATATTTAATAATAAATTTAAAATATA
1 ATATATAATAAAAAATTTAAAATATA
* **
6000317 ATATATAATAAAAAATAT-ATTTATA
1 ATATATAATAAAAAATTTAAAATATA
* *
6000342 AGAATAATATATAAAAAATATAAAATATA
1 A-TAT-ATA-ATAAAAAATTTAAAATATA
6000371 AT
1 AT
6000373 GGTTTAGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
25 6 0.14
26 17 0.40
27 3 0.07
28 11 0.26
29 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (26 bp):
ATATATAATAAAAAATTTAAAATATA
Found at i:6000883 original size:18 final size:18
Alignment explanation
Indices: 6000847--6001025 Score: 265
Period size: 18 Copynumber: 9.9 Consensus size: 18
6000837 AATCATATCT
*
6000847 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
6000866 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
6000884 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
6000901 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
6000919 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
6000937 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
6000954 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
6000972 TCTAACATTG-TATCATA
1 TCTAAGATTGCAATCATA
6000989 TCTAAGATTGCATATCATA
1 TCTAAGATTGCA-ATCATA
6001008 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
6001026 TGAAGATTAT
Statistics
Matches: 147, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
17 47 0.32
18 65 0.44
19 35 0.24
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:6000905 original size:35 final size:36
Alignment explanation
Indices: 6000847--6001025 Score: 256
Period size: 35 Copynumber: 5.0 Consensus size: 36
6000837 AATCATATCT
*
6000847 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-CTATCATATCTAAGATTGCAATCATA
6000884 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
* *
6000919 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
* * *
6000954 TCTAAGATTGCAATCATATCTAACATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
6000989 TCTAAGATTGCATATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCATATCTAAGATTGCA-ATCAT
6001026 TGAAGATTAT
Statistics
Matches: 132, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
35 86 0.65
36 31 0.23
37 10 0.08
38 5 0.04
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
Found at i:6000926 original size:53 final size:54
Alignment explanation
Indices: 6000847--6001025 Score: 292
Period size: 53 Copynumber: 3.3 Consensus size: 54
6000837 AATCATATCT
*
6000847 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
6000901 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
* *
6000954 TCTAAGATTGCA-ATCATATCTAACATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTG--TATCATA
6001008 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
6001026 TGAAGATTAT
Statistics
Matches: 119, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
52 16 0.13
53 68 0.57
54 30 0.25
55 5 0.04
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:6001032 original size:88 final size:89
Alignment explanation
Indices: 6000850--6001037 Score: 303
Period size: 88 Copynumber: 2.1 Consensus size: 89
6000840 CATATCTTCT
*
6000850 AAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCAAT
1 AAGATTG-ATATCATATCTAAGATTGCAATCATATCTAACATTGTATCATATCTAAGATTGCAAT
*
6000915 CATATCTAAGATTGCAATCATATCT
65 CATATCTAAGATTGCAATCATATCG
6000940 AAGATTG-TATCATATCTAAGATTGCAATCATATCTAACATTGTATCATATCTAAGATTGCATAT
1 AAGATTGATATCATATCTAAGATTGCAATCATATCTAACATTGTATCATATCTAAGATTGCA-AT
6001004 CATATCTAAGATTGCATATCAT-T-G
65 CATATCTAAGATTGCA-ATCATATCG
6001028 AAGATT-ATAT
1 AAGATTGATAT
6001038 TTCCATATGA
Statistics
Matches: 93, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
88 62 0.67
89 19 0.20
90 12 0.13
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (89 bp):
AAGATTGATATCATATCTAAGATTGCAATCATATCTAACATTGTATCATATCTAAGATTGCAATC
ATATCTAAGATTGCAATCATATCG
Found at i:6001904 original size:83 final size:83
Alignment explanation
Indices: 6001793--6002511 Score: 1215
Period size: 83 Copynumber: 8.7 Consensus size: 83
6001783 GTGAAAGCCA
* *
6001793 AATCAGCTATGT-CTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
6001857 GAGAACATCTGAGAGTCA
66 GAGAACATCTGAGAGTCT
* * * *
6001875 AATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
6001940 GAGAACATCTGAGAGTCA
66 GAGAACATCTGAGAGTCT
*
6001958 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTCAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
6002023 GAGAACATCTGAGAGTCT
66 GAGAACATCTGAGAGTCT
* * *
6002041 AATCTGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTCAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
6002106 GAGAACATCTGAGAGTCT
66 GAGAACATCTGAGAGTCT
*
6002124 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGACGCCAAACCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
* *
6002189 GAGAACATCCGAGGGTCT
66 GAGAACATCTGAGAGTCT
*
6002207 AATCTGCTATGTCCTCGATTTGTTCATTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
6002272 GAGAACATCTGAGAGTCT
66 GAGAACATCTGAGAGTCT
* *
6002290 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGACGCCAAACCATCTTGAGTCAGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
6002355 GAGAACATCCGAGAGTCT
66 GAGAACATCTGAGAGTCT
*
6002373 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGACGCCAAACCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
6002438 GAGAACATCCGAGAGTCT
66 GAGAACATCTGAGAGTCT
** *
6002456 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAATACAAGGATGCCAAATCATCTTG
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
6002512 GATCTGCTTC
Statistics
Matches: 605, Mismatches: 31, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
82 11 0.02
83 594 0.98
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (83 bp):
AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
GAGAACATCTGAGAGTCT
Found at i:6002592 original size:44 final size:44
Alignment explanation
Indices: 6002544--6002723 Score: 222
Period size: 44 Copynumber: 4.1 Consensus size: 44
6002534 TGAAGGTTAG
6002544 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
*
6002588 ATCTGCTATCTTCAA-CTCGTTCCCTATGAACACAGGGATGCC--
1 ATCTGCTATCTTCAATCT-GTTCCCTATAAACACAGGGATGCCAA
** * * * * * *
6002630 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGCCAA
*
6002676 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
6002720 ATCT
1 ATCT
6002724 TGTTTCTTTT
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
42 2 0.02
43 14 0.12
44 80 0.71
45 14 0.12
46 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:6003641 original size:1 final size:1
Alignment explanation
Indices: 6003631--6003728 Score: 61
Period size: 1 Copynumber: 98.0 Consensus size: 1
6003621 GGCCTCTCTA
* * ** * * * * * *
6003631 TTTTTCTTTTTCTTTTTTTTTTCCTTTCTTTTTTCTTTTTTCTTTTTCTTTTCTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
6003696 CTTTTCTTTTCTTTTTCTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6003729 GAAATAGAAG
Statistics
Matches: 69, Mismatches: 28, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:6003642 original size:6 final size:6
Alignment explanation
Indices: 6003631--6003727 Score: 109
Period size: 5 Copynumber: 16.8 Consensus size: 6
6003621 GGCCTCTCTA
*
6003631 TTTTTC TTTTTC TTTTT- TTTTTC -CTTTC TTTTTTC TTTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC -TTTTTC TTTTTC
6003679 -TTTTC TTTTTTC TTTTTC -TTTTC -TTTTC TTTTTC -TTTTC TTTTT-
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
6003723 TTTTT
1 TTTTT
6003728 TGAAATAGAA
Statistics
Matches: 82, Mismatches: 2, Indels: 15
0.83 0.02 0.15
Matches are distributed among these distances:
5 34 0.41
6 32 0.39
7 16 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:6003651 original size:11 final size:11
Alignment explanation
Indices: 6003631--6003728 Score: 108
Period size: 12 Copynumber: 8.5 Consensus size: 11
6003621 GGCCTCTCTA
6003631 TTTTTCTTTTTC
1 TTTTT-TTTTTC
6003643 TTTTTTTTTTCC
1 TTTTTTTTTT-C
*
6003655 TTTCTTTTTTC
1 TTTTTTTTTTC
6003666 TTTTTTCTTTTTC
1 -TTTTT-TTTTTC
6003679 TTTTCTTTTTTC
1 TTTT-TTTTTTC
*
6003691 TTTTTCTTTTC
1 TTTTTTTTTTC
*
6003702 TTTTCTTTTTC
1 TTTTTTTTTTC
6003713 TTTTCTTTTTT-
1 TTTT-TTTTTTC
6003724 TTTTT
1 TTTTT
6003729 GAAATAGAAG
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
10 1 0.01
11 29 0.39
12 38 0.51
13 7 0.09
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:6003657 original size:18 final size:18
Alignment explanation
Indices: 6003631--6003728 Score: 143
Period size: 18 Copynumber: 5.6 Consensus size: 18
6003621 GGCCTCTCTA
6003631 TTTTTCTTTTTCTTTT-T
1 TTTTTCTTTTTCTTTTCT
6003648 TTTTTCCTTTCTT-TTTTCT
1 TTTTT-CTTT-TTCTTTTCT
6003667 TTTTTCTTTTTCTTTTCT
1 TTTTTCTTTTTCTTTTCT
6003685 TTTTTCTTTTTCTTTTC-
1 TTTTTCTTTTTCTTTTCT
6003702 -TTTTCTTTTTCTTTTCT
1 TTTTTCTTTTTCTTTTCT
6003719 TTTTT-TTTTT
1 TTTTTCTTTTT
6003729 GAAATAGAAG
Statistics
Matches: 75, Mismatches: 0, Indels: 12
0.86 0.00 0.14
Matches are distributed among these distances:
16 16 0.21
17 12 0.16
18 39 0.52
19 8 0.11
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTCTTTTTCTTTTCT
Found at i:6010251 original size:18 final size:18
Alignment explanation
Indices: 6010215--6010374 Score: 229
Period size: 18 Copynumber: 8.9 Consensus size: 18
6010205 AATCATATCT
*
6010215 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
6010234 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
6010252 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
6010269 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
6010287 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
6010305 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
6010322 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
6010340 TCT-AGCATTG-TATCATA
1 TCTAAG-ATTGCAATCATA
6010357 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
6010375 TGAAGATTAT
Statistics
Matches: 128, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
17 47 0.37
18 65 0.51
19 16 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:6010273 original size:35 final size:35
Alignment explanation
Indices: 6010215--6010374 Score: 225
Period size: 35 Copynumber: 4.5 Consensus size: 35
6010205 AATCATATCT
*
6010215 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTG-AATCATA
*
6010252 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATATCTAAGATTG-AATCATA
*
6010287 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGAATCATA
*
6010322 TCTAAGATTGCAATCATATCT-AGCATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAG-ATTGAATCATA
6010357 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
6010375 TGAAGATTAT
Statistics
Matches: 117, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
34 2 0.02
35 84 0.72
36 21 0.18
37 10 0.09
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGCAATCATATCTAAGATTGAATCATA
Found at i:6010294 original size:53 final size:53
Alignment explanation
Indices: 6010215--6010366 Score: 254
Period size: 53 Copynumber: 2.9 Consensus size: 53
6010205 AATCATATCT
*
6010215 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
6010269 TCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
6010322 TCTAAGATTGCAATCATATCT-AGCATTG-TATCATATCTAAGATTG
1 TCTAAGATTGCAATCATATCTAAG-ATTGCAATCATATCTAAGATTG
6010367 CATATCATTG
Statistics
Matches: 95, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
52 18 0.19
53 66 0.69
54 11 0.12
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (53 bp):
TCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:6014766 original size:3 final size:3
Alignment explanation
Indices: 6014705--6014750 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6014695 TGTTTTAAAA
6014705 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6014751 TTGAACCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6014899 original size:26 final size:26
Alignment explanation
Indices: 6014870--6014919 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6014860 TATCTGTTAA
*
6014870 TTTAAATTGTTTTATAAATTATTTAT
1 TTTAAATTATTTTATAAATTATTTAT
* *
6014896 TTTAAGTTATTTTATACATTATTT
1 TTTAAATTATTTTATAAATTATTT
6014920 TATTGCTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTAAATTATTTTATAAATTATTTAT
Found at i:6018575 original size:11 final size:11
Alignment explanation
Indices: 6018559--6018598 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
6018549 TATACAAGTT
6018559 AAAAAAATCGA
1 AAAAAAATCGA
6018570 AAAAAAATTC-A
1 AAAAAAA-TCGA
6018581 AAAAAAATCGA
1 AAAAAAATCGA
6018592 AAAAAAA
1 AAAAAAA
6018599 GTGATTTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.07
11 23 0.85
12 2 0.07
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (11 bp):
AAAAAAATCGA
Found at i:6024682 original size:28 final size:29
Alignment explanation
Indices: 6024617--6024715 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
6024607 CATGAGATTG
* *
6024617 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
6024646 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
6024674 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
6024702 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
6024716 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:6032676 original size:28 final size:29
Alignment explanation
Indices: 6032611--6032709 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
6032601 CATGAGATTG
* *
6032611 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
6032640 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
6032668 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
6032696 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
6032710 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:6035296 original size:15 final size:15
Alignment explanation
Indices: 6035278--6035318 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
6035268 GAGAAACCCG
6035278 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
6035293 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
6035308 GGATAAAGAAA
1 GAATAAAGAAA
6035319 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:6035327 original size:15 final size:15
Alignment explanation
Indices: 6035280--6035327 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
6035270 GAAACCCGGA
6035280 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
6035294 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
6035310 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
6035325 ATA
1 ATA
6035328 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:6038358 original size:93 final size:93
Alignment explanation
Indices: 6038246--6038417 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
6038236 GCCCATAAGT
* *
6038246 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
6038311 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
6038339 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
6038404 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
6038418 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:6038413 original size:46 final size:46
Alignment explanation
Indices: 6038238--6038413 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
6038228 TGTAACCCGC
* * *
6038238 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
6038284 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
6038330 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
6038377 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
6038414 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 74 0.68
47 35 0.32
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:6041492 original size:19 final size:19
Alignment explanation
Indices: 6041470--6041509 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6041460 ATTAATTTTG
*
6041470 ATCAAGTAAATTTAAATTA
1 ATCAAGTAAATTAAAATTA
*
6041489 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
6041508 AT
1 AT
6041510 ATGATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:6046739 original size:120 final size:118
Alignment explanation
Indices: 6046492--6046741 Score: 265
Period size: 120 Copynumber: 2.1 Consensus size: 118
6046482 GGCTTATTTA
* * * *
6046492 TGAAAGTAATGAATGAGAAAAAGGTTCGAAAGATTAATGAAAGATTAAAGGAACTTTTTTGTTAA
1 TGAAAGTAATGAATGAGAAAAAGGTTCAAAAGATTAATGAAAGATTAAAGGAACATATTTGCTAA
* **
6046557 TACATTGAACCTAAAGATAGAACCAATTAGCTATTTACTTGCAGGCTTATTTC
66 TACATTGAACATAAAGATAGAACCAATTAGCTATTTACTTGCAGGCTTACCTC
* * *
6046610 TGAAGGTAATGAATGAGAAAAAAATGGTGT-AAAAGATTAGTGAAAGTTTAAAGGAA-ATATTTG
1 TGAAAGTAATGAATGAG--AAAAA-GGT-TCAAAAGATTAATGAAAGATTAAAGGAACATATTTG
* * * * * * *
6046673 CTAATACA-TGAAACATAAAGATGGAATCAGTTAG-TAATTTTCTTGTAGGCTTGCCTG
62 CTAATACATTG-AACATAAAGATAGAACCAATTAGCT-ATTTACTTGCAGGCTTACCTC
6046730 TGAAAGTAATGA
1 TGAAAGTAATGA
6046742 TTTTGGATGA
Statistics
Matches: 108, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
118 16 0.15
119 3 0.03
120 62 0.57
121 26 0.24
122 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.30
Consensus pattern (118 bp):
TGAAAGTAATGAATGAGAAAAAGGTTCAAAAGATTAATGAAAGATTAAAGGAACATATTTGCTAA
TACATTGAACATAAAGATAGAACCAATTAGCTATTTACTTGCAGGCTTACCTC
Found at i:6049574 original size:31 final size:31
Alignment explanation
Indices: 6049539--6049607 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
6049529 ACTTTCAAAA
6049539 GTTACATAATAGTAACTAATGTTATCAAATT
1 GTTACATAATAGTAACTAATGTTATCAAATT
* * * *
6049570 GTTACATAGTAGTCATTAATGTTATCAACTT
1 GTTACATAATAGTAACTAATGTTATCAAATT
*
6049601 GTAACAT
1 GTTACAT
6049608 TTTCATCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
GTTACATAATAGTAACTAATGTTATCAAATT
Found at i:6050586 original size:21 final size:21
Alignment explanation
Indices: 6050561--6050606 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6050551 TCTCTCTTTA
6050561 TTTTA-TAATAATTTTTAATTT
1 TTTTAGTAATAA-TTTTAATTT
**
6050582 TTTTAGTTTTAATTTTAATTT
1 TTTTAGTAATAATTTTAATTT
6050603 TTTT
1 TTTT
6050607 TAGATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTAGTAATAATTTTAATTT
Found at i:6050607 original size:22 final size:21
Alignment explanation
Indices: 6050573--6050614 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
6050563 TTATAATAAT
*
6050573 TTTTAATTTTTTTAGTTTTAA
1 TTTTAATTTTTTTAGATTTAA
6050594 TTTTAATTTTTTTTAGATTTA
1 TTTTAA-TTTTTTTAGATTTA
6050615 TATATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTAATTTTTTTAGATTTAA
Found at i:6060060 original size:54 final size:53
Alignment explanation
Indices: 6059976--6060137 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 53
6059966 CCATGGCAAC
* * * *
6059976 ATGTGATATGTGATTTTCATATAAGGCCATAGCTGGGTTATGACATCAGTGTG
1 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGATATGACATCAGTGTG
* * * *
6060029 ATGTGATCATGTGATTTCCGTATAAGACCATAGCTGGGCTATGTCATCAGAGAG
1 ATGTGAT-ATGTGATTTCCGTATAAGACCATAGCTGGGATATGACATCAGTGTG
* * * * * *
6060083 ATATGATTATGT-ACTTCTGTATAAGACCATATCTGGGATATGGCATCGGTGTG
1 ATGTGA-TATGTGATTTCCGTATAAGACCATAGCTGGGATATGACATCAGTGTG
6060136 AT
1 AT
6060138 ATGTGCCACT
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 42 0.46
54 48 0.53
55 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (53 bp):
ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGATATGACATCAGTGTG
Found at i:6060159 original size:47 final size:47
Alignment explanation
Indices: 6060099--6060189 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
6060089 TTATGTACTT
*
6060099 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCCA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGCCA
* *
6060146 CTGTATAAGACCATATTTGGGATATGGCATTAGTGTGATATGTG
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTG
6060190 ATCCGTGTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGCCA
Found at i:6062110 original size:6 final size:6
Alignment explanation
Indices: 6062099--6062130 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
6062089 CAACTACTGC
*
6062099 TATTGT TATTGT TATTGT TACTGT TATTGT TA
1 TATTGT TATTGT TATTGT TATTGT TATTGT TA
6062131 CCGTTACGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.03, G:0.16, T:0.62
Consensus pattern (6 bp):
TATTGT
Found at i:6062116 original size:12 final size:12
Alignment explanation
Indices: 6062093--6062136 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
6062083 TGTGTACAAC
*
6062093 TACTGCTATTGT
1 TACTGTTATTGT
*
6062105 TATTGTTATTGT
1 TACTGTTATTGT
6062117 TACTGTTATTGT
1 TACTGTTATTGT
*
6062129 TACCGTTA
1 TACTGTTA
6062137 CGGTGTATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (12 bp):
TACTGTTATTGT
Found at i:6062136 original size:18 final size:18
Alignment explanation
Indices: 6062102--6062137 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6062092 CTACTGCTAT
**
6062102 TGTTATTGTTATTGTTAC
1 TGTTATTGTTACCGTTAC
6062120 TGTTATTGTTACCGTTAC
1 TGTTATTGTTACCGTTAC
6062138 GGTGTATTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (18 bp):
TGTTATTGTTACCGTTAC
Found at i:6062268 original size:18 final size:18
Alignment explanation
Indices: 6062245--6062288 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6062235 TAAATAAAGG
6062245 TACTGAATAATTGACTGC
1 TACTGAATAATTGACTGC
* *
6062263 TACTGAATATTTGACTGT
1 TACTGAATAATTGACTGC
6062281 TACTGAAT
1 TACTGAAT
6062289 TACTAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:6066226 original size:23 final size:23
Alignment explanation
Indices: 6066144--6066230 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
6066134 CCTGATCAGT
*
6066144 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
6066166 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
6066186 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
6066209 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
6066231 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:6067701 original size:16 final size:17
Alignment explanation
Indices: 6067666--6067701 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
6067656 ACTAATTCTC
6067666 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
6067682 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
6067697 CCTTC
1 CCTTC
6067702 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:6104412 original size:20 final size:22
Alignment explanation
Indices: 6104387--6104437 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
6104377 AGCCAACTCA
*
6104387 CTAATA-T-CGCAACACAACTG
1 CTAATAGTACGCAACAAAACTG
6104407 CTAATAGTAACGCAACAAAACTG
1 CTAATAGT-ACGCAACAAAACTG
6104430 CTAATAGT
1 CTAATAGT
6104438 GGTAAACGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.22
21 1 0.04
23 20 0.74
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.22
Consensus pattern (22 bp):
CTAATAGTACGCAACAAAACTG
Found at i:6104422 original size:23 final size:23
Alignment explanation
Indices: 6104394--6104437 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6104384 TCACTAATAT
*
6104394 CGCAACACAACTGCTAATAGTAA
1 CGCAACAAAACTGCTAATAGTAA
6104417 CGCAACAAAACTGCTAATAGT
1 CGCAACAAAACTGCTAATAGT
6104438 GGTAAACGTG
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:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (23 bp):
CGCAACAAAACTGCTAATAGTAA
Found at i:6107185 original size:25 final size:25
Alignment explanation
Indices: 6107097--6107239 Score: 89
Period size: 25 Copynumber: 5.8 Consensus size: 25
6107087 GGCTCTTTGT
*
6107097 GAGCTTCCCGATTAATGGCTCTCCA
1 GAGCTTCCCGATTAATGGCTTTCCA
* * ** **
6107122 GAGCTCCCCGA-TATTGGCTCACTT
1 GAGCTTCCCGATTAATGGCTTTCCA
* * *
6107146 GAAACTTTCTG-TTAATGGCTTTCCA
1 G-AGCTTCCCGATTAATGGCTTTCCA
* *
6107171 GAGCTTCCCGATTAATGACTTTTCA
1 GAGCTTCCCGATTAATGGCTTTCCA
* * *
6107196 GAGCTACCCG-TTATTGGC-TTACA
1 GAGCTTCCCGATTAATGGCTTTCCA
6107219 TGAGCTTCCC-ATTATATGGCT
1 -GAGCTTCCCGATTA-ATGGCT
6107240 CGAAAGAGCT
Statistics
Matches: 86, Mismatches: 25, Indels: 13
0.69 0.20 0.10
Matches are distributed among these distances:
23 4 0.05
24 33 0.38
25 49 0.57
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTTTCCA
Found at i:6107238 original size:74 final size:74
Alignment explanation
Indices: 6107097--6107239 Score: 171
Period size: 74 Copynumber: 1.9 Consensus size: 74
6107087 GGCTCTTTGT
* * * * **
6107097 GAGCTTCCCGATTAATGGCTCTCCAGAGCTCCCCGATATTGGCTCACTTGAAACTTTCTGTTAAT
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCATTAAT
6107162 GGCTTTCCA
66 GGCTTTCCA
* * * * *
6107171 GAGCTTCCCGATTAATGACTTTTCAGAGCTACCCGTTATTGGCTTACATG-AGCTTCCCATTATA
1 GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCATTA-A
6107235 TGGCT
65 TGGCT
6107240 CGAAAGAGCT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
73 8 0.14
74 49 0.86
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.34
Consensus pattern (74 bp):
GAGCTTCCCGATTAATGACTCTCCAGAGCTACCCGATATTGGCTCACATGAAACTTCCCATTAAT
GGCTTTCCA
Found at i:6110337 original size:28 final size:28
Alignment explanation
Indices: 6110305--6110359 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
6110295 CAGTAGAAAA
*
6110305 CCCTAAACCCTTCCAAAAATTAAACTAG
1 CCCTAAACCCTTCCAAAAATAAAACTAG
6110333 CCCTAAACCCTTCCAAAAATAAAACTA
1 CCCTAAACCCTTCCAAAAATAAAACTA
6110360 ATTAGGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (28 bp):
CCCTAAACCCTTCCAAAAATAAAACTAG
Found at i:6114858 original size:18 final size:18
Alignment explanation
Indices: 6114835--6114877 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6114825 ATTCAAGGTG
6114835 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
6114853 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
6114871 TAATTAA
1 TAATTAA
6114878 AAATTATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:6117233 original size:45 final size:45
Alignment explanation
Indices: 6117183--6117283 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
6117173 GTAGCAGTAG
* * *
6117183 CAGTAACAGTAATAGTATTCAACACACAAAGCG-CTGAATCTGTAA
1 CAGTAACAGTAACAATATTCAACACACAAAGCGTC-GAATCGGTAA
** * *
6117228 CAGTAATGGTAACAATATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACAGTAACAATATTCAACACACAAAGCGTCGAATCGGTAA
6117273 CAGTAACAGTA
1 CAGTAACAGTA
6117284 GTCGGCACAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAATATTCAACACACAAAGCGTCGAATCGGTAA
Found at i:6118359 original size:5 final size:5
Alignment explanation
Indices: 6118349--6118399 Score: 88
Period size: 5 Copynumber: 10.6 Consensus size: 5
6118339 TGTTTCTTTT
6118349 ATATA ATATA ATATA ATATA ATATA ATATA ATAT- A-ATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
6118397 ATA
1 ATA
6118400 ATATAGTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 40 0.91
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:6118389 original size:13 final size:13
Alignment explanation
Indices: 6118356--6118409 Score: 81
Period size: 13 Copynumber: 4.0 Consensus size: 13
6118346 TTTATATAAT
6118356 ATAATATAATATAA
1 ATAATATAATAT-A
6118370 TATAATATAATATA
1 -ATAATATAATATA
6118384 ATAATATAATATA
1 ATAATATAATATA
*
6118397 ATAATATAGTATA
1 ATAATATAATATA
6118410 CTTAATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
13 25 0.66
14 1 0.03
15 12 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:6118907 original size:33 final size:33
Alignment explanation
Indices: 6118794--6118907 Score: 83
Period size: 33 Copynumber: 3.5 Consensus size: 33
6118784 TTCTTTGTGT
* *
6118794 CATAGTCCAACTATGGTCTTACACAG-CAT--TGC
1 CATAGCCCAACTATGGCCTT--ACAGTCATAATGC
* * * * *
6118826 CATGGCCCAACCATGGTCTTACAGTCGTAGTGC
1 CATAGCCCAACTATGGCCTTACAGTCATAATGC
* **
6118859 CATAACCCAGTTATGGCCTTATCA-TCATAATGC
1 CATAGCCCAACTATGGCCTTA-CAGTCATAATGC
6118892 CATAGCCCAACTATGG
1 CATAGCCCAACTATGG
6118908 TCTAACATAT
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
30 4 0.06
31 2 0.03
32 17 0.27
33 38 0.60
34 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (33 bp):
CATAGCCCAACTATGGCCTTACAGTCATAATGC
Found at i:6119092 original size:117 final size:117
Alignment explanation
Indices: 6118886--6119118 Score: 369
Period size: 117 Copynumber: 2.0 Consensus size: 117
6118876 CTTATCATCA
*
6118886 TAATGCCATAGCCCAACTATGGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
1 TAATGCCATAGCCCAACTATAGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
* *
6118951 TCAAAGTGTCATAACCTAGTTATGGT-TATTTCCGTCAATTCATCCTTTACAT
66 TCAAAGTGCCATAACCTAGTTATGGTCT-TATCCGTCAATTCATCCTTTACAT
* *
6119003 TAATGCCATAGCCCAACTATAGTCTTACATATAAATACTGCCATGGTCCAACCATGGTCTTACAT
1 TAATGCCATAGCCCAACTATAGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
*** *
6119068 TTTTAGTGCCATAACCTAGTTATGGTCTTATCCGTCAATTCCTCCTTTACA
66 TCAAAGTGCCATAACCTAGTTATGGTCTTATCCGTCAATTCATCCTTTACA
6119119 CTGAACAATT
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
117 105 0.99
118 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (117 bp):
TAATGCCATAGCCCAACTATAGTCTAACATATAAATACTGCCATGGTCCAACCATGGTCATACAT
TCAAAGTGCCATAACCTAGTTATGGTCTTATCCGTCAATTCATCCTTTACAT
Found at i:6132997 original size:29 final size:29
Alignment explanation
Indices: 6132949--6133005 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
6132939 AAAATGGATC
6132949 AAATCAAAATTTTAGGTATAAAATTACACA
1 AAATCAAAATTTTA-GTATAAAATTACACA
*
6132979 AAATCAAAATTTTTA-TATAGAATTACA
1 AAATCAAAA-TTTTAGTATAAAATTACA
6133006 TGTTAAACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATCAAAATTTTAGTATAAAATTACACA
Found at i:6134333 original size:12 final size:14
Alignment explanation
Indices: 6134307--6134340 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6134297 AAACATTGAT
6134307 AATATAAATTAAAA
1 AATATAAATTAAAA
6134321 AATA-AAATTAAAA
1 AATATAAATTAAAA
6134334 AAT-TAAA
1 AATATAAA
6134341 AGTATAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATATAAATTAAAA
Found at i:6135631 original size:18 final size:18
Alignment explanation
Indices: 6135608--6135650 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6135598 ATTTAAGGTG
6135608 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
6135626 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
6135644 TAATTAA
1 TAATTAA
6135651 AAATCTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:6140338 original size:18 final size:18
Alignment explanation
Indices: 6140317--6140381 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
6140307 ATGCTGCTGC
6140317 TGATGATGACAACGATGA
1 TGATGATGACAACGATGA
*
6140335 TGATGATGACAATGATAATGA
1 TGATGATGACAACG---ATGA
* * *
6140356 AGATGATGACGACGACGA
1 TGATGATGACAACGATGA
6140374 TGATGATG
1 TGATGATG
6140382 GCAGTGAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 23 0.61
21 15 0.39
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.23
Consensus pattern (18 bp):
TGATGATGACAACGATGA
Found at i:6143934 original size:22 final size:22
Alignment explanation
Indices: 6143906--6143969 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 22
6143896 AAAACATAAT
6143906 ATAATATTTATCATAAAGGTAA
1 ATAATATTTATCATAAAGGTAA
* * *
6143928 ATAATATTTAATTAAAACAAAGTTAA
1 ATAATATTT-A-T--CATAAAGGTAA
6143954 ATAATATTTATCATAA
1 ATAATATTTATCATAA
6143970 TATTTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
22 12 0.36
23 1 0.03
24 2 0.06
25 1 0.03
26 17 0.52
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAATATTTATCATAAAGGTAA
Found at i:6144023 original size:30 final size:31
Alignment explanation
Indices: 6143988--6144046 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
6143978 TTAAAATTTA
* *
6143988 AAAAATAAAAAATATTTTAAGCTTTATTTTT
1 AAAATTAAAAAATATTTAAAGCTTTATTTTT
* *
6144019 AAAATTAAAGATTATTTAAAGCTTTATT
1 AAAATTAAAAAATATTTAAAGCTTTATT
6144047 ATAACAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (31 bp):
AAAATTAAAAAATATTTAAAGCTTTATTTTT
Found at i:6144614 original size:26 final size:26
Alignment explanation
Indices: 6144574--6144637 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 26
6144564 AAAAAATACC
6144574 AATAATATATAA-ACATAAA-AAATATTAA
1 AATAA-ATATAACA-ATAAATAAATA--AA
6144602 AATAAATATAACAATAAATAAATAAA
1 AATAAATATAACAATAAATAAATAAA
6144628 AATAAATATA
1 AATAAATATA
6144638 TTAAAATCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.35
27 11 0.32
28 11 0.32
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (26 bp):
AATAAATATAACAATAAATAAATAAA
Found at i:6144644 original size:20 final size:20
Alignment explanation
Indices: 6144594--6144644 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
6144584 AAACATAAAA
*
6144594 AATATTAAAATAAATATAAC
1 AATATTAAAATAAAAATAAC
*
6144614 AATA-AATAAATAAAAATAA-
1 AATATTA-AAATAAAAATAAC
6144633 ATATATTAAAAT
1 A-ATATTAAAAT
6144645 CTACTGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 2 0.08
20 22 0.88
21 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AATATTAAAATAAAAATAAC
Found at i:6149014 original size:7 final size:7
Alignment explanation
Indices: 6149004--6149045 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
6148994 TATTTTTTTT
6149004 TTTTAAA
1 TTTTAAA
6149011 TTTTAAA
1 TTTTAAA
6149018 TTTTAAA
1 TTTTAAA
6149025 TTTTTTAAA
1 --TTTTAAA
6149034 TTTTAAA
1 TTTTAAA
*
6149041 ATTTA
1 TTTTA
6149046 GGTTGACTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 25 0.78
9 7 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTTAAA
Found at i:6149032 original size:23 final size:23
Alignment explanation
Indices: 6149002--6149045 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6148992 TGTATTTTTT
*
6149002 TTTTTTAAATTTTAAATTTTAAA
1 TTTTTTAAATTTTAAAATTTAAA
6149025 TTTTTTAAATTTTAAAATTTA
1 TTTTTTAAATTTTAAAATTTA
6149046 GGTTGACTTG
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTTTAAATTTTAAAATTTAAA
Found at i:6152856 original size:8 final size:8
Alignment explanation
Indices: 6152843--6152878 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
6152833 CAACCAGGTT
6152843 TTTTTTTC
1 TTTTTTTC
6152851 TTTTTTTC
1 TTTTTTTC
6152859 -TTTTTTC
1 TTTTTTTC
6152866 TTTTTTTGC
1 TTTTTTT-C
6152875 TTTT
1 TTTT
6152879 CATCCTTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.27
8 14 0.54
9 5 0.19
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Found at i:6152864 original size:15 final size:16
Alignment explanation
Indices: 6152844--6152878 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
6152834 AACCAGGTTT
6152844 TTTTTTCTTTTTTT-C
1 TTTTTTCTTTTTTTGC
6152859 TTTTTTCTTTTTTTGC
1 TTTTTTCTTTTTTTGC
6152875 TTTT
1 TTTT
6152879 CATCCTTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTTCTTTTTTTGC
Found at i:6153677 original size:43 final size:41
Alignment explanation
Indices: 6153631--6153790 Score: 144
Period size: 42 Copynumber: 3.8 Consensus size: 41
6153621 CGTTTATTTA
*
6153631 AAAAAAACGTCGCTAAAAGCCATGACTTTTAGCAGAGTTTGT
1 AAAAAAACGCCGCTAAAAGCCATGACTTTTAGC-GAGTTTGT
* * * * *
6153673 AAAAAAGCGCGGCTAAAAGTCATGGCTTTTAGTG-GCATTTGCT
1 AAAAAAACGCCGCTAAAAGCCATGACTTTTAGCGAG--TTTG-T
*** * * * *
6153716 GGGAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGACGTTTGC
1 AAAAAAACGCCGCTAAAAGCCATGACTTTTAGCGA-GTTTGT
6153758 AAAAAAA-GCCGCTAAAAGCCATGACTTTTAGCG
1 AAAAAAACGCCGCTAAAAGCCATGACTTTTAGCG
6153791 GCGTTTTTCT
Statistics
Matches: 95, Mismatches: 18, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
40 1 0.01
41 25 0.26
42 34 0.36
43 34 0.36
45 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAAGCCATGACTTTTAGCGAGTTTGT
Found at i:6153689 original size:42 final size:41
Alignment explanation
Indices: 6153631--6153790 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 41
6153621 CGTTTATTTA
*
6153631 AAAAAAACGTCGCTAAAAGCCATGACTTTTAGCAGAGTTTG-T
1 AAAAAAGCG-CGCTAAAAGCCATGACTTTTAGC-GAGTTTGCT
* * *
6153673 AAAAAAGCGCGGCTAAAAGTCATGGCTTTTAGTG-GCATTTGCT
1 AAAAAAGCGC-GCTAAAAGCCATGACTTTTAGCGAG--TTTGCT
*** * * *
6153716 GGGAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGACGTTTGCA
1 AAAAAAGCG-CGCTAAAAGCCATGACTTTTAGCGA-GTTTGCT
6153759 AAAAAAGC-CGCTAAAAGCCATGACTTTTAGCG
1 AAAAAAGCGCGCTAAAAGCCATGACTTTTAGCG
6153791 GCGTTTTTCT
Statistics
Matches: 97, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
40 1 0.01
41 24 0.25
42 31 0.32
43 39 0.40
44 1 0.01
45 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (41 bp):
AAAAAAGCGCGCTAAAAGCCATGACTTTTAGCGAGTTTGCT
Found at i:6153786 original size:41 final size:41
Alignment explanation
Indices: 6153631--6153796 Score: 138
Period size: 41 Copynumber: 4.0 Consensus size: 41
6153621 CGTTTATTTA
*
6153631 AAAAAAACGTCGCTAAAAGCCATGACTTTTAGCAGA-GTTTG-
1 AAAAAAA-GCCGCTAAAAGCCATGACTTTTAGC-GACGTTTGC
* * * * * *
6153672 TAAAAAAGCGCGGCTAAAAGTCATGGCTTTTAGTGGCATTTGC
1 AAAAAAAGC-C-GCTAAAAGCCATGACTTTTAGCGACGTTTGC
** ** * *
6153715 TGGGAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGACGTTTGC
1 --AAAAAAAGCCGCTAAAAGCCATGACTTTTAGCGACGTTTGC
*
6153758 AAAAAAAGCCGCTAAAAGCCATGACTTTTAGCGGCGTTT
1 AAAAAAAGCCGCTAAAAGCCATGACTTTTAGCGACGTTT
6153797 TTCTCACAAA
Statistics
Matches: 98, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
40 1 0.01
41 40 0.41
42 23 0.23
43 28 0.29
44 1 0.01
45 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (41 bp):
AAAAAAAGCCGCTAAAAGCCATGACTTTTAGCGACGTTTGC
Found at i:6153919 original size:31 final size:33
Alignment explanation
Indices: 6153870--6153950 Score: 103
Period size: 31 Copynumber: 2.5 Consensus size: 33
6153860 TTCATGTATT
* *
6153870 AAATCCAACCAAATACAACAAATATAGCA-T-A
1 AAATACAACCAAAAACAACAAATATAGCATTAA
* * *
6153901 AAATGCAGCCAAAAACAACAAATTTAGCATTAA
1 AAATACAACCAAAAACAACAAATATAGCATTAA
6153934 AAATACAACCAAAAACA
1 AAATACAACCAAAAACA
6153951 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 25 0.60
32 1 0.02
33 16 0.38
ACGTcount: A:0.59, C:0.21, G:0.05, T:0.15
Consensus pattern (33 bp):
AAATACAACCAAAAACAACAAATATAGCATTAA
Found at i:6154239 original size:21 final size:21
Alignment explanation
Indices: 6154185--6154239 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
6154175 GCTGCCATTG
* *
6154185 CTGCTGCCCCTACCTTCCTCA
1 CTGCTGCCCCTGCCTCCCTCA
** *
6154206 CTGCTGCAGCTGCCTCCCTCT
1 CTGCTGCCCCTGCCTCCCTCA
*
6154227 CTGCTGCCTCTGC
1 CTGCTGCCCCTGC
6154240 TCTAAGTTGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.05, C:0.49, G:0.16, T:0.29
Consensus pattern (21 bp):
CTGCTGCCCCTGCCTCCCTCA
Found at i:6154675 original size:13 final size:14
Alignment explanation
Indices: 6154650--6154678 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6154640 TGATGAATTG
6154650 AATTAAACAATTAT
1 AATTAAACAATTAT
6154664 AATTAAAC-ATTAT
1 AATTAAACAATTAT
6154677 AA
1 AA
6154679 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:6159180 original size:9 final size:9
Alignment explanation
Indices: 6159166--6159219 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
6159156 TATTTATGTA
6159166 TTATGTAAG
1 TTATGTAAG
*
6159175 TTATGTAAA
1 TTATGTAAG
6159184 TTATGTAAG
1 TTATGTAAG
* * **
6159193 TTGTTTATC
1 TTATGTAAG
*
6159202 TTATGTAAA
1 TTATGTAAG
6159211 TTATGTAAG
1 TTATGTAAG
6159220 ATATAATATA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:6159188 original size:18 final size:18
Alignment explanation
Indices: 6159165--6159218 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
6159155 ATATTTATGT
6159165 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
6159183 ATTATGTAAGTTGTTTAT
1 ATTATGTAAGTTATGTAA
* *
6159201 CTTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
6159219 GATATAATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:6160743 original size:25 final size:24
Alignment explanation
Indices: 6160706--6160827 Score: 102
Period size: 25 Copynumber: 5.0 Consensus size: 24
6160696 TAAGCGTCCC
* *
6160706 GATATATGACTCTTTTGAGCTTCCT
1 GATA-ATGGCTCTCTTGAGCTTCCT
*
6160731 GATTAATGGCTCTCTAGAGCTTCCT
1 GA-TAATGGCTCTCTTGAGCTTCCT
* * *
6160756 GATATTGGCTCGCTTGAACCTTCCT
1 GATAATGGCTCTCTTG-AGCTTCCT
* * *
6160781 GATATTGGCTCGT-ATGAGCTTCCC
1 GATAATGGCTC-TCTTGAGCTTCCT
* *
6160805 GTTAATGGCTCTCTGGAGCTTCC
1 GATAATGGCTCTCTTGAGCTTCC
6160828 CGTTACATGA
Statistics
Matches: 78, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
23 1 0.01
24 34 0.44
25 41 0.53
26 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (24 bp):
GATAATGGCTCTCTTGAGCTTCCT
Found at i:6160813 original size:24 final size:24
Alignment explanation
Indices: 6160786--6160832 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6160776 TTCCTGATAT
6160786 TGGCTCGTAT-GAGCTTCCCGTTAA
1 TGGCTC-TATGGAGCTTCCCGTTAA
*
6160810 TGGCTCTCTGGAGCTTCCCGTTA
1 TGGCTCTATGGAGCTTCCCGTTA
6160833 CATGACTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.13, C:0.28, G:0.26, T:0.34
Consensus pattern (24 bp):
TGGCTCTATGGAGCTTCCCGTTAA
Found at i:6176258 original size:6 final size:6
Alignment explanation
Indices: 6176247--6176290 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
6176237 GTATTTCCAA
6176247 AAAAAT AAAAAT AAAAAT AAAAA- ATAAAAT -AAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT AAAA
6176291 GAACATATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 11 0.31
6 24 0.69
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:6176262 original size:5 final size:5
Alignment explanation
Indices: 6176248--6176290 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
6176238 TATTTCCAAA
*
6176248 AAAAT AAAAAT AAAA- ATAA- AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
6176291 GAACATATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
4 6 0.18
5 23 0.68
6 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:6185896 original size:19 final size:20
Alignment explanation
Indices: 6185856--6185896 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
6185846 CTAAACCGAT
*
6185856 AACTTAAGAAATTTTTAGAA
1 AACTTAAGAAATTTTTACAA
*
6185876 AACTT-AGAAATTTTTTCAA
1 AACTTAAGAAATTTTTACAA
6185895 AA
1 AA
6185897 TACAGGGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (20 bp):
AACTTAAGAAATTTTTACAA
Found at i:6192570 original size:66 final size:64
Alignment explanation
Indices: 6192383--6192632 Score: 199
Period size: 66 Copynumber: 3.8 Consensus size: 64
6192373 ATATAGTTCG
* * *
6192383 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAG--ACA-ATTTATCTCG
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACACA-TAATCTCG
6192444 TA
63 TA
* * * *
6192446 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCT--ACATAATCTC
1 GCTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGCGACCTAGCTACACATAATCTC
6192509 GTA
62 GTA
* *
6192512 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCTACA-CATAA--TCTC
6192577 GTA
62 GTA
* * * ** *
6192580 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACA
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACA
6192633 TACTATCTGT
Statistics
Matches: 151, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
62 2 0.01
63 41 0.27
65 1 0.01
66 54 0.36
67 4 0.03
68 48 0.32
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTACACATAATCTCGTA
Found at i:6196000 original size:25 final size:25
Alignment explanation
Indices: 6195959--6196006 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
6195949 ACTTTTTCTC
* *
6195959 CTTTCTTTCTCCTTTTCTTTTCTTT
1 CTTTCCTTCTCCTTTTCGTTTCTTT
6195984 CTTTCCTTCT-CTGTTTCGTTTCT
1 CTTTCCTTCTCCT-TTTCGTTTCT
6196007 GCTTTGGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.00, C:0.29, G:0.04, T:0.67
Consensus pattern (25 bp):
CTTTCCTTCTCCTTTTCGTTTCTTT
Found at i:6198045 original size:6 final size:6
Alignment explanation
Indices: 6198036--6198069 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
6198026 AAAATAATAA
6198036 TATTTT TATTTT TATTTT TATTATGT TATTTT TA
1 TATTTT TATTTT TATTTT TATT-T-T TATTTT TA
6198070 ATGTAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:6200231 original size:24 final size:24
Alignment explanation
Indices: 6200204--6200255 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6200194 TTAGTAAGTC
*
6200204 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6200228 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6200252 AAAT
1 AAAT
6200256 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6202202 original size:24 final size:24
Alignment explanation
Indices: 6202175--6202226 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6202165 TTAGTAAGTC
*
6202175 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6202199 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6202223 AAAT
1 AAAT
6202227 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6206440 original size:21 final size:21
Alignment explanation
Indices: 6206414--6206460 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
6206404 CTGAACTACT
*
6206414 TTCTTCTAATCGATCTGAACA
1 TTCTTCTAATCGATCCGAACA
6206435 TTCTTCTAATCGATCCGAACA
1 TTCTTCTAATCGATCCGAACA
6206456 TTCTT
1 TTCTT
6206461 GAAATTCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (21 bp):
TTCTTCTAATCGATCCGAACA
Found at i:6214271 original size:9 final size:9
Alignment explanation
Indices: 6214254--6214287 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6214244 GCCATATACT
6214254 GTTTCTATA
1 GTTTCTATA
*
6214263 GTTTTTATA
1 GTTTCTATA
*
6214272 ATTTCTATA
1 GTTTCTATA
6214281 GTTTCTA
1 GTTTCTA
6214288 ATAGGCATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (9 bp):
GTTTCTATA
Found at i:6217085 original size:25 final size:25
Alignment explanation
Indices: 6217040--6217113 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
6217030 TACTAATCTA
* * **
6217040 AAAAATATATAATAAAT-AAAATTT
1 AAAAATATACAAAAAATAAAAATAG
6217064 AAAAATATACAAAAAATAAAAATAG
1 AAAAATATACAAAAAATAAAAATAG
* *
6217089 AGAAATTTACAAAAAATGAAAAATA
1 AAAAATATACAAAAAAT-AAAAATA
6217114 AAACAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.36
25 20 0.48
26 7 0.17
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAAATATACAAAAAATAAAAATAG
Found at i:6218007 original size:24 final size:23
Alignment explanation
Indices: 6217931--6218016 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
6217921 AATGTTCACT
* * *
6217931 AACATGTTCATTTAAC-TTAATCG
1 AACATGTTCA-TGAACATTAAACA
* *
6217954 AACATGTTTAAGAACATTAAACA
1 AACATGTTCATGAACATTAAACA
**
6217977 AACATGTTCATGAACATATAATTA
1 AACATGTTCATGAACAT-TAAACA
6218001 AACATGTTCATGAACA
1 AACATGTTCATGAACA
6218017 ATGTTAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 3 0.06
23 29 0.56
24 20 0.38
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.31
Consensus pattern (23 bp):
AACATGTTCATGAACATTAAACA
Found at i:6226043 original size:17 final size:18
Alignment explanation
Indices: 6226012--6226060 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
6226002 TATACTTTTA
*
6226012 ATTTGT-TTTTATAATAT
1 ATTTGTATTTTTTAATAT
6226029 -TTTGTATTTTTTAATAT
1 ATTTGTATTTTTTAATAT
* *
6226046 ATTTATAGTTTTTAA
1 ATTTGTATTTTTTAA
6226061 ATAGTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 5 0.19
17 10 0.37
18 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATTTGTATTTTTTAATAT
Found at i:6226057 original size:19 final size:18
Alignment explanation
Indices: 6226016--6226068 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
6226006 CTTTTAATTT
*
6226016 GTTTTTATAATATTTTGTA
1 GTTTTT-TAATATTTTATA
6226035 -TTTTTTAATATATTTATA
1 GTTTTTTAATAT-TTTATA
*
6226053 GTTTTTAAATAGTTTT
1 GTTTTTTAATA-TTTT
6226069 TGTAATTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 6 0.21
18 10 0.34
19 12 0.41
20 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (18 bp):
GTTTTTTAATATTTTATA
Found at i:6234311 original size:19 final size:22
Alignment explanation
Indices: 6234272--6234311 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
6234262 AGAAACCCAA
6234272 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
6234294 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
6234312 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:6234410 original size:27 final size:28
Alignment explanation
Indices: 6234373--6234512 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
6234363 AGCATGGCTG
* *
6234373 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
6234399 CCAGATACAGATA-ATCGTGGTAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
6234427 CCAGA-ACAGATATATGTTGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
6234454 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
6234481 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
6234508 CCAGA
1 CCAGA
6234513 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.05
27 81 0.79
28 16 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:6236167 original size:26 final size:26
Alignment explanation
Indices: 6236131--6236240 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
6236121 CATGAAATTC
6236131 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
6236157 TTATCATGAAACATTTACCTAGCCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6236183 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
6236209 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
6236235 TTATCA
1 TTATCA
6236241 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6237367 original size:15 final size:15
Alignment explanation
Indices: 6237347--6237378 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6237337 GTAGCTTAGG
6237347 AGTAAGATTTAGATT
1 AGTAAGATTTAGATT
6237362 AGTAAGATTTAGATT
1 AGTAAGATTTAGATT
6237377 AG
1 AG
6237379 GTTTTCTCTT
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:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (15 bp):
AGTAAGATTTAGATT
Found at i:6239569 original size:138 final size:138
Alignment explanation
Indices: 6239389--6239665 Score: 410
Period size: 138 Copynumber: 2.0 Consensus size: 138
6239379 AAAAAAAAGG
* * * *
6239389 AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATCAATTTCCATATATTTTATATTTTAACCAAAATTAATTAA
* * *
6239454 TAGAACTGTTTATATTAATAAATTCAGTAAAATATGTACAATTAATTTTTTACATGAATCAACTT
66 TAGAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTACATGAATCAAATT
6239519 CATATATT
131 CATATATT
**
6239527 AATTATATTCTTTCCAAAAGAATATCAATTTCCATATATTTTATATTTTAACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATCAATTTCCATATATTTTATATTTTAACCAAAATTAATTAA
* * ** * **
6239592 TATAATTGTTTATATTAATAAATTTGGTAAAATATATATAATTAATATTTTGTATGAATCAAATT
66 TAGAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTACATGAATCAAATT
6239657 CATATATT
131 CATATATT
6239665 A
1 A
6239666 GTTTTATCTA
Statistics
Matches: 123, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 123 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATCAATTTCCATATATTTTATATTTTAACCAAAATTAATTAA
TAGAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTACATGAATCAAATT
CATATATT
Found at i:6241741 original size:55 final size:55
Alignment explanation
Indices: 6241641--6241767 Score: 132
Period size: 55 Copynumber: 2.3 Consensus size: 55
6241631 GCAATCTTGC
* * * * *
6241641 CAAATTAACACGGGCGTGCAACACGCCTGTGTCTATAAGCCGTGGTAGAAATTGA
1 CAAATTAACACGGGCGTACAACACGCCCGTGCCCATAAGCCGTGGTAGAAACTGA
* * * *
6241696 GAAATTAACACGGGCGTACGACACGCCCGTGCCCACT-A-CCTGTGGTCGAAACTGT
1 CAAATTAACACGGGCGTACAACACGCCCGTGCCCA-TAAGCC-GTGGTAGAAACTGA
*
6241751 CAAAATAACACGGGCGT
1 CAAATTAACACGGGCGT
6241768 GCGCATATGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 2 0.03
55 56 0.95
56 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (55 bp):
CAAATTAACACGGGCGTACAACACGCCCGTGCCCATAAGCCGTGGTAGAAACTGA
Found at i:6242395 original size:6 final size:6
Alignment explanation
Indices: 6242384--6242436 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
6242374 AGCCCACTTA
* * *
6242384 TTTTAT TTTTATT TTTTAT TTTTAT TTTTAA TTTTAT ATTT-G TTTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
6242432 TTTTA
1 TTTTA
6242437 AAGACTTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 3 0.08
6 30 0.77
7 6 0.15
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:6242401 original size:7 final size:7
Alignment explanation
Indices: 6242384--6242435 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
6242374 AGCCCACTTA
6242384 TTTTA-T
1 TTTTATT
6242390 TTTTATT
1 TTTTATT
6242397 TTTTA-T
1 TTTTATT
6242403 TTTTATT
1 TTTTATT
*
6242410 TTTAATT
1 TTTTATT
*
6242417 TTATATTT
1 TTTTA-TT
6242425 GTTTTATT
1 -TTTTATT
6242433 TTT
1 TTT
6242436 AAAGACTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 11 0.29
7 19 0.50
8 4 0.11
9 4 0.11
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:6242402 original size:13 final size:13
Alignment explanation
Indices: 6242384--6242436 Score: 70
Period size: 13 Copynumber: 3.8 Consensus size: 13
6242374 AGCCCACTTA
6242384 TTTTATTTTTATT
1 TTTTATTTTTATT
6242397 TTTTATTTTTATT
1 TTTTATTTTTATT
*
6242410 TTTAATTTTATATTT
1 TTTTATTTT-TA-TT
6242425 GTTTTATTTTTA
1 -TTTTATTTTTA
6242437 AAGACTTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 21 0.60
14 2 0.06
15 4 0.11
16 8 0.23
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:6244616 original size:14 final size:14
Alignment explanation
Indices: 6244582--6244621 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
6244572 CTTGTTAGTA
*
6244582 TATTCTGAATTATG
1 TATTCTTAATTATG
6244596 TATTTCTTAATTATG
1 TA-TTCTTAATTATG
6244611 TATTCTTAATT
1 TATTCTTAATT
6244622 CTTGCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TATTCTTAATTATG
Found at i:6253385 original size:151 final size:151
Alignment explanation
Indices: 6253111--6253415 Score: 601
Period size: 151 Copynumber: 2.0 Consensus size: 151
6253101 TGGGTGGAGC
6253111 TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGGGAGACTCTCTATGTA
1 TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGGGAGACTCTCTATGTA
6253176 TTGCTTTGTGAGTTTTGTGATGAATAAGTACAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
66 TTGCTTTGTGAGTTTTGTGATGAATAAGTACAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
6253241 GTGACCAGGATGTGGTAAGGT
131 GTGACCAGGATGTGGTAAGGT
6253262 TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGGGAGACTCTCTATGTA
1 TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGGGAGACTCTCTATGTA
*
6253327 TTGCTTTGTGAGTTTTGTGATGAATAAGTGCAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
66 TTGCTTTGTGAGTTTTGTGATGAATAAGTACAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
6253392 GTGACCAGGATGTGGTAAGGT
131 GTGACCAGGATGTGGTAAGGT
6253413 TAT
1 TAT
6253416 AAACAAGTAA
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 153 1.00
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (151 bp):
TATGTGCTGAAACCACCAAGTATCGAGGATTGATCTGAAGTGTTCAACGGGAGACTCTCTATGTA
TTGCTTTGTGAGTTTTGTGATGAATAAGTACAGGAACTTGGTTATGTGAATGATGTGTTCATTAA
GTGACCAGGATGTGGTAAGGT
Found at i:6255642 original size:22 final size:22
Alignment explanation
Indices: 6255617--6255662 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6255607 CCAAATTGTG
*
6255617 GAAAT-GTTAGAATGGATGTTTA
1 GAAATGGTTA-AATGAATGTTTA
6255639 GAAATGGTTAAATGAATGTTTA
1 GAAATGGTTAAATGAATGTTTA
6255661 GA
1 GA
6255663 CATGCTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (22 bp):
GAAATGGTTAAATGAATGTTTA
Found at i:6257199 original size:3 final size:3
Alignment explanation
Indices: 6257191--6257218 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6257181 ATTAATCTAA
6257191 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6257219 GTTGTTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6257223 original size:3 final size:3
Alignment explanation
Indices: 6257217--6257263 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6257207 ATTATTATTA
6257217 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
6257264 ATTAAAGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:6262057 original size:16 final size:16
Alignment explanation
Indices: 6262036--6262069 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6262026 GAAATAAACT
* *
6262036 AAAATTAATATTTAAA
1 AAAATTAAAAATTAAA
6262052 AAAATTAAAAATTAAA
1 AAAATTAAAAATTAAA
6262068 AA
1 AA
6262070 TATAAAATGA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTAAAAATTAAA
Found at i:6268688 original size:79 final size:80
Alignment explanation
Indices: 6268605--6268765 Score: 288
Period size: 79 Copynumber: 2.0 Consensus size: 80
6268595 TTATTCGAGT
6268605 ATTATAATCTAAATTTGAATTAAATATCATTATTTGTCAAATATCTGAAAT-AAAAAATATTTTA
1 ATTATAATCTAAATTTGAATTAAATATCATTATTTGTCAAATATCTGAAATAAAAAAATATTTTA
*
6268669 AATTTAACATTTTCA
66 AATTTAACATTTCCA
* *
6268684 ATTATAATTTAAATTTGAATTAAATATCATTATTTTTCAAATATCTGAAATAAAAAAATATTTTA
1 ATTATAATCTAAATTTGAATTAAATATCATTATTTGTCAAATATCTGAAATAAAAAAATATTTTA
6268749 AATTTAACATTTCCA
66 AATTTAACATTTCCA
6268764 AT
1 AT
6268766 CATATGTTGA
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 49 0.63
80 29 0.37
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (80 bp):
ATTATAATCTAAATTTGAATTAAATATCATTATTTGTCAAATATCTGAAATAAAAAAATATTTTA
AATTTAACATTTCCA
Found at i:6269448 original size:20 final size:20
Alignment explanation
Indices: 6269411--6269449 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6269401 TTTCAATATC
*
6269411 AAACACATTCATTTCAAGTT
1 AAACACATTAATTTCAAGTT
6269431 AAACA-ATTAATTTCCAAGT
1 AAACACATTAATTT-CAAGT
6269450 CTTAATTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (20 bp):
AAACACATTAATTTCAAGTT
Found at i:6271917 original size:19 final size:20
Alignment explanation
Indices: 6271881--6271924 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
6271871 TATATATACT
* *
6271881 TTAATTAAATCTTTAATTAC
1 TTAATTAAATCCTTAATTAA
6271901 TTAATTAAA-CCTTAATTAA
1 TTAATTAAATCCTTAATTAA
6271920 TTAAT
1 TTAAT
6271925 CTTACACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAATTAAATCCTTAATTAA
Found at i:6272950 original size:113 final size:112
Alignment explanation
Indices: 6272752--6273229 Score: 535
Period size: 113 Copynumber: 4.3 Consensus size: 112
6272742 GAAAAAAAAA
* ** * * ** * *
6272752 TTTGGTGTTGGCTTTCTAAT-GCAAGTACCACTCTAATAAAAAAAATCAAAAATTTTTGGGTGCT
1 TTTGGTGCTGGCTTTCTAATGGCCGGCACCACTGTAGGAAAAAAATTCAAAATTTTTTGGGTGCT
** * * * *
6272816 GGTCTTCTAATAACTGACACCAGTACAAAAAATATTAGAAAAATTTTT
66 GGTCTTCTAATGGCCGGCACCAGTAC-AAAAATATCAGAAAATTTTTT
*
6272864 TTTGGTGCTGGCTTTCTAATGGCCGGCACCACTGTAGGAAAAAAATTCAAAATTTTTTGGGTACT
1 TTTGGTGCTGGCTTTCTAATGGCCGGCACCACTGTAGGAAAAAAATTCAAAATTTTTTGGGTGCT
* *
6272929 GGTCTTCTAATGGCCGGCACCAGTAAAAAAAATATCAGGGAAAACTTTTT
66 GGTCTTCTAATGGCCGGCACCAGT-ACAAAAATATCA--GAAAATTTTTT
* * *
6272979 TTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGT-TGTAAAAAA-TCAAAATTTTTTGGGTGCT
1 TTTGGTGCTGGCTTTCTAATGGCCGGCACCACTGTAGGAAAAAAATTCAAAATTTTTTGGGTGCT
*
6273042 GGTCTTCTAATGGCAGG----A--ACAAAAATATCAAGAAATATTTTTTT
66 GGTCTTCTAATGGCCGGCACCAGTACAAAAATATC-AGAAA-A-TTTTTT
* * *
6273086 TTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGTAAAAAAAAATTCAAAATTTTCTGGGTG
1 TTTGGTGCTGGCTTTCTAATGGCCGGCACCACTGTAG--GAAAAAAATTCAAAATTTTTTGGGTG
* * *
6273151 TTGGTCTTCTAATGGTCGGCACCAGTACAAAAATATCAG-GAATTTTTT
64 CTGGTCTTCTAATGGCCGGCACCAGTACAAAAATATCAGAAAATTTTTT
* *
6273199 TTTTGTGCTGTCTTTCTAATGGCCGGCACCA
1 TTTGGTGCTGGCTTTCTAATGGCCGGCACCA
6273230 AACCTTATAT
Statistics
Matches: 314, Mismatches: 35, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
105 4 0.01
106 11 0.04
107 41 0.13
109 1 0.00
110 6 0.02
111 32 0.10
112 19 0.06
113 132 0.42
114 9 0.03
115 46 0.15
116 2 0.01
117 11 0.04
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (112 bp):
TTTGGTGCTGGCTTTCTAATGGCCGGCACCACTGTAGGAAAAAAATTCAAAATTTTTTGGGTGCT
GGTCTTCTAATGGCCGGCACCAGTACAAAAATATCAGAAAATTTTTT
Found at i:6273370 original size:27 final size:27
Alignment explanation
Indices: 6273340--6273404 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
6273330 TCATCAAATG
* *
6273340 AGTTTTTTTTAGTAGG-TTGTATAAGTA
1 AGTTTTTTTTAGT-GGATTGCATAAGGA
6273367 AGTTTTTTTGTAGTGGATTGCATAAGGA
1 AGTTTTTTT-TAGTGGATTGCATAAGGA
6273395 AGTTTTTTTT
1 AGTTTTTTTT
6273405 TTTGTAGTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 12 0.35
28 22 0.65
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.52
Consensus pattern (27 bp):
AGTTTTTTTTAGTGGATTGCATAAGGA
Found at i:6281654 original size:13 final size:13
Alignment explanation
Indices: 6281638--6281663 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6281628 TATAAAATTT
6281638 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
6281651 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
6281664 GAAGGCTGAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Done.