Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold71
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: 5741892
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.33
Warning! 121862 characters in sequence are not A, C, G, or T
File 29 of 33
Found at i:4929179 original size:165 final size:163
Alignment explanation
Indices: 4928995--4929292 Score: 447
Period size: 165 Copynumber: 1.8 Consensus size: 163
4928985 ATTTTATTTT
* *
4928995 ATATATTTTATTATATTATAATTATATTTAAAATATTTTATATTTATTTAAAATTTGATATATTA
1 ATATATTTTATTATATTATAATTATATTTAAAATATTTTATATTTATATAAAATTTGATACATTA
* **
4929060 GTAATTTATATTATATAAATTTTATTTTTATATTAATATTTATATTTTAATAATAT-TTTCATAT
66 GTAATATATATTATATAAATTTTAAATTTAT-TT-ATATTTATATTTTAATAATATCTTT-ATAT
4929124 CATATTCATATAATTAAATTTAAAATTTATGTATTC
128 CATATTCATATAATTAAATTTAAAATTTATGTATTC
*
4929160 ATATATTTTATCT-TATTATAATTATATTTAAAATATTTTATATTTATATAAATTTTGATACATT
1 ATATATTTTAT-TATATTATAATTATATTTAAAATATTTTATATTTATATAAAATTTGATACATT
* * * * *
4929224 ATTAATATCTATTATATAAATTTTAAATTTATTTTTATTTATATTTTAATTATATCTTTATATTA
65 AGTAATATATATTATATAAATTTTAAATTTATTTATATTTATATTTTAATAATATCTTTATATCA
4929289 TATT
130 TATT
4929293 TTATAATCAT
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
163 28 0.23
164 5 0.04
165 86 0.72
166 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (163 bp):
ATATATTTTATTATATTATAATTATATTTAAAATATTTTATATTTATATAAAATTTGATACATTA
GTAATATATATTATATAAATTTTAAATTTATTTATATTTATATTTTAATAATATCTTTATATCAT
ATTCATATAATTAAATTTAAAATTTATGTATTC
Found at i:4929261 original size:23 final size:24
Alignment explanation
Indices: 4929228--4929304 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 24
4929218 TACATTATTA
*
4929228 ATATCTATTATATAAATTTTAAATT
1 ATATCT-TTATATATATTTTAAATT
* *
4929253 -TATTTTTATTTATATTTT-AATT
1 ATATCTTTATATATATTTTAAATT
*
4929275 ATATCTTTATATTATATTTTATAATC
1 ATATCTTTATA-TATATTTTA-AATT
4929301 ATAT
1 ATAT
4929305 TCACAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
22 4 0.10
23 19 0.45
24 12 0.29
26 7 0.17
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
ATATCTTTATATATATTTTAAATT
Found at i:4929270 original size:11 final size:11
Alignment explanation
Indices: 4929250--4929296 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
4929240 TAAATTTTAA
4929250 ATTTAT-TTTT
1 ATTTATATTTT
4929260 ATTTATATTTT
1 ATTTATATTTT
*
4929271 AATTATATCTTT
1 ATTTATAT-TTT
4929283 ATATTATATTTT
1 AT-TTATATTTT
4929295 AT
1 AT
4929297 AATCATATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 6 0.19
11 11 0.34
12 9 0.28
13 6 0.19
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTATATTTT
Found at i:4929295 original size:12 final size:12
Alignment explanation
Indices: 4929243--4929297 Score: 62
Period size: 12 Copynumber: 4.7 Consensus size: 12
4929233 TATTATATAA
*
4929243 ATTTTAAATT-T
1 ATTTTATATTAT
4929254 ATTTT-TATTTAT
1 ATTTTATA-TTAT
4929266 ATTTTA-ATTAT
1 ATTTTATATTAT
4929277 ATCTTTATATTAT
1 AT-TTTATATTAT
4929290 ATTTTATA
1 ATTTTATA
4929298 ATCATATTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 1 0.03
11 13 0.34
12 17 0.45
13 7 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTTATATTAT
Found at i:4929304 original size:13 final size:13
Alignment explanation
Indices: 4929243--4929305 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 13
4929233 TATTATATAA
4929243 ATTTTA-AATT-T
1 ATTTTATAATTAT
*
4929254 ATTTT-TATTTAT
1 ATTTTATAATTAT
4929266 A-TTT-TAATTAT
1 ATTTTATAATTAT
4929277 ATCTTTAT-ATTAT
1 AT-TTTATAATTAT
*
4929290 ATTTTATAATCAT
1 ATTTTATAATTAT
4929303 ATT
1 ATT
4929306 CACAAAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
11 18 0.42
12 7 0.16
13 17 0.40
14 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTTATAATTAT
Found at i:4932220 original size:141 final size:141
Alignment explanation
Indices: 4932026--4932320 Score: 482
Period size: 141 Copynumber: 2.1 Consensus size: 141
4932016 ACCGGGTAAA
* * * *
4932026 GTGCCACCACCAGCTGCTGCACCAGGCTCATACATTGGTAAAGCACCTCCTACTCCCTCCAAGGG
1 GTGCCACCACCAGCTGCTGCACCAGGCCCATACATTGGTAAACCACCACCTACTCCCTCCAAAGG
* * * *
4932091 TTCACCACCCCACCCTTCACCACTAGCAAAACCACCAAAATCTTCATCACCTCCATACTCTCCAC
66 ATCACCACCCAACCCTGCACCACCAGCAAAACCACCAAAATCTTCATCACCTCCATACTCTCCAC
*
4932156 CGTCTCATCAC
131 CATCTCATCAC
4932167 GTGCCACCACCAGCTGCTGCACCAGGCCCATACATTGGTAAACCACCACCTACTCCCTCCAAAGG
1 GTGCCACCACCAGCTGCTGCACCAGGCCCATACATTGGTAAACCACCACCTACTCCCTCCAAAGG
* *
4932232 ATCACCACCTAACCCTGCACCACCAGGAAAACCACCAAAATCTTCATCACCTCCATACTCTCCAC
66 ATCACCACCCAACCCTGCACCACCAGCAAAACCACCAAAATCTTCATCACCTCCATACTCTCCAC
*
4932297 CATCTCATTAC
131 CATCTCATCAC
4932308 GTGCCACCACCAG
1 GTGCCACCACCAG
4932321 AATCAACACC
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 142 1.00
ACGTcount: A:0.28, C:0.43, G:0.11, T:0.18
Consensus pattern (141 bp):
GTGCCACCACCAGCTGCTGCACCAGGCCCATACATTGGTAAACCACCACCTACTCCCTCCAAAGG
ATCACCACCCAACCCTGCACCACCAGCAAAACCACCAAAATCTTCATCACCTCCATACTCTCCAC
CATCTCATCAC
Found at i:4932342 original size:30 final size:30
Alignment explanation
Indices: 4932308--4932378 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
4932298 ATCTCATTAC
*
4932308 GTGCCACCACCAGAATCAACACCAGGCAAA
1 GTGCCACCACCAAAATCAACACCAGGCAAA
* *
4932338 GTGCCACCACCAAAATCACCACCAGGTAAA
1 GTGCCACCACCAAAATCAACACCAGGCAAA
4932368 GTGCCACCACC
1 GTGCCACCACC
4932379 GGCTGCTGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.37, C:0.39, G:0.15, T:0.08
Consensus pattern (30 bp):
GTGCCACCACCAAAATCAACACCAGGCAAA
Found at i:4932515 original size:204 final size:201
Alignment explanation
Indices: 4932167--4932534 Score: 574
Period size: 204 Copynumber: 1.8 Consensus size: 201
4932157 GTCTCATCAC
4932167 GTGCCACCACCAGCTGCTGCACCAGGCCCATACATTGGTAAACCACCACCTACTCCCTCCAAAGG
1 GTGCCACCACCAGCTGCTGCACCAGGCCCATACATTGGTAAACCACCACCTACTCCCTCCAAAGG
*
4932232 ATCACCACCTAACCCTGCACCACCAGGAAAACCACCAAAATCTTCATCACCTCCATACTCTCCAC
66 ATCACCACCTAACCCTGCACCACCAGCAAAACCACCAAAATCTTCATCACCTCCATACTCTCCAC
* * *
4932297 CATCTCATTACGTGCCACCACCAGAATCAACACCAGGCAAAGTGCCACCACCAAAATCACCACCA
131 CATCTCAATACGTGCCACCACCAAAACCAACACCAGGCAAAGTGCCACCACCAAAATCACCACCA
4932362 GGTAAA
196 GGTAAA
* * * * *
4932368 GTGCCACCACCGGCTGCTGCACCAGGTCCATACATTGGTAGAGCAGCACCTCCTACTTCCTCCAA
1 GTGCCACCACCAGCTGCTGCACCAGGCCCATACATTGGTA-A--ACCACCACCTACTCCCTCCAA
* * * * * *
4932433 GGGATCACCGCCTCACTCTGCGCCACCAGCAAAACCACCAAAATCTTCGTCACCTCCATACTCTC
63 AGGATCACCACCTAACCCTGCACCACCAGCAAAACCACCAAAATCTTCATCACCTCCATACTCTC
4932498 CACCATCTCAATACGTGCCACCACCAAAACCAACACC
128 CACCATCTCAATACGTGCCACCACCAAAACCAACACC
4932535 TGGTAGCTTA
Statistics
Matches: 149, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
201 38 0.26
202 1 0.01
204 110 0.74
ACGTcount: A:0.30, C:0.41, G:0.12, T:0.16
Consensus pattern (201 bp):
GTGCCACCACCAGCTGCTGCACCAGGCCCATACATTGGTAAACCACCACCTACTCCCTCCAAAGG
ATCACCACCTAACCCTGCACCACCAGCAAAACCACCAAAATCTTCATCACCTCCATACTCTCCAC
CATCTCAATACGTGCCACCACCAAAACCAACACCAGGCAAAGTGCCACCACCAAAATCACCACCA
GGTAAA
Found at i:4934877 original size:2 final size:2
Alignment explanation
Indices: 4934870--4934902 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4934860 TTGTTTCATA
*
4934870 TG TG TG TG TC TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4934903 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4935935 original size:18 final size:18
Alignment explanation
Indices: 4935908--4935942 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4935898 CTCTGGATGA
4935908 ATATTAAATATAAATATG
1 ATATTAAATATAAATATG
*
4935926 ATATTTAATATAAATAT
1 ATATTAAATATAAATAT
4935943 TTTAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATTAAATATAAATATG
Found at i:4942670 original size:2 final size:2
Alignment explanation
Indices: 4942657--4942690 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4942647 TTCTCAGCCG
* *
4942657 TC TC TT TC TC TC TC TC TT TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4942691 AAATTTGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (2 bp):
TC
Found at i:4942674 original size:12 final size:12
Alignment explanation
Indices: 4942657--4942690 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4942647 TTCTCAGCCG
4942657 TCTCTTTCTCTC
1 TCTCTTTCTCTC
4942669 TCTCTTTCTCTC
1 TCTCTTTCTCTC
*
4942681 TCTCTCTCTC
1 TCTCTTTCTC
4942691 AAATTTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (12 bp):
TCTCTTTCTCTC
Found at i:4948481 original size:24 final size:24
Alignment explanation
Indices: 4948453--4948498 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
4948443 AAATAATTCA
4948453 TATTTT-ATTAATAAATAT-TATTTT
1 TATTTTGA-TAAT-AATATGTATTTT
4948477 TATTTTGATAATAATATGTATT
1 TATTTTGATAATAATATGTATT
4948499 GATTTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 14 0.70
25 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TATTTTGATAATAATATGTATTTT
Found at i:4948653 original size:16 final size:16
Alignment explanation
Indices: 4948628--4948674 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
4948618 TTATACGTAA
4948628 ATAAATTTTAAAT-TT
1 ATAAATTTTAAATATT
4948643 ATAAATATTT-AATATT
1 ATAAAT-TTTAAATATT
*
4948659 AAAAATTTTTAAATAT
1 ATAAA-TTTTAAATAT
4948675 CATGTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 9 0.33
16 12 0.44
17 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAAATTTTAAATATT
Found at i:4949258 original size:41 final size:40
Alignment explanation
Indices: 4949212--4949301 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 40
4949202 AGATTAATTT
*
4949212 TTTTCATAACTATTCAATTTTATCAATTTTTATAATTAAAA
1 TTTTCAAAACTATTCAATTTTATCAATTTTTATAATT-AAA
4949253 TTTTCAAAACTATTCAATTTTATCAATTTTTATAATTAAA
1 TTTTCAAAACTATTCAATTTTATCAATTTTTATAATTAAA
4949293 TTTTCAAAA
1 TTTTCAAAA
4949302 AATTAATCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 12 0.25
41 36 0.75
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (40 bp):
TTTTCAAAACTATTCAATTTTATCAATTTTTATAATTAAA
Found at i:4949459 original size:11 final size:11
Alignment explanation
Indices: 4949443--4949477 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
4949433 TTTATTAGAA
4949443 TAATTTAATTT
1 TAATTTAATTT
4949454 TAATTTAATTTT
1 TAATTTAA-TTT
*
4949466 TATTTTAATTT
1 TAATTTAATTT
4949477 T
1 T
4949478 GAAATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TAATTTAATTT
Found at i:4949472 original size:12 final size:12
Alignment explanation
Indices: 4949443--4949477 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4949433 TTTATTAGAA
4949443 TAATTTAA-TTT
1 TAATTTAATTTT
4949454 TAATTTAATTTT
1 TAATTTAATTTT
*
4949466 TATTTTAATTTT
1 TAATTTAATTTT
4949478 GAAATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TAATTTAATTTT
Found at i:4950105 original size:13 final size:14
Alignment explanation
Indices: 4950084--4950113 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4950074 TAATTTTATA
4950084 TTTATTTTAAAATT
1 TTTATTTTAAAATT
4950098 TTTA-TTTAAAATT
1 TTTATTTTAAAATT
4950111 TTT
1 TTT
4950114 CTGACAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTTTAAAATT
Found at i:4952715 original size:2 final size:2
Alignment explanation
Indices: 4952708--4952742 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4952698 TTTTGCTAAT
4952708 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4952743 TAAGGTGTTG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4965798 original size:23 final size:23
Alignment explanation
Indices: 4965771--4965823 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4965761 TTTATATAAA
*
4965771 ATTTTAAATTATTAATA-ATTTAT
1 ATTTTAAA-TATTAACACATTTAT
*
4965794 ATTTTATATATTAACACATTTAT
1 ATTTTAAATATTAACACATTTAT
*
4965817 ACTTTAA
1 ATTTTAA
4965824 TTTTTTTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTAAATATTAACACATTTAT
Found at i:4965894 original size:5 final size:5
Alignment explanation
Indices: 4965885--4965924 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
4965875 TAACTAATTG
* *
4965885 ATTAG ATTAG ATTAA ATTAA ATTAA ATTAA ATT-A ATTAA A
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA A
4965925 CAAAAAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:4967258 original size:2 final size:2
Alignment explanation
Indices: 4967251--4967285 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4967241 CCTAATTATA
4967251 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4967286 CCATTTTTTG
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4971193 original size:23 final size:23
Alignment explanation
Indices: 4971164--4971207 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4971154 TTAATGGGTC
4971164 AGAGAGAAAGAGAGAAAAGTGAG
1 AGAGAGAAAGAGAGAAAAGTGAG
* *
4971187 AGAGAGAGAGAGAGAACAGTG
1 AGAGAGAAAGAGAGAAAAGTG
4971208 GACACTGCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.41, T:0.05
Consensus pattern (23 bp):
AGAGAGAAAGAGAGAAAAGTGAG
Found at i:4971881 original size:11 final size:12
Alignment explanation
Indices: 4971865--4971916 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 12
4971855 ATTAATATAA
4971865 TTATATTAT-TT
1 TTATATTATATT
4971876 TTATATTATAATAT
1 TTATATTAT-AT-T
*
4971890 TTTTATTATATT
1 TTATATTATATT
*
4971902 TTA-ATTATTTT
1 TTATATTATATT
4971913 TTAT
1 TTAT
4971917 TTTGTATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 19 0.56
12 3 0.09
13 3 0.09
14 9 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATATTATATT
Found at i:4971899 original size:14 final size:16
Alignment explanation
Indices: 4971864--4971895 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4971854 AATTAATATA
*
4971864 ATTATATTATTTTTAT
1 ATTATAATATTTTTAT
4971880 ATTATAATATTTTTAT
1 ATTATAATATTTTTAT
4971896 TATATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATAATATTTTTAT
Found at i:4971919 original size:16 final size:17
Alignment explanation
Indices: 4971869--4971919 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
4971859 ATATAATTAT
*
4971869 ATTATTTTTATATTATA
1 ATTATTTTTATATTTTA
*
4971886 ATATTTTTATTATATTTTA
1 AT-TATTT-TTATATTTTA
4971905 ATTATTTTT-TATTTT
1 ATTATTTTTATATTTT
4971920 GTATATATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.21
17 4 0.14
18 8 0.28
19 11 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTATTTTTATATTTTA
Found at i:4972811 original size:13 final size:13
Alignment explanation
Indices: 4972793--4972833 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
4972783 TAATAATTTA
4972793 TATATATTATATT
1 TATATATTATATT
4972806 TATATA-T-T-TT
1 TATATATTATATT
*
4972816 TATATATTATAAT
1 TATATATTATATT
4972829 TATAT
1 TATAT
4972834 TTAAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 2 0.08
13 12 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATATATTATATT
Found at i:4972932 original size:20 final size:20
Alignment explanation
Indices: 4972909--4972968 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
4972899 TGAGTTTATT
4972909 AATATTTATTTTATTTTTTG
1 AATATTTATTTTATTTTTTG
*
4972929 AATAATGTTATTTTTATTTTTTT
1 AAT-AT-TTA-TTTTATTTTTTG
4972952 AATATTATATTTATATT
1 AATATT-TATTT-TATT
4972969 ATATAATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 3 0.09
21 6 0.18
22 11 0.32
23 14 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
AATATTTATTTTATTTTTTG
Found at i:4972961 original size:5 final size:5
Alignment explanation
Indices: 4972953--4972990 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
4972943 TATTTTTTTA
4972953 ATATT ATATTT ATATT ATA-T A-ATT ATATT ATATT ATAT
1 ATATT ATA-TT ATATT ATATT ATATT ATATT ATATT ATAT
4972991 ATAAATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 1 0.03
4 4 0.13
5 20 0.67
6 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:4972962 original size:22 final size:21
Alignment explanation
Indices: 4972907--4972968 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
4972897 TATGAGTTTA
4972907 TTAATATTTA-TTTTATTTTT
1 TTAATATTTATTTTTATTTTT
*
4972927 TGAATAATGTTATTTTTATTTTT
1 TTAAT-AT-TTATTTTTATTTTT
*
4972950 TTAATATTATATTTATATT
1 TTAATATT-TATTTTTATT
4972969 ATATAATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 4 0.11
21 3 0.09
22 14 0.40
23 14 0.40
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTAATATTTATTTTTATTTTT
Found at i:4972978 original size:13 final size:11
Alignment explanation
Indices: 4972953--4972992 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 11
4972943 TATTTTTTTA
4972953 ATATTATATTT
1 ATATTATATTT
4972964 ATATTATATAATT
1 ATATTATAT--TT
4972977 ATATTATATTAT
1 ATATTATATT-T
4972989 ATAT
1 ATAT
4972993 AAATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.38
12 5 0.19
13 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATTATATTT
Found at i:4972985 original size:18 final size:19
Alignment explanation
Indices: 4972955--4972991 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
4972945 TTTTTTTAAT
4972955 ATTATATTTATATTATATA
1 ATTATATTTATATTATATA
4972974 ATTATA-TTATATTATATA
1 ATTATATTTATATTATATA
4972992 TAAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATATTTATATTATATA
Found at i:4974099 original size:17 final size:16
Alignment explanation
Indices: 4974077--4974137 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
4974067 TTTATATATT
4974077 TATTTTTTAAATCTTTA
1 TATTTTTTAAAT-TTTA
*
4974094 TA-TTTTTATATTTATA
1 TATTTTTTAAATTT-TA
* *
4974110 TATATTTTATATTTTTA
1 TATTTTTTA-AATTTTA
4974127 TATTTTTTAAA
1 TATTTTTTAAA
4974138 CAATATATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
15 2 0.06
16 13 0.37
17 17 0.49
18 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTTTAAATTTTA
Found at i:4974132 original size:8 final size:8
Alignment explanation
Indices: 4974054--4974133 Score: 90
Period size: 8 Copynumber: 10.0 Consensus size: 8
4974044 TTTATATAAA
*
4974054 ATATATTT
1 ATATTTTT
*
4974062 ATATATTT
1 ATATTTTT
*
4974070 ATATATTT
1 ATATTTTT
4974078 AT-TTTTT
1 ATATTTTT
* *
4974085 AAATCTTT
1 ATATTTTT
4974093 ATATTTTT
1 ATATTTTT
*
4974101 ATATTTAT
1 ATATTTTT
4974109 ATATATTTT
1 ATAT-TTTT
4974118 ATATTTTT
1 ATATTTTT
4974126 ATATTTTT
1 ATATTTTT
4974134 TAAACAATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
7 5 0.08
8 51 0.81
9 7 0.11
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (8 bp):
ATATTTTT
Found at i:4974144 original size:33 final size:36
Alignment explanation
Indices: 4974107--4974174 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
4974097 TTTTATATTT
*
4974107 ATATATATT-TTATA-TTTTTA-TATTTTTTAAACA
1 ATATATATTATCATATTTTTTATTATTTTTTAAACA
4974140 ATATATATTATCATATTTTTTATTTATTTTTTAAA
1 ATATATATTATCATATTTTTTA-TTATTTTTTAAA
4974175 ATAACTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 9 0.30
34 4 0.13
35 6 0.20
37 11 0.37
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (36 bp):
ATATATATTATCATATTTTTTATTATTTTTTAAACA
Found at i:4980236 original size:16 final size:17
Alignment explanation
Indices: 4980215--4980248 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4980205 AAAATTTTTA
4980215 AAAATTAATG-ATAATT
1 AAAATTAATGAATAATT
*
4980231 AAAATTATTGAATAATT
1 AAAATTAATGAATAATT
4980248 A
1 A
4980249 TTATTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAAATTAATGAATAATT
Found at i:4982329 original size:2 final size:2
Alignment explanation
Indices: 4982322--4982351 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4982312 TCAATCTTAG
4982322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4982352 GAACATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4984736 original size:2 final size:2
Alignment explanation
Indices: 4984723--4984758 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4984713 AATTAATGCA
*
4984723 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4984759 AAGGTGACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4987042 original size:6 final size:6
Alignment explanation
Indices: 4987033--4987057 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4987023 AATATTATCA
4987033 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
4987058 TTTAATAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:4987583 original size:2 final size:2
Alignment explanation
Indices: 4987576--4987616 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4987566 GTTAGAGCGC
4987576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4987617 GGATAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4989950 original size:4 final size:4
Alignment explanation
Indices: 4989943--4989969 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4989933 AAATGGTATA
4989943 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
4989970 TCGAGTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:4990876 original size:2 final size:2
Alignment explanation
Indices: 4990869--4990899 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4990859 ATATGTAGGC
4990869 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 A
4990900 GCATTACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4992425 original size:29 final size:28
Alignment explanation
Indices: 4992337--4992429 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 28
4992327 AAATTATATT
*
4992337 ATATAAT-TTTT-AATATTTTATTTATTC
1 ATATAATATTTTAAATATTTT-TTAATTC
* * *
4992364 AAATAATA-TTTATAATATTTTTATATTTA
1 ATATAATATTTTA-AATATTTTT-TAATTC
*
4992393 ATATTATATTTTAAATATTTTTTAATATC
1 ATATAATATTTTAAATATTTTTTAAT-TC
4992422 ATATAATA
1 ATATAATA
4992430 ATATCACATC
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
27 9 0.18
28 4 0.08
29 34 0.67
30 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
ATATAATATTTTAAATATTTTTTAATTC
Found at i:4993310 original size:23 final size:22
Alignment explanation
Indices: 4993284--4993343 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 22
4993274 TATTTATTTT
4993284 TTATAATTAAATTTAAATAAAAA
1 TTATAATTAAA-TTAAATAAAAA
* *
4993307 TTATTATTTAATTAAAT-AAAA
1 TTATAATTAAATTAAATAAAAA
4993328 --ATAATTAAA-TAAATAA
1 TTATAATTAAATTAAATAA
4993344 TATTAAACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 5 0.16
19 8 0.25
21 4 0.12
22 6 0.19
23 9 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTATAATTAAATTAAATAAAAA
Found at i:4993334 original size:14 final size:15
Alignment explanation
Indices: 4993315--4993350 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
4993305 AATTATTATT
4993315 TAATTAAATAAA-AA
1 TAATTAAATAAATAA
4993329 TAATTAAATAAATAA
1 TAATTAAATAAATAA
4993344 T-ATTAAA
1 TAATTAAA
4993351 CTAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATTAAATAAATAA
Found at i:4993335 original size:18 final size:18
Alignment explanation
Indices: 4993286--4993343 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 18
4993276 TTTATTTTTT
4993286 ATAATTAAATTTAAATAAAA
1 ATAATT-AA-TTAAATAAAA
4993306 ATTATTATTTAATTAAATAAAA
1 A-TA--A-TTAATTAAATAAAA
*
4993328 ATAATTAAATAAATAA
1 ATAATTAATTAAATAA
4993344 TATTAAACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
18 11 0.33
19 1 0.03
20 1 0.03
21 4 0.12
22 11 0.33
23 3 0.09
24 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTAATTAAATAAAA
Found at i:4995765 original size:10 final size:10
Alignment explanation
Indices: 4995750--4995779 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4995740 ATTATCACAT
4995750 TTTTAATAAA
1 TTTTAATAAA
4995760 TTTTAATAAA
1 TTTTAATAAA
*
4995770 TTTCAATAAA
1 TTTTAATAAA
4995780 ATTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:4995919 original size:21 final size:21
Alignment explanation
Indices: 4995892--4995951 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 21
4995882 TTAAAATTGT
4995892 ATTTTTATATTAATATATAAAA
1 ATTTTTATATTAA-ATATAAAA
4995914 A-TTTTATAATTAAATA-AAAA
1 ATTTTTAT-ATTAAATATAAAA
4995934 ATTTTTACTATTAAATAT
1 ATTTTTA-TATTAAATAT
4995952 CGATTTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 5 0.15
21 22 0.65
22 7 0.21
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTTATATTAAATATAAAA
Found at i:4996947 original size:2 final size:2
Alignment explanation
Indices: 4996940--4996985 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
4996930 CTAAAGTACA
4996940 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4996982 AG AG
1 AG AG
4996986 CTTGTGGTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4997234 original size:2 final size:2
Alignment explanation
Indices: 4997229--4997254 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4997219 GATTTTTTTC
4997229 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
4997255 GACGACGATG
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:5011995 original size:53 final size:50
Alignment explanation
Indices: 5011912--5012020 Score: 157
Period size: 53 Copynumber: 2.1 Consensus size: 50
5011902 AGATTTATAT
5011912 AATATAATATATTTTATAAATTATCATTTTTAATAAAGAAAATAAATTAATTAATG
1 AATATAATATA--TTATAAATTATCATTTTTAATAAAG-AAAT-AA-TAA-TAATG
5011968 AATATAATATA-TATAAATTATCATTTTTAATAAAGAAATAATAATAATG
1 AATATAATATATTATAAATTATCATTTTTAATAAAGAAATAATAATAATG
5012017 AATA
1 AATA
5012021 AAAATTTTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
49 9 0.17
50 3 0.06
51 2 0.04
52 4 0.08
53 24 0.45
56 11 0.21
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (50 bp):
AATATAATATATTATAAATTATCATTTTTAATAAAGAAATAATAATAATG
Found at i:5013126 original size:33 final size:33
Alignment explanation
Indices: 5013087--5013151 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
5013077 TATCTTTTAT
5013087 CATATTAAATATTATATTATATTTTAATTATTA
1 CATATTAAATATTATATTATATTTTAATTATTA
5013120 CATATTAAATATTATATTATATTTTAATTATT
1 CATATTAAATATTATATTATATTTTAATTATT
5013152 TTTTTCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (33 bp):
CATATTAAATATTATATTATATTTTAATTATTA
Found at i:5018487 original size:26 final size:27
Alignment explanation
Indices: 5018457--5018507 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
5018447 AATAAATTCA
*
5018457 TATTATTTTTATAATAT-ATTATATTT
1 TATTATTTTCATAATATAATTATATTT
*
5018483 TATTATTTTCATTATATAATTATAT
1 TATTATTTTCATAATATAATTATAT
5018508 ACGTTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (27 bp):
TATTATTTTCATAATATAATTATATTT
Found at i:5019344 original size:7 final size:7
Alignment explanation
Indices: 5019332--5019367 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
5019322 AATTTATTAA
5019332 TATAATT
1 TATAATT
5019339 TATAATT
1 TATAATT
5019346 TATAATT
1 TATAATT
5019353 TAT-ATT
1 TATAATT
5019359 T-TAATT
1 TATAATT
5019365 TAT
1 TAT
5019368 TTTTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 8 0.30
7 18 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TATAATT
Found at i:5019344 original size:12 final size:12
Alignment explanation
Indices: 5019312--5019367 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
5019302 GTTTTTTATT
*
5019312 ATTTTTAAT-TA
1 ATTTATAATATA
5019323 ATTTATTAATATA
1 ATTTA-TAATATA
5019336 ATTTATAATTTATA
1 ATTTATAA--TATA
* *
5019350 ATTTATATTTTA
1 ATTTATAATATA
5019362 ATTTAT
1 ATTTAT
5019368 TTTTTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 4 0.11
12 16 0.42
13 7 0.18
14 11 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTATAATATA
Found at i:5019351 original size:14 final size:13
Alignment explanation
Indices: 5019332--5019410 Score: 61
Period size: 14 Copynumber: 5.7 Consensus size: 13
5019322 AATTTATTAA
5019332 TATAATTTATAATT
1 TATAATTTAT-ATT
5019346 TATAATTTATATT
1 TATAATTTATATT
*
5019359 T-TAATTTATTTT
1 TATAATTTATATT
* *
5019371 TTTAATTAAATATT
1 TATAATT-TATATT
*
5019385 TAATTGAATTGATATT
1 T-A-T-AATTTATATT
5019401 ATATAATTTA
1 -TATAATTTA
5019411 ATATATTAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
12 11 0.21
13 9 0.17
14 20 0.38
15 1 0.02
16 7 0.13
17 5 0.09
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
TATAATTTATATT
Found at i:5019363 original size:19 final size:18
Alignment explanation
Indices: 5019320--5019367 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
5019310 TTATTTTTAA
5019320 TTAATTTATTAATATAATT
1 TTAATTTA-TAATATAATT
*
5019339 TATAATTTATAATTTATATT
1 T-TAATTTATAATATA-ATT
5019359 TTAATTTAT
1 TTAATTTAT
5019368 TTTTTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAATTTATAATATAATT
Found at i:5019388 original size:56 final size:58
Alignment explanation
Indices: 5019306--5019422 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 58
5019296 AAGATGGTTT
* * *
5019306 TTTATTATTTTTAATTAATTTATTAATAT-AATTTATAATT-TATAATTT-ATATTTTAA
1 TTTATTATTTTTAATTAATATATTAAT-TGAATTGAT-ATTATATAATTTAATATATTAA
5019363 TTTATT-TTTTTAATTAA-ATATTTAATTGAATTGATATTATATAATTTAATATATTAA
1 TTTATTATTTTTAATTAATATA-TTAATTGAATTGATATTATATAATTTAATATATTAA
5019420 TTT
1 TTT
5019423 TATAAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
55 6 0.11
56 30 0.57
57 17 0.32
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (58 bp):
TTTATTATTTTTAATTAATATATTAATTGAATTGATATTATATAATTTAATATATTAA
Found at i:5019849 original size:13 final size:14
Alignment explanation
Indices: 5019831--5019871 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
5019821 TTTAATAATT
5019831 TTATATAT-TTATA
1 TTATATATATTATA
5019844 TTATAT-TATTATA
1 TTATATATATTATA
*
5019857 TTAT-TATATAATA
1 TTATATATATTATA
5019870 TT
1 TT
5019872 TAAAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATATATATTATA
Found at i:5019852 original size:18 final size:17
Alignment explanation
Indices: 5019805--5019873 Score: 51
Period size: 16 Copynumber: 4.2 Consensus size: 17
5019795 ATTAAATTAT
*
5019805 TTTATATTATATAAAT-
1 TTTATATTATATATATA
5019821 TTTAATAATT-T-TATATA
1 TTT-AT-ATTATATATATA
5019838 TTTATATTATAT-TAT-
1 TTTATATTATATATATA
*
5019853 TATATTATTATATA-ATA
1 TTTA-TATTATATATATA
5019870 TTTA
1 TTTA
5019874 AAATTATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
15 6 0.14
16 23 0.55
17 10 0.24
18 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATATTATATATATA
Found at i:5019859 original size:8 final size:8
Alignment explanation
Indices: 5019802--5019865 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
5019792 TACATTAAAT
5019802 TATT-TTA
1 TATTATTA
5019809 TATTATATA
1 TATTAT-TA
*
5019818 AATT-TTAA
1 TATTATT-A
5019826 TAATT-TTA
1 T-ATTATTA
5019834 TA-TATT-
1 TATTATTA
5019840 TA-TATTA
1 TATTATTA
5019847 TATTATTA
1 TATTATTA
5019855 TATTATTA
1 TATTATTA
5019863 TAT
1 TAT
5019866 AATATTTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
6 7 0.15
7 10 0.21
8 21 0.44
9 10 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATTA
Found at i:5020393 original size:13 final size:13
Alignment explanation
Indices: 5020375--5020399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5020365 TATTATAAAA
5020375 AAAAATTTAAATT
1 AAAAATTTAAATT
5020388 AAAAATTTAAAT
1 AAAAATTTAAAT
5020400 ACATTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATTTAAATT
Found at i:5020700 original size:6 final size:6
Alignment explanation
Indices: 5020689--5020734 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
5020679 ATTAAATAAT
5020689 TATTTA TATTTA TA-TTA TATTTA TATTTA -ATTATTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TA-T-TTA TATTTA TATT
5020735 CATACTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 6 0.17
6 25 0.69
7 4 0.11
8 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTTA
Found at i:5020708 original size:11 final size:11
Alignment explanation
Indices: 5020688--5020734 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
5020678 AATTAAATAA
5020688 TTAT-TTATAT
1 TTATATTATAT
5020698 TTATATTATAT
1 TTATATTATAT
5020709 TTATATT-TA-
1 TTATATTATAT
*
5020718 AT-TATTATAT
1 TTATATTATAT
5020728 TTATATT
1 TTATATT
5020735 CATACTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 4 0.13
9 3 0.10
10 7 0.23
11 17 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATATTATAT
Found at i:5020725 original size:19 final size:17
Alignment explanation
Indices: 5020689--5020734 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 17
5020679 ATTAAATAAT
5020689 TATTTATATTTATATTA
1 TATTTATATTTATATTA
5020706 TATTTATATTTAATTATTA
1 TATTTATATTT-A-TATTA
5020725 TATTTATATT
1 TATTTATATT
5020735 CATACTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 11 0.41
18 1 0.04
19 15 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTATATTTATATTA
Found at i:5020743 original size:24 final size:24
Alignment explanation
Indices: 5020698--5020746 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
5020688 TTATTTATAT
* *
5020698 TTATATTATATTTATATTTAATTA
1 TTATATTATATTCATATCTAATTA
5020722 TTATATTTATATTCATA-CTAATTA
1 TTATA-TTATATTCATATCTAATTA
5020746 T
1 T
5020747 ATAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATATTATATTCATATCTAATTA
Found at i:5020747 original size:21 final size:19
Alignment explanation
Indices: 5020689--5020748 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
5020679 ATTAAATAAT
5020689 TATTTATATTT-AT-ATTA
1 TATTTATATTTAATAATTA
*
5020706 TATTTATATTTAATTATTA
1 TATTTATATTTAATAATTA
*
5020725 TATTTATATTCATACTAATTA
1 TATTTATATT--TAATAATTA
5020746 TAT
1 TAT
5020749 AAAAAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.30
18 2 0.05
19 14 0.38
21 10 0.27
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTATATTTAATAATTA
Found at i:5020914 original size:23 final size:25
Alignment explanation
Indices: 5020866--5020914 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
5020856 AAATAATATT
*
5020866 AATATTTATTATTAAATTTAAATAAA
1 AATATTTATTATT-AATATAAATAAA
5020892 AATATTT-TTATT-ATATAAATAAA
1 AATATTTATTATTAATATAAATAAA
5020915 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
25 5 0.23
26 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATTTATTATTAATATAAATAAA
Found at i:5020961 original size:27 final size:27
Alignment explanation
Indices: 5020878--5020961 Score: 64
Period size: 27 Copynumber: 3.0 Consensus size: 27
5020868 TATTTATTAT
* * *
5020878 TAAATTTAAATAAAAATATTTTTATTATA
1 TAAATTTAAATTAAAA-ATTTAT-TTAAA
* * *
5020907 TAAA--TAAATTTTAAAAATTAAATCAAA
1 TAAATTTAAA--TTAAAAATTTATTTAAA
5020934 TAAATTTAAATTAAAAATTTATTTAAA
1 TAAATTTAAATTAAAAATTTATTTAAA
5020961 T
1 T
5020962 TTAATCAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
27 26 0.62
28 3 0.07
29 13 0.31
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
TAAATTTAAATTAAAAATTTATTTAAA
Found at i:5021506 original size:21 final size:19
Alignment explanation
Indices: 5021482--5021525 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
5021472 ATTATTTTTT
*
5021482 AAAATTTAATAATTTAAATAA
1 AAAATATAAT-ATTTAAA-AA
*
5021503 AAAATATAATCTTTAAAAA
1 AAAATATAATATTTAAAAA
5021522 AAAA
1 AAAA
5021526 GTTTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 6 0.29
21 9 0.43
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATATAATATTTAAAAA
Found at i:5022166 original size:23 final size:23
Alignment explanation
Indices: 5022140--5022218 Score: 63
Period size: 25 Copynumber: 3.3 Consensus size: 23
5022130 AAAGTTATTT
5022140 TATTTTTATTATATTTAAATAAA
1 TATTTTTATTATATTTAAATAAA
* *
5022163 TATTTATTTTTA-ATTTATATTTAAA
1 TATTT-TTATTATATTTA-A-ATAAA
*
5022188 TATATTTTATTTTATTTTAAA-AAA
1 TAT-TTTTATTATA-TTTAAATAAA
5022212 TTATTTT
1 -TATTTT
5022219 AAGTTAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
23 10 0.23
24 12 0.27
25 14 0.32
26 4 0.09
27 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTTTATTATATTTAAATAAA
Found at i:5022188 original size:29 final size:26
Alignment explanation
Indices: 5022136--5022200 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 26
5022126 AAGTAAAGTT
5022136 ATTTTATTTTTATTATATTTAAATAA
1 ATTTTATTTTTATTATATTTAAATAA
*
5022162 ATATTTATTTTTAATTTATATTTAAATAT
1 AT-TTTATTTTT-A-TTATATTTAAATAA
5022191 ATTTTATTTT
1 ATTTTATTTT
5022201 ATTTTAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
26 2 0.06
27 9 0.26
28 9 0.26
29 15 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTTATTTTTATTATATTTAAATAA
Found at i:5022233 original size:18 final size:18
Alignment explanation
Indices: 5022193--5022235 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
5022183 TTAAATATAT
**
5022193 TTTATTTTATTTTAAAAA
1 TTTATTTTAAGTTAAAAA
* *
5022211 ATTATTTTAAGTTAAATA
1 TTTATTTTAAGTTAAAAA
5022229 TTTATTT
1 TTTATTT
5022236 AATATAATTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTATTTTAAGTTAAAAA
Found at i:5022817 original size:5 final size:6
Alignment explanation
Indices: 5022803--5022832 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
5022793 AAAAATAATC
5022803 AAATTT AAA-TT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT AAATTT A
5022833 TTATTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
AAATTT
Found at i:5022819 original size:11 final size:12
Alignment explanation
Indices: 5022803--5022832 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
5022793 AAAAATAATC
5022803 AAATTTAAA-TT
1 AAATTTAAATTT
5022814 AAATTTAAATTT
1 AAATTTAAATTT
5022826 AAATTTA
1 AAATTTA
5022833 TTATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATTTAAATTT
Found at i:5023059 original size:32 final size:32
Alignment explanation
Indices: 5023001--5023066 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
5022991 ATTATAATTA
* **
5023001 AATTTAAATAAATTTTTATTTATTTAAATAAT
1 AATTTAAATAAAATTAAATTTATTTAAATAAT
*
5023033 AATTTAAATAAAATTAAA-TTATTTTAAATTAT
1 AATTTAAATAAAATTAAATTTA-TTTAAATAAT
5023065 AA
1 AA
5023067 AATTATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.10
32 26 0.90
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTTAAATAAAATTAAATTTATTTAAATAAT
Found at i:5023076 original size:21 final size:21
Alignment explanation
Indices: 5023040--5023082 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
5023030 AATAATTTAA
5023040 ATAAAATTAAATTATTTTAAATT
1 ATAAAATT-AATTA-TTTAAATT
5023063 ATAAAATT-ATTATTTAAATT
1 ATAAAATTAATTATTTAAATT
5023083 TAATTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
23 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATTAATTATTTAAATT
Found at i:5023116 original size:19 final size:20
Alignment explanation
Indices: 5023077--5023119 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
5023067 AATTATTATT
*
5023077 TAAATTTAATTTAATACAAA
1 TAAATTTAATTAAATACAAA
*
5023097 TAAATTTTATTAAATA-AAA
1 TAAATTTAATTAAATACAAA
5023116 TAAA
1 TAAA
5023120 ATATTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAATTTAATTAAATACAAA
Found at i:5023121 original size:20 final size:18
Alignment explanation
Indices: 5023077--5023135 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 18
5023067 AATTATTATT
*
5023077 TAAATTTAATTTAATACAAA
1 TAAATTTTA-TTAATA-AAA
5023097 TAAATTTTATTAAATAAAA
1 TAAATTTTATT-AATAAAA
*
5023116 TAAAATATTTAATAATAAAA
1 T-AAAT-TTTATTAATAAAA
5023136 AGATCTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 6 0.18
20 23 0.68
21 5 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATTTTATTAATAAAA
Found at i:5023380 original size:2 final size:2
Alignment explanation
Indices: 5023373--5023398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5023363 TTTAAGTCCT
5023373 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
5023399 AATAACGCCG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:5023821 original size:22 final size:23
Alignment explanation
Indices: 5023793--5023839 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
5023783 AAAATATTCG
*
5023793 TTTATTA-ATATATTTAAT-TTAA
1 TTTATTAGAT-TATATAATATTAA
5023815 TTTATTAGATTATATAATATTAA
1 TTTATTAGATTATATAATATTAA
5023838 TT
1 TT
5023840 ACGTGATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATTAGATTATATAATATTAA
Found at i:5025211 original size:34 final size:33
Alignment explanation
Indices: 5025165--5025246 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 33
5025155 TAATATTTTT
*
5025165 TAAATTAATATATTAAAAATAATAAATAA-AAGTA
1 TAAATTATTATATTAAAAAT-ATAAATAATAA-TA
* *
5025199 TTAATTATTATATT--TAATATAAATAATAATA
1 TAAATTATTATATTAAAAATATAAATAATAATA
5025230 TAATATTATTATATTAA
1 TAA-ATTATTATATTAA
5025247 TATAAATTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
31 12 0.30
32 16 0.40
34 12 0.30
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (33 bp):
TAAATTATTATATTAAAAATATAAATAATAATA
Found at i:5025224 original size:31 final size:31
Alignment explanation
Indices: 5025186--5025253 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
5025176 ATTAAAAATA
*
5025186 ATAAATAA-AAGTATTA-ATTATTATATTTAAT
1 ATAAATAATAA-TATAATATTATTATA-TTAAT
5025217 ATAAATAATAATATAATATTATTATATTAAT
1 ATAAATAATAATATAATATTATTATATTAAT
5025248 ATAAAT
1 ATAAAT
5025254 TAGATTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 23 0.68
32 11 0.32
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
ATAAATAATAATATAATATTATTATATTAAT
Found at i:5025263 original size:31 final size:32
Alignment explanation
Indices: 5025186--5025264 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
5025176 ATTAAAAATA
*
5025186 ATAAATAA-AAGTATTA-ATTATTATATTTAAT
1 ATAAATAAGAA-TATAATATTATTATATTTAAT
*
5025217 ATAAATAATAATATAATATTATTATA-TTAAT
1 ATAAATAAGAATATAATATTATTATATTTAAT
* *
5025248 ATAAATTAGATTATAAT
1 ATAAATAAGAATATAAT
5025265 TTTAAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 31 0.74
32 11 0.26
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (32 bp):
ATAAATAAGAATATAATATTATTATATTTAAT
Found at i:5026561 original size:58 final size:58
Alignment explanation
Indices: 5026489--5026604 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
5026479 TAACATTTTC
5026489 CTATTATTACATAGTAATTGAGATTGCATATCTTACGACAATTAAAATCCAGCAAAGT
1 CTATTATTACATAGTAATTGAGATTGCATATCTTACGACAATTAAAATCCAGCAAAGT
*
5026547 CTATTATTACATAGTAATTGAGATTTCATATCTTACGACAATTAAAATCCAGCAAAGT
1 CTATTATTACATAGTAATTGAGATTGCATATCTTACGACAATTAAAATCCAGCAAAGT
5026605 GGGCAAAGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (58 bp):
CTATTATTACATAGTAATTGAGATTGCATATCTTACGACAATTAAAATCCAGCAAAGT
Found at i:5031611 original size:21 final size:22
Alignment explanation
Indices: 5031582--5031629 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
5031572 CTTCCACTTT
* *
5031582 TATTAAAAAAATCA-ATTTTTA
1 TATTTAAAAAATAATATTTTTA
*
5031603 TATTTAAAAATTAATATTTTTA
1 TATTTAAAAAATAATATTTTTA
5031625 -ATTTA
1 TATTTA
5031630 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTAAAAAATAATATTTTTA
Found at i:5031640 original size:17 final size:18
Alignment explanation
Indices: 5031618--5031652 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5031608 AAAAATTAAT
*
5031618 ATTTTT-AATTTATTTTA
1 ATTTTTAAAATTATTTTA
5031635 ATTTTTAAAATTATTTTA
1 ATTTTTAAAATTATTTTA
5031653 TAATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTAAAATTATTTTA
Found at i:5032214 original size:28 final size:27
Alignment explanation
Indices: 5032164--5032240 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 27
5032154 TATATATATA
* * *
5032164 TATATATATTTTAGT-GATATTTAAA-
1 TATATATATTTTAATAAATTTTTAAAT
*
5032189 TATTATATATTTTATATAAATTTTTATAT
1 TA-TATATATTTTA-ATAAATTTTTAAAT
*
5032218 TATATATATTTTAATATATTTTT
1 TATATATATTTTAATAAATTTTT
5032241 TTGTTATATC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.05
26 11 0.26
27 10 0.23
28 18 0.42
29 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (27 bp):
TATATATATTTTAATAAATTTTTAAAT
Found at i:5032235 original size:19 final size:19
Alignment explanation
Indices: 5032147--5032237 Score: 75
Period size: 17 Copynumber: 4.9 Consensus size: 19
5032137 TAATAAATTC
5032147 ATATA-TTTATATATATATAT
1 ATATATTTTA-ATATAT-TAT
*
5032167 ATATATTTTAGTGATATT-T
1 ATATATTTTAAT-ATATTAT
* * *
5032186 AAATATTAT-ATATTTTAT
1 ATATATTTTAATATATTAT
*
5032204 ATAAATTTT--TATATTAT
1 ATATATTTTAATATATTAT
5032221 ATATATTTTAATATATT
1 ATATATTTTAATATATT
5032238 TTTTTGTTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
17 19 0.34
18 8 0.14
19 14 0.25
20 7 0.12
21 8 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATATATTTTAATATATTAT
Found at i:5032239 original size:26 final size:26
Alignment explanation
Indices: 5032158--5032239 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 26
5032148 TATATTTATA
*
5032158 TATATATATATATATTTTAGTGATA-TT
1 TATAT-TATATATATTTTAAT-ATATTT
* *
5032185 TA-AATATTATATATTTTATATAAATTTT
1 TATATTA-TATATATTTTA-ATATA-TTT
5032213 TATATTATATATATTTTAATATATTT
1 TATATTATATATATTTTAATATATTT
5032239 T
1 T
5032240 TTTGTTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
25 2 0.04
26 18 0.40
27 7 0.16
28 15 0.33
29 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TATATTATATATATTTTAATATATTT
Found at i:5032241 original size:28 final size:28
Alignment explanation
Indices: 5032192--5032261 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
5032182 ATTTAAATAT
5032192 TATATATTTT-ATATAAATTTTTATATTA
1 TATATATTTTAATATAAATTTTT-TATTA
* *
5032220 TATATATTTTAATAT-ATTTTTTTGTTA
1 TATATATTTTAATATAAATTTTTTATTA
5032247 TATCATATATTTAAT
1 TAT-ATAT-TTTAAT
5032262 TTTTATGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.19
28 20 0.54
29 10 0.27
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
TATATATTTTAATATAAATTTTTTATTA
Found at i:5032259 original size:29 final size:28
Alignment explanation
Indices: 5032192--5032261 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
5032182 ATTTAAATAT
5032192 TATATAT-TTTATATAAATTTTTATATTA
1 TATATATATTTA-ATAAATTTTTATATTA
* * *
5032220 TATATAT-TTTAATATATTTTTTTGTTA
1 TATATATATTTAATAAATTTTTATATTA
5032247 TATCATATATTTAAT
1 TAT-ATATATTTAAT
5032262 TTTTATGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.43
28 15 0.41
29 6 0.16
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
TATATATATTTAATAAATTTTTATATTA
Found at i:5033347 original size:21 final size:21
Alignment explanation
Indices: 5033305--5033347 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
5033295 ATTTAAAAGT
* *
5033305 ATTAATAAAAATATTTTTATA
1 ATTAATAAAAATATATTAATA
5033326 ATTAATTAAAAAT-TATTAATA
1 ATTAA-TAAAAATATATTAATA
5033347 A
1 A
5033348 ACAATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAATAAAAATATATTAATA
Found at i:5033915 original size:3 final size:3
Alignment explanation
Indices: 5033909--5033935 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5033899 TTATTTATAT
5033909 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
5033936 TTGTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5035790 original size:20 final size:20
Alignment explanation
Indices: 5035767--5035851 Score: 72
Period size: 20 Copynumber: 4.4 Consensus size: 20
5035757 TTAAAATATT
5035767 ATATATTTATATAAATTTTA
1 ATATATTTATATAAATTTTA
5035787 ATATA-TTA-AT-AA-TTTA
1 ATATATTTATATAAATTTTA
* * * *
5035803 CTTTATATAAATAAATTTTA
1 ATATATTTATATAAATTTTA
*
5035823 ATATATTTTATATTATATTTTA
1 ATATA-TTTATA-TAAATTTTA
5035845 AT-TATTT
1 ATATATTT
5035852 TTTATATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
16 7 0.14
17 4 0.08
18 4 0.08
19 5 0.10
20 15 0.29
21 6 0.12
22 10 0.20
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATATTTATATAAATTTTA
Found at i:5035798 original size:18 final size:18
Alignment explanation
Indices: 5035767--5035829 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
5035757 TTAAAATATT
5035767 ATATATTTATATAAATTTTA
1 ATATA-TTA-ATAAATTTTA
5035787 ATATATTAAT-AA-TTTA
1 ATATATTAATAAATTTTA
* *
5035803 CTTTATATAAATAAATTTTA
1 --ATATATTAATAAATTTTA
5035823 ATATATT
1 ATATATT
5035830 TTATATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
16 4 0.11
17 2 0.06
18 15 0.43
19 5 0.14
20 9 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATATTAATAAATTTTA
Found at i:5035845 original size:22 final size:23
Alignment explanation
Indices: 5035817--5035860 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5035807 ATATAAATAA
5035817 ATTTTAA-TATATTTTATATTAT
1 ATTTTAATTATATTTTATATTAT
*
5035839 ATTTTAATTATTTTTTATATTA
1 ATTTTAATTATATTTTATATTA
5035861 AATAATCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTTAATTATATTTTATATTAT
Found at i:5035854 original size:11 final size:12
Alignment explanation
Indices: 5035717--5035860 Score: 62
Period size: 11 Copynumber: 12.4 Consensus size: 12
5035707 TATATATCTT
*
5035717 TATTCTATTTT-
1 TATTATATTTTA
5035728 TATTAT-TTTTA
1 TATTATATTTTA
5035739 -A--ATATTTTA
1 TATTATATTTTA
*
5035748 TAATTATATTTAAAA
1 T-ATTATATTT--TA
5035763 TATTATATATTTA
1 TATTATAT-TTTA
*
5035776 TA-TAAATTTTA
1 TATTATATTTTA
*
5035787 -A-TATA-TTAA
1 TATTATATTTTA
5035796 TAATT-TACTTTATA
1 T-ATTATA-TTT-TA
* *
5035810 TAAATAAATTTTA
1 T-ATTATATTTTA
5035823 -A-TATATTTTA
1 TATTATATTTTA
5035833 TATTATATTTTA
1 TATTATATTTTA
*
5035845 -ATTATTTTTTA
1 TATTATATTTTA
5035856 TATTA
1 TATTA
5035861 AATAATCATG
Statistics
Matches: 103, Mismatches: 11, Indels: 37
0.68 0.07 0.25
Matches are distributed among these distances:
8 2 0.02
9 8 0.08
10 17 0.17
11 25 0.24
12 18 0.17
13 13 0.13
14 15 0.15
15 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:5036193 original size:6 final size:6
Alignment explanation
Indices: 5036182--5036221 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
5036172 AATTCTCCGC
* *
5036182 CTCTTT CTCTTT CTCTTT CTCTTT CTTTTT GATCTTT CTC
1 CTCTTT CTCTTT CTCTTT CTCTTT CTCTTT -CTCTTT CTC
5036222 GTGGTGTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.03, C:0.30, G:0.03, T:0.65
Consensus pattern (6 bp):
CTCTTT
Found at i:5037635 original size:18 final size:20
Alignment explanation
Indices: 5037610--5037654 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
5037600 TATATCATAT
*
5037610 TTAT-TTTTAAT-ATTTTTA
1 TTATATTTTAATAAATTTTA
5037628 -TATATTTTAATAAATTTTA
1 TTATATTTTAATAAATTTTA
5037647 TTATATTT
1 TTATATTT
5037655 ATATTTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 7 0.30
19 6 0.26
20 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATATTTTAATAAATTTTA
Found at i:5038962 original size:80 final size:82
Alignment explanation
Indices: 5038823--5038972 Score: 241
Period size: 80 Copynumber: 1.9 Consensus size: 82
5038813 CTTGATTCTC
* * * *
5038823 TCAATAATTTCTTGATTTAATGATAAAAATAATATTAAAATTAACACGTAAATTTAAATTTTATC
1 TCAATAATTTCTTAATTTAATGATAAAAATAATATTAAAATTAACACATAAACTTAAATTTAATC
5038888 TTAAACATTTTCAATTA
66 TTAAACATTTTCAATTA
*
5038905 TCAATAATTTCTTAATTTAATGAT-AAAA-AATATTAAAATTAACATATAAACTTAAATTTAATC
1 TCAATAATTTCTTAATTTAATGATAAAAATAATATTAAAATTAACACATAAACTTAAATTTAATC
5038968 TTAAA
66 TTAAA
5038973 TATCCCTGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 36 0.57
81 4 0.06
82 23 0.37
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (82 bp):
TCAATAATTTCTTAATTTAATGATAAAAATAATATTAAAATTAACACATAAACTTAAATTTAATC
TTAAACATTTTCAATTA
Found at i:5040454 original size:2 final size:2
Alignment explanation
Indices: 5040447--5040475 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5040437 TCATTCTATC
5040447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5040476 GCAGGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5042381 original size:17 final size:19
Alignment explanation
Indices: 5042345--5042387 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
5042335 TTTAAGTTAA
5042345 TTTTATATAATTTTATTAT
1 TTTTATATAATTTTATTAT
*
5042364 TTTTATATGATTTATATT-T
1 TTTTATATAATTT-TATTAT
5042383 TTTTA
1 TTTTA
5042388 ATTTTGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTATATAATTTTATTAT
Found at i:5043127 original size:18 final size:18
Alignment explanation
Indices: 5043104--5043142 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5043094 ATTTATATTT
5043104 AAATA-TTTATAAAATATA
1 AAATATTTTATAAAA-ATA
*
5043122 AAATATTTTTTAAAAATA
1 AAATATTTTATAAAAATA
5043140 AAA
1 AAA
5043143 AATCAGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATTTTATAAAAATA
Found at i:5044496 original size:27 final size:27
Alignment explanation
Indices: 5044458--5044510 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
5044448 TAAAATTAGA
*
5044458 AGTGCGTTTAAGTTAATAGAATCAAGG
1 AGTGAGTTTAAGTTAATAGAATCAAGG
5044485 AGTGAGTTTAAGTTAATAGAATCAAG
1 AGTGAGTTTAAGTTAATAGAATCAAG
5044511 CACATATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.30
Consensus pattern (27 bp):
AGTGAGTTTAAGTTAATAGAATCAAGG
Found at i:5049874 original size:207 final size:207
Alignment explanation
Indices: 5049514--5049934 Score: 833
Period size: 207 Copynumber: 2.0 Consensus size: 207
5049504 TTTACATACA
*
5049514 TATTCCTCCTCTCCTTCAGCTTAGAAATAACCCCTCAGCGTTCCTTCCTTTATGTTGGTACTGGG
1 TATTACTCCTCTCCTTCAGCTTAGAAATAACCCCTCAGCGTTCCTTCCTTTATGTTGGTACTGGG
5049579 CATGTGACGGAATTGGATCTAAGGTATTCAGTTCTTAACTAAATGGCAGATCTTATGTTGTCCAA
66 CATGTGACGGAATTGGATCTAAGGTATTCAGTTCTTAACTAAATGGCAGATCTTATGTTGTCCAA
5049644 AATTTGGTTTCTCATATTGATGGCTTCTCTTGTTTGATTTCTTCAGGATATGGTTGTTCTTCCTT
131 AATTTGGTTTCTCATATTGATGGCTTCTCTTGTTTGATTTCTTCAGGATATGGTTGTTCTTCCTT
5049709 ACAAGGACAGCT
196 ACAAGGACAGCT
5049721 TATTACTCCTCTCCTTCAGCTTAGAAATAACCCCTCAGCGTTCCTTCCTTTATGTTGGTACTGGG
1 TATTACTCCTCTCCTTCAGCTTAGAAATAACCCCTCAGCGTTCCTTCCTTTATGTTGGTACTGGG
5049786 CATGTGACGGAATTGGATCTAAGGTATTCAGTTCTTAACTAAATGGCAGATCTTATGTTGTCCAA
66 CATGTGACGGAATTGGATCTAAGGTATTCAGTTCTTAACTAAATGGCAGATCTTATGTTGTCCAA
5049851 AATTTGGTTTCTCATATTGATGGCTTCTCTTGTTTGATTTCTTCAGGATATGGTTGTTCTTCCTT
131 AATTTGGTTTCTCATATTGATGGCTTCTCTTGTTTGATTTCTTCAGGATATGGTTGTTCTTCCTT
5049916 ACAAGGACAGCT
196 ACAAGGACAGCT
5049928 TATTACT
1 TATTACT
5049935 ATTTTGTAGG
Statistics
Matches: 213, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 213 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (207 bp):
TATTACTCCTCTCCTTCAGCTTAGAAATAACCCCTCAGCGTTCCTTCCTTTATGTTGGTACTGGG
CATGTGACGGAATTGGATCTAAGGTATTCAGTTCTTAACTAAATGGCAGATCTTATGTTGTCCAA
AATTTGGTTTCTCATATTGATGGCTTCTCTTGTTTGATTTCTTCAGGATATGGTTGTTCTTCCTT
ACAAGGACAGCT
Found at i:5051870 original size:20 final size:17
Alignment explanation
Indices: 5051833--5051871 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 17
5051823 ATATTATTGA
5051833 AATATTATTTTTATATT
1 AATATTATTTTTATATT
5051850 AATATTAATATTTTATAATT
1 AATATT-AT-TTTTAT-ATT
5051870 AA
1 AA
5051872 ATATAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 6 0.32
20 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATTATTTTTATATT
Found at i:5051878 original size:20 final size:18
Alignment explanation
Indices: 5051827--5051879 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
5051817 TTCACTATAT
*
5051827 TATTGAAATATTATTTTTA
1 TATT-AAATATAATTTTTA
5051846 TATT-AATATTAATATTTTA
1 TATTAAATA-TAAT-TTTTA
5051865 TAATTAAATATAATT
1 T-ATTAAATATAATT
5051880 AAAAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 11 0.38
20 7 0.24
21 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TATTAAATATAATTTTTA
Found at i:5058949 original size:6 final size:6
Alignment explanation
Indices: 5058938--5058985 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
5058928 ACATATTATA
* * * *
5058938 TTAAAT TTAAAT TTAAAT TTAAGT TTAAAA TAAAAT CTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
5058986 AAAAATACAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:5058964 original size:18 final size:18
Alignment explanation
Indices: 5058938--5058991 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
5058928 ACATATTATA
*
5058938 TTAAATTTAAATTTAAAT
1 TTAAATTTAAATTAAAAT
* *
5058956 TTAAGTTTAAAATAAAAT
1 TTAAATTTAAATTAAAAT
* *
5058974 CTAAATTTAAATAAAAAT
1 TTAAATTTAAATTAAAAT
5058992 ACAGCTCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
TTAAATTTAAATTAAAAT
Found at i:5059192 original size:23 final size:24
Alignment explanation
Indices: 5059140--5059194 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
5059130 TTTATTTTTA
*
5059140 AAATTTTTTAATTTAATAAAATTT
1 AAATTATTTAATTTAATAAAATTT
5059164 ATAATTATTTAATATT-A-AAAATTT
1 A-AATTATTTAAT-TTAATAAAATTT
5059188 AAATTAT
1 AAATTAT
5059195 ACAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.21
24 9 0.32
25 11 0.39
26 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AAATTATTTAATTTAATAAAATTT
Found at i:5062537 original size:2 final size:2
Alignment explanation
Indices: 5062532--5062557 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5062522 TTTTTTATTA
5062532 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
5062558 GATTTTACGT
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:5062832 original size:23 final size:25
Alignment explanation
Indices: 5062769--5062841 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 25
5062759 AACTAATTCC
* *
5062769 AAATATAATATAA-AAATATGATTT
1 AAATATAATATAATTAATATAATTT
* *
5062793 AAATATAAAATATTTAATA-AATTT
1 AAATATAATATAATTAATATAATTT
5062817 -AATATAATATAATTAATATATATTT
1 AAATATAATATAATTAATATA-ATTT
5062842 TTATATATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 16 0.40
24 16 0.40
25 8 0.20
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (25 bp):
AAATATAATATAATTAATATAATTT
Found at i:5063413 original size:22 final size:23
Alignment explanation
Indices: 5063388--5063430 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
5063378 TATAATCTAT
*
5063388 TAAATATAAATTTA-ATTAATAA
1 TAAATAAAAATTTATATTAATAA
5063410 TAAATAAAAATTTATATTAAT
1 TAAATAAAAATTTATATTAAT
5063431 GTACTCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAATAAAAATTTATATTAATAA
Found at i:5065364 original size:22 final size:20
Alignment explanation
Indices: 5065330--5065371 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
5065320 ATATTTATTT
5065330 ATTTATTTATTTACAATATTCA
1 ATTTATTTATTTA-AA-ATTCA
5065352 ATTTAATTT-TTTAAAATTCA
1 ATTT-ATTTATTTAAAATTCA
5065372 CTACGTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 8 0.42
23 4 0.21
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATTTATTTAAAATTCA
Found at i:5066821 original size:2 final size:2
Alignment explanation
Indices: 5066816--5066840 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5066806 TGGGAAAGAA
5066816 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
5066841 AATAGGAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5066871 original size:4 final size:4
Alignment explanation
Indices: 5066862--5066899 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
5066852 AAAAGGAACC
5066862 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
5066900 GGATAGAGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:5068862 original size:18 final size:16
Alignment explanation
Indices: 5068841--5068905 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 16
5068831 ATATAATAAA
5068841 ATATAAATATATTAATTT
1 ATAT-AATATA-TAATTT
5068859 ATATAATATA-AA-TT
1 ATATAATATATAATTT
5068873 AT-TAATATATCAAATTTT
1 ATATAATATAT--AA-TTT
5068891 ATATAAATATATAAT
1 ATAT-AATATATAAT
5068906 ACTTTAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
13 7 0.17
14 4 0.10
15 2 0.05
16 2 0.05
17 7 0.17
18 10 0.25
19 1 0.03
20 7 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATATATAATTT
Found at i:5068880 original size:30 final size:31
Alignment explanation
Indices: 5068831--5068906 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
5068821 AAAAATTAAA
*
5068831 ATATAATA-AAATATAAATATAT-TAA-TTT
1 ATATAATATAAATATAAATATATCAAATTTT
*
5068859 ATATAATATAAATTATTAATATATCAAATTTT
1 ATATAATATAAA-TATAAATATATCAAATTTT
5068891 ATATAAATATATAATA
1 ATAT-AATATA-AATA
5068907 CTTTAATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 8 0.20
29 3 0.08
30 10 0.25
31 2 0.05
32 7 0.17
33 8 0.20
34 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (31 bp):
ATATAATATAAATATAAATATATCAAATTTT
Found at i:5074357 original size:14 final size:14
Alignment explanation
Indices: 5074338--5074365 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5074328 CTTTATTTAA
5074338 TCATTTCATCTAAC
1 TCATTTCATCTAAC
5074352 TCATTTCATCTAAC
1 TCATTTCATCTAAC
5074366 GGTTGAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (14 bp):
TCATTTCATCTAAC
Done.