Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 85 of 210
Found at i:25073693 original size:19 final size:20
Alignment explanation
Indices: 25073669--25073707 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
25073659 CATATTTAAA
25073669 TTGATAAAA-TAAATTATTT
1 TTGATAAAATTAAATTATTT
25073688 TTGATAAAATTTAAATTATT
1 TTGATAAAA-TTAAATTATT
25073708 GAATCCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTGATAAAATTAAATTATTT
Found at i:25073822 original size:27 final size:27
Alignment explanation
Indices: 25073769--25073846 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 27
25073759 GATACTTATT
25073769 TTTTAATCCTATTTTTATTAAAATAATA
1 TTTTAAT-CTATTTTTATTAAAATAATA
*
25073797 TTTTAAT-TATTTTTATTACAACTAATA
1 TTTTAATCTATTTTTATTA-AAATAATA
*
25073824 --TTAATGTATTTTTAAATTAAAAT
1 TTTTAATCTATTTTT--ATTAAAAT
25073847 TAATTAATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
25 5 0.11
26 18 0.41
27 10 0.23
28 11 0.25
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (27 bp):
TTTTAATCTATTTTTATTAAAATAATA
Found at i:25073873 original size:16 final size:16
Alignment explanation
Indices: 25073830--25073887 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
25073820 AATATTAATG
25073830 TATTT-TTAAATTAAA
1 TATTTATTAAATTAAA
* *
25073845 -ATTAATT-AATTAAT
1 TATTTATTAAATTAAA
*
25073859 TTTTTATTAAATTAAA
1 TATTTATTAAATTAAA
25073875 TATTTATTAAATT
1 TATTTATTAAATT
25073888 TATCTATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 9 0.26
15 7 0.21
16 18 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTATTAAATTAAA
Found at i:25077136 original size:22 final size:22
Alignment explanation
Indices: 25077111--25077174 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 22
25077101 CGGACTCTAC
25077111 ATGTTATTTATGTGAACCCAAT
1 ATGTTATTTATGTGAACCCAAT
** * *
25077133 ATGTTTAAATATATGAACCCTAT
1 ATG-TTATTTATGTGAACCCAAT
* *
25077156 ATATTGTTTATGTGAACCC
1 ATGTTATTTATGTGAACCC
25077175 TACATGTGGT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (22 bp):
ATGTTATTTATGTGAACCCAAT
Found at i:25077175 original size:22 final size:22
Alignment explanation
Indices: 25077146--25077211 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
25077136 TTTAAATATA
25077146 TGAACCCTATATATTGTTTATG
1 TGAACCCTATATATTGTTTATG
* * * *
25077168 TGAACCCTACATGTGGTATATG
1 TGAACCCTATATATTGTTTATG
* *
25077190 TGAACCCTATTTATTGATTATG
1 TGAACCCTATATATTGTTTATG
25077212 CAAACTATAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (22 bp):
TGAACCCTATATATTGTTTATG
Found at i:25077272 original size:14 final size:14
Alignment explanation
Indices: 25077253--25077296 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
25077243 AACCTTAGAT
25077253 GTGCGAACCCCTAG
1 GTGCGAACCCCTAG
*
25077267 GTGCGAACCCAC-AT
1 GTGCGAACCC-CTAG
25077281 GTGCGAA-CCCTAG
1 GTGCGAACCCCTAG
25077294 GTG
1 GTG
25077297 TGTACCCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 1 0.04
13 6 0.23
14 18 0.69
15 1 0.04
ACGTcount: A:0.23, C:0.32, G:0.30, T:0.16
Consensus pattern (14 bp):
GTGCGAACCCCTAG
Found at i:25077303 original size:27 final size:28
Alignment explanation
Indices: 25077239--25077320 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
25077229 CCCTAATGCA
* *
25077239 TGCGAACCTTAGATGTGCGAACCCCTAGG
1 TGCGAACCCTACATGTGCGAA-CCCTAGG
25077268 TGCGAACCC-ACATGTGCGAACCCTAGG
1 TGCGAACCCTACATGTGCGAACCCTAGG
* * * *
25077295 TGTGTACCCTATATATGCGAACCCTA
1 TGCGAACCCTACATGTGCGAACCCTA
25077321 TTTATGTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 14 0.30
28 24 0.52
29 8 0.17
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (28 bp):
TGCGAACCCTACATGTGCGAACCCTAGG
Found at i:25082414 original size:16 final size:16
Alignment explanation
Indices: 25082375--25082418 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
25082365 GGCCCAAAAA
25082375 AAATAGA-AAATAAATC
1 AAATAGATAAA-AAATC
25082391 AAAT--ATAAAAAATC
1 AAATAGATAAAAAATC
25082405 AAATAGATAAAAAA
1 AAATAGATAAAAAA
25082419 AAGTTAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 12 0.48
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (16 bp):
AAATAGATAAAAAATC
Found at i:25082416 original size:14 final size:14
Alignment explanation
Indices: 25082375--25082417 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
25082365 GGCCCAAAAA
25082375 AAATAGAAAATAAATC
1 AAATAG-AAA-AAATC
*
25082391 AAATATAAAAAATC
1 AAATAGAAAAAATC
25082405 AAATAGATAAAAA
1 AAATAGA-AAAAA
25082418 AAAGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.46
15 8 0.33
16 5 0.21
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (14 bp):
AAATAGAAAAAATC
Found at i:25098786 original size:39 final size:39
Alignment explanation
Indices: 25098693--25098793 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 39
25098683 ACAAGTTTAT
* * *
25098693 AAGTATAGCGATATATGCTTGAATGTTATGTGATTATAC
1 AAGTATTGTGATATATGCTTAAATGTTATGTGATTATAC
* *
25098732 AAGTATTGTGTTATATGCTTAAATGTTATGTGATTATAT
1 AAGTATTGTGATATATGCTTAAATGTTATGTGATTATAC
**
25098771 GTGTGA-TGTGATATATGCTTAAA
1 AAGT-ATTGTGATATATGCTTAAA
25098794 CGTGAATATG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 52 0.98
40 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.43
Consensus pattern (39 bp):
AAGTATTGTGATATATGCTTAAATGTTATGTGATTATAC
Found at i:25102580 original size:18 final size:18
Alignment explanation
Indices: 25102559--25102597 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
25102549 GAGCTTAGGT
25102559 TAACCTAAACACTTATCC
1 TAACCTAAACACTTATCC
25102577 TAACCTAAACACTTATCC
1 TAACCTAAACACTTATCC
25102595 TAA
1 TAA
25102598 GTTCTGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (18 bp):
TAACCTAAACACTTATCC
Found at i:25108368 original size:100 final size:99
Alignment explanation
Indices: 25108245--25108545 Score: 464
Period size: 100 Copynumber: 3.0 Consensus size: 99
25108235 GATTTTTTAA
*
25108245 AAATCATAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGT
1 AAATCAT-AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGT
25108310 GATTTCTTAAATCTTGGATAAGCGGACT-TTCTTTT
65 GATTTCTTAAATCTTGGATAAGCGGA-TGTTCTTTT
*
25108345 AAATCATGAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGT
1 AAATCAT-AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGT
*
25108410 GATTTCTTAAATCTTGGATAAGTGGATGTTCTTTT
65 GATTTCTTAAATCTTGGATAAGCGGATGTTCTTTT
* * *
25108445 AAAGT-A-AAGGAAATATTCCGAGTTTAGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGT
1 AAA-TCATAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGT
* * *
25108508 GATTTCTTAAATCTTGGATTAGTGGATGTTATTTT
65 GATTTCTTAAATCTTGGATAAGCGGATGTTCTTTT
25108543 AAA
1 AAA
25108546 GTTTTATTGT
Statistics
Matches: 189, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
98 89 0.47
99 1 0.01
100 98 0.52
101 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (99 bp):
AAATCATAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTG
ATTTCTTAAATCTTGGATAAGCGGATGTTCTTTT
Found at i:25108519 original size:98 final size:97
Alignment explanation
Indices: 25108251--25108547 Score: 463
Period size: 98 Copynumber: 3.0 Consensus size: 97
25108241 TTAAAAATCA
*
25108251 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTT-GGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
*
25108316 TTAAATCTTGGATAAGCGGACT-TTCTTTTAAA-
65 TTAAATCTTGGATAAGTGGA-TGTTCTTTTAAAG
25108348 TCATGAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGAT
1 T-A--AAGGAAATATTCCGAGTTTG-GATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGAT
25108413 TTCTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
62 TTCTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
25108449 TAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTT-GGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
* *
25108514 TTAAATCTTGGATTAGTGGATGTTATTTTAAAG
65 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
25108547 T
1 T
25108548 TTTATTGTAT
Statistics
Matches: 187, Mismatches: 6, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
97 1 0.01
98 92 0.49
99 3 0.02
100 90 0.48
101 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (97 bp):
TAAAGGAAATATTCCGAGTTTGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCT
TAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:25112098 original size:9 final size:9
Alignment explanation
Indices: 25112084--25112123 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
25112074 TCAGATTCAA
25112084 AAAAAAAAC
1 AAAAAAAAC
25112093 -AAAAAAAC
1 AAAAAAAAC
25112101 AAAAAAAAC
1 AAAAAAAAC
25112110 AAAACAAAA-
1 AAAA-AAAAC
25112119 AAAAA
1 AAAAA
25112124 GGAAAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 9 0.31
9 16 0.55
10 4 0.14
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:25112104 original size:14 final size:13
Alignment explanation
Indices: 25112082--25112123 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
25112072 GTTCAGATTC
*
25112082 AAAAAA-AAAACA
1 AAAAAACAAAAAA
25112094 AAAAAACAAAAAA
1 AAAAAACAAAAAA
25112107 AACAAAACAAAAAA
1 AA-AAAACAAAAAA
25112121 AAA
1 AAA
25112124 GGAAAAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 6 0.22
13 8 0.30
14 13 0.48
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:25112106 original size:17 final size:16
Alignment explanation
Indices: 25112082--25112123 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
25112072 GTTCAGATTC
25112082 AAAAAAAAAACAAAAA
1 AAAAAAAAAACAAAAA
*
25112098 AACAAAAAAAACAAAAC
1 AA-AAAAAAAACAAAAA
25112115 AAAAAAAAA
1 AAAAAAAAA
25112124 GGAAAAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAA
Found at i:25113819 original size:132 final size:132
Alignment explanation
Indices: 25113577--25113925 Score: 599
Period size: 132 Copynumber: 2.6 Consensus size: 132
25113567 NNNNNNNNNN
* *
25113577 TATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTG
* * *
25113642 GAGTACATTGAAACCAGTAATTCTACTTCCCTGGACAACAATGGAATAGATTGAAGATTTCAGAT
66 GAGTACATTGAAGCCAGTAACTCTACTTCCCTAGACAACAATGGAATAGATTGAAGATTTCAGAT
25113707 CT
131 CT
*
25113709 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTG
* *
25113774 GAGTACATTGAAGCCAGTAACTCTACTTCCCTAGACAATAGTGGAATAGATTGAAGATTTCAGAT
66 GAGTACATTGAAGCCAGTAACTCTACTTCCCTAGACAACAATGGAATAGATTGAAGATTTCAGAT
25113839 CT
131 CT
* * *
25113841 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTATAATG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTG
25113906 GAGTACATTGAAGCCAGTAA
66 GAGTACATTGAAGCCAGTAA
25113926 TTCNNNNNNN
Statistics
Matches: 205, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 205 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (132 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTG
GAGTACATTGAAGCCAGTAACTCTACTTCCCTAGACAACAATGGAATAGATTGAAGATTTCAGAT
CT
Found at i:25113861 original size:44 final size:43
Alignment explanation
Indices: 25113683--25113862 Score: 102
Period size: 44 Copynumber: 4.1 Consensus size: 43
25113673 TGGACAACAA
25113683 TGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
1 TGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AGCAGTAG
** * * * * * **
25113727 TGGAGCAGATCGAAGATGGT-GGATTTTACCTCCCT-GTGGTTACAG
1 TGGAATAGATTGAAGAT-TTCAGATCTTATCTCCCTAGCAG-T--AG
* * * * *
25113772 TGGAGTACATTGAAG---CCAGTAACTCTA-CTTCCCTAGACAATAG
1 TGGAATAGATTGAAGATTTCAG-ATCT-TATC-TCCCTAG-CAGTAG
25113815 TGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
1 TGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AGCAGTAG
25113859 TGGA
1 TGGA
25113863 GCAGATCGAA
Statistics
Matches: 97, Mismatches: 24, Indels: 30
0.64 0.16 0.20
Matches are distributed among these distances:
42 3 0.03
43 19 0.20
44 49 0.51
45 23 0.24
46 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
TGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGCAGTAG
Found at i:25115136 original size:3 final size:3
Alignment explanation
Indices: 25115130--25115194 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
25115120 CATCATCATC
25115130 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
25115178 ATT ATT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT AT
25115195 GTACATACAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:25115373 original size:25 final size:26
Alignment explanation
Indices: 25115340--25115432 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 26
25115330 TTAATTTAAT
*
25115340 TATTATCATTTTTTTGTATATATGTA
1 TATTATCATTTTTTTATATATATGTA
*
25115366 -ATTATCATTTTTATAATCTATATATGTA
1 TATTATCATTTTT-T--TATATATATGTA
* *
25115394 TATAATTA-TTTTTTATATATATGTACA
1 TATTATCATTTTTTTATATATATGT--A
25115421 TATTAT-ATTTTT
1 TATTATCATTTTT
25115433 CAATTAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
25 22 0.40
26 2 0.04
27 11 0.20
28 15 0.27
29 5 0.09
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
TATTATCATTTTTTTATATATATGTA
Found at i:25116190 original size:99 final size:100
Alignment explanation
Indices: 25116077--25116411 Score: 310
Period size: 100 Copynumber: 3.4 Consensus size: 100
25116067 ATTCAACACG
* * * *
25116077 TTGTGTCCTAACGTATTGGATGTGA-CGCATT-GATTTCTCGA-AATGAAGA-TTT-TTTAAAAA
1 TTGTGCCCTAACGTATTGGGTGTGATCGC-TTAAATCT-TCGATAA-GAAGACTTTCTTT-AAAA
* *
25116137 TCATAAAGGAAATATGCCGAGTTTGGGATTTTAAAGGAA
62 TCATAAAGGAAATATGCCGAGTTTGAGATTCTAAAGGAA
** * * *
25116176 TTGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGCAGACTTTCTTTTAAATCAT
1 TTGTGCCCTAACGTATTGGGTGTGATCGCTTAAATCTTCGATAAGAAGACTTTCTTTAAAATCAT
* *
25116241 GAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAA
66 AAAGGAAATATGCCGAGTTTGAGATTCTAAAGGAA
** * ** * *
25116276 TTGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGTGGA-TGTTCTTTTAAA--G
1 TTGTGCCCTAACGTATTGGGTGTGATCGCTTAAATCTTCGATAAGAAGACT-TTCTTTAAAATCA
* * * *
25116338 TAAATGAAATATTCTGAGTTT-AGGATTCTAAAGGGA
65 TAAAGGAAATATGCCGAGTTTGA-GATTCTAAAGGAA
* **
25116374 TCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTT
1 TTGTGCCCTAACGTATTGGGTGTGATCGCTTAAATCTT
25116412 GGATGAGTGG
Statistics
Matches: 208, Mismatches: 21, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
97 1 0.00
98 67 0.32
99 33 0.16
100 104 0.50
101 3 0.01
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (100 bp):
TTGTGCCCTAACGTATTGGGTGTGATCGCTTAAATCTTCGATAAGAAGACTTTCTTTAAAATCAT
AAAGGAAATATGCCGAGTTTGAGATTCTAAAGGAA
Found at i:25116258 original size:100 final size:99
Alignment explanation
Indices: 25116134--25116434 Score: 428
Period size: 100 Copynumber: 3.0 Consensus size: 99
25116124 GATTTTTTAA
* *
25116134 AAATCATAAAGGAAATATGCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGT
1 AAATCAT-AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGT
25116199 GATTTCTTAAATCTTGGATAAGCAGACT-TTCTTTT
65 GATTTCTTAAATCTTGGATAAGCAGA-TGTTCTTTT
*
25116234 AAATCATGAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGT
1 AAATCAT-AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGT
**
25116299 GATTTCTTAAATCTTGGATAAGTGGATGTTCTTTT
65 GATTTCTTAAATCTTGGATAAGCAGATGTTCTTTT
* * * * *
25116334 AAAGT-A-AATGAAATATTCTGAGTTTAGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGT
1 AAA-TCATAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGT
* **
25116397 GATTTCTTAAATCTTGGATGAGTGGATGTTCTTTT
65 GATTTCTTAAATCTTGGATAAGCAGATGTTCTTTT
25116432 AAA
1 AAA
25116435 GTTTTATTGT
Statistics
Matches: 186, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
98 88 0.47
99 1 0.01
100 96 0.52
101 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (99 bp):
AAATCATAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTG
ATTTCTTAAATCTTGGATAAGCAGATGTTCTTTT
Found at i:25116412 original size:98 final size:97
Alignment explanation
Indices: 25116140--25116436 Score: 436
Period size: 98 Copynumber: 3.0 Consensus size: 97
25116130 TTAAAAATCA
* *
25116140 TAAAGGAAATATGCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTT-GGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
**
25116205 TTAAATCTTGGATAAGCAGACT-TTCTTTTAAA-
65 TTAAATCTTGGATAAGTGGA-TGTTCTTTTAAAG
25116237 TCATGAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGAT
1 T-A--AAGGAAATATTCCGAGTTTG-GATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGAT
25116302 TTCTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
62 TTCTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * * *
25116338 TAAATGAAATATTCTGAGTTTAGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTT-GGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
*
25116403 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
65 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
25116436 T
1 T
25116437 TTTATTGTAT
Statistics
Matches: 184, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
97 1 0.01
98 91 0.49
99 3 0.02
100 88 0.48
101 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (97 bp):
TAAAGGAAATATTCCGAGTTTGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCT
TAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:25124060 original size:131 final size:132
Alignment explanation
Indices: 25123634--25124278 Score: 858
Period size: 131 Copynumber: 4.9 Consensus size: 132
25123624 ATTCAGTCTG
** * * * * *
25123634 CTCCACTGTAACTTCAGGGAGGTACAATCTGCTATCTTTGACCTGCTCCACTACTG-CTTGAGGA
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAATGCCTAG-GGA
* *
25123698 GACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTACTGGCTTCAA
65 GATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGA-TAGAATTACTGGCTTCAA
25123762 TGTA
129 TGTA
* * *
25123766 CTCCACTGTAACTAC-GAGGAGGTAAAATCCGCCATCTTTGATCTGCTTCGCTGTCT-ATG-C-A
1 CTCCACTGTAACCACAG-GGAGGTAAAATCTGCCATCTTTGATCTGC-TC-C--ACTAATGCCTA
* ** * *
25123827 GGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTACTGGCT
61 GGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGA-TAGAATTACTGGCT
25123891 TCAATGTA
125 TCAATGTA
* * * *
25123899 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGACCTGCTCCACTACTGCTTAGGGGG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAATGCCTAGGGAG
* * * *
25123964 ATAAGATCTGAAATCTTCAACCTATTCCGCTGCTAACTAGGGAGATAGAATTAC-GGCTTCAATG
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATG
25124028 TA
131 TA
*
25124030 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAATGCCTAGGGAG
* *
25124095 ATAAGATCTGAAATATTCAATCTATTCCACTACTGACCAGGGAGATAGAATTAC-GGCTTCAATG
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATG
25124159 TA
131 TA
* * *
25124161 CTCCATTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGTTCCACTAATGCCTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAATGCCTAGGGAG
**
25124226 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTA
25124279 GTATCTTCGA
Statistics
Matches: 459, Mismatches: 44, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
129 2 0.00
130 2 0.00
131 246 0.54
132 89 0.19
133 112 0.24
134 3 0.01
135 3 0.01
136 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (132 bp):
CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAATGCCTAGGGAG
ATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATG
TA
Found at i:25124104 original size:44 final size:44
Alignment explanation
Indices: 25124045--25124256 Score: 139
Period size: 44 Copynumber: 4.8 Consensus size: 44
25124035 CTGTAACCAC
* * * * *
25124045 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCT
1 AGGGAGATAAGATCTGACATCTTCAATCTACTCCACTAATGCCT
* * * *
25124089 AGGGAGATAAGATCTGAAATATTCAATCTATTCCACTACTGACC-
1 AGGGAGATAAGATCTGACATCTTCAATCTACTCCACTAATG-CCT
** * * *
25124133 AGGGAGAT-AGAAT-T-ACGGCTTCAATGTACTCCATTGTAA--CCAC
1 AGGGAGATAAG-ATCTGACATCTTCAATCTACTCCA--CTAATGCC-T
* * * * **
25124176 AGGGAGGTAAAATCTGCCATCTTCGATCTGTTCCACTAATGCCT
1 AGGGAGATAAGATCTGACATCTTCAATCTACTCCACTAATGCCT
* *
25124220 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
1 AGGGAGATAAGATCTGACATCTTCAATCTACTCCACT
25124257 GCCAACCAGG
Statistics
Matches: 123, Mismatches: 34, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
41 2 0.02
42 13 0.11
43 15 0.12
44 77 0.63
45 16 0.13
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATCTGACATCTTCAATCTACTCCACTAATGCCT
Found at i:25124268 original size:44 final size:44
Alignment explanation
Indices: 25123958--25124272 Score: 134
Period size: 44 Copynumber: 7.2 Consensus size: 44
25123948 ACTACTGCTT
* * * *
25123958 AGGGGGATAAGATCTGAAATCTTCAACCTATTCCGCTGCTAA-CT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTG-TAACCC
*** * *
25124002 AGGGAGAT-AGAAT-T-ACGGCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGATAAG-ATCTGAAATCTTCAATCTATTCCACTGTAACC-C
* * ** * ** *
25124045 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCAC--TAATGCCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTAA--CCC
* * *
25124089 AGGGAGATAAGATCTGAAATATTCAATCTATTCCACTACTGA-CC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT-GTAACCC
*** * * *
25124133 AGGGAGAT-AGAAT-T-ACGGCTTCAATGTACTCCATTGTAACCAC
1 AGGGAGATAAG-ATCTGAAATCTTCAATCTATTCCACTGTAACC-C
* * ** * * *
25124176 AGGGAGGTAAAATCTGCCATCTTCGATCTGTTCCAC--TAATGCCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTAA--CCC
*
25124220 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA-CC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTG-TAACCC
25124264 AGGGAGATA
1 AGGGAGATA
25124273 GAATTAGTAT
Statistics
Matches: 193, Mismatches: 56, Indels: 44
0.66 0.19 0.15
Matches are distributed among these distances:
41 5 0.03
42 31 0.16
43 31 0.16
44 92 0.48
45 30 0.16
47 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (44 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTAACCC
Found at i:25126124 original size:23 final size:22
Alignment explanation
Indices: 25126093--25126143 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
25126083 AGCGGGGTTC
*
25126093 TTTTTTTTTCTTTTTC-CCCTT
1 TTTTTTTTTTTTTTTCTCCCTT
*
25126114 TTTTTTGTTTTTTTTTCTCTCTT
1 TTTTTT-TTTTTTTTTCTCCCTT
25126137 TTTTTTT
1 TTTTTTT
25126144 GGATTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 10 0.38
23 10 0.38
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (22 bp):
TTTTTTTTTTTTTTTCTCCCTT
Found at i:25130456 original size:15 final size:16
Alignment explanation
Indices: 25130433--25130463 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
25130423 ATATGAATGT
25130433 CTATAATATATATAAA
1 CTATAATATATATAAA
25130449 CTAT-ATATATATAAA
1 CTATAATATATATAAA
25130464 ATATGGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
CTATAATATATATAAA
Found at i:25130590 original size:12 final size:12
Alignment explanation
Indices: 25130575--25130634 Score: 70
Period size: 12 Copynumber: 5.1 Consensus size: 12
25130565 ATATGTAAGT
25130575 ATAATAAATATA
1 ATAATAAATATA
25130587 ATAAT-AATAGTA
1 ATAATAAATA-TA
*
25130599 ATAATAAAAATA
1 ATAATAAATATA
*
25130611 ATAATAACTATA
1 ATAATAAATATA
*
25130623 TTAATAAA-ATA
1 ATAATAAATATA
25130634 A
1 A
25130635 ACTAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 7 0.17
12 30 0.75
13 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (12 bp):
ATAATAAATATA
Found at i:25130611 original size:24 final size:24
Alignment explanation
Indices: 25130575--25130631 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
25130565 ATATGTAAGT
*
25130575 ATAATAAATATAATAATAA-TAGTA
1 ATAATAAAAATAATAATAACTA-TA
25130599 ATAATAAAAATAATAATAACTATA
1 ATAATAAAAATAATAATAACTATA
*
25130623 TTAATAAAA
1 ATAATAAAA
25130632 TAAACTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAATAAAAATAATAATAACTATA
Found at i:25133172 original size:26 final size:26
Alignment explanation
Indices: 25133138--25133229 Score: 69
Period size: 25 Copynumber: 3.5 Consensus size: 26
25133128 TGTTGGATGT
*
25133138 AAAATATAATTATTTTTACAAAAATA
1 AAAACATAATTATTTTTACAAAAATA
** *
25133164 AAAACATAA-TGCTTTTAAAAAAATA
1 AAAACATAATTATTTTTACAAAAATA
** * **
25133189 ATTATATTAAAAATTTTATTACAAAAATA
1 AAAACA-TAATTA-TTT-TTACAAAAATA
25133218 AAAACATAATTA
1 AAAACATAATTA
25133230 ATAAATTATA
Statistics
Matches: 46, Mismatches: 16, Indels: 6
0.68 0.24 0.09
Matches are distributed among these distances:
25 16 0.35
26 11 0.24
28 6 0.13
29 13 0.28
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (26 bp):
AAAACATAATTATTTTTACAAAAATA
Found at i:25133554 original size:16 final size:16
Alignment explanation
Indices: 25133533--25133583 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
25133523 TTACATCTAT
25133533 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
25133549 ATTACAGCTCTATTAC
1 ATTACAGCTCTATTCC
* *
25133565 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
25133581 ATT
1 ATT
25133584 CCAGTTAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:25134730 original size:17 final size:17
Alignment explanation
Indices: 25134708--25134757 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
25134698 ATAGAAAGTC
25134708 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
* *
25134725 AAAGATATAGGTATTAG
1 AAAGATATGGGTATCAG
25134742 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
25134758 AAATCTGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.26, T:0.26
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:25138314 original size:17 final size:17
Alignment explanation
Indices: 25138292--25138341 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
25138282 ATAGAAAGTC
25138292 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
* *
25138309 AAAGATATAGGTATCCG
1 AAAGATATGGGTATCAG
25138326 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
25138342 AAATCTGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:25146052 original size:5 final size:5
Alignment explanation
Indices: 25146039--25146072 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
25146029 CATGGTTGGT
*
25146039 GGTGC GGTGA GGTGA GGTGA GGTGA GGTGA GGTG
1 GGTGA GGTGA GGTGA GGTGA GGTGA GGTGA GGTG
25146073 GCCGATCTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.15, C:0.03, G:0.62, T:0.21
Consensus pattern (5 bp):
GGTGA
Found at i:25153436 original size:41 final size:40
Alignment explanation
Indices: 25153361--25153594 Score: 224
Period size: 40 Copynumber: 5.8 Consensus size: 40
25153351 TGATTTTTCG
* * * **
25153361 AGGGCTTTAGTGGCTTTTTTGAAAAGCGTTGCTAATG-T-
1 AGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC
*
25153399 ATGGGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTC
1 A--GGGCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTC
*
25153442 AGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC
1 AGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC
*
25153482 AGGTCTTTAGCGGCGTTTCTTAAAAAGCGCCGCTAATGCTC
1 AGGGCTTTAGCGGCGTTT-TTAAAAAGCGCCGCTAATGCTC
* * ** * * *
25153523 AGGGATTTGGCGTAGTTTTGAAGAATCGCCGCTAATGCTC
1 AGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC
** *
25153563 TA--TTTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 -AGGGCTTTAGCGGCGTTTTT-AAAAAGCGCCGC
25153595 AAAAAATATT
Statistics
Matches: 162, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 81 0.50
41 68 0.42
42 1 0.01
43 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (40 bp):
AGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC
Found at i:25153508 original size:81 final size:80
Alignment explanation
Indices: 25153405--25153594 Score: 249
Period size: 81 Copynumber: 2.4 Consensus size: 80
25153395 ATGTATGGGG
* * * *
25153405 CTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTAAAAAGCG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGAGTTTTGAAAAAGCG
25153470 CCGCTAATGCTC-AGGT
66 CCGCTAATGCTCTA--T
* * * *
25153486 CTTTAGCGGCGTTTCTT-AAAAAGCGCCGCTAATGCTCAGGGATTTGGCGTAGTTTTGAAGAATC
1 CTTTAGCGGCGTTT-TTGAAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGAGTTTTGAAAAAGC
25153550 GCCGCTAATGCTCTAT
65 GCCGCTAATGCTCTAT
* *
25153566 TTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGC
25153595 AAAAAATATT
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.02
80 25 0.26
81 66 0.69
82 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (80 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGAGTTTTGAAAAAGCG
CCGCTAATGCTCTAT
Found at i:25153932 original size:28 final size:30
Alignment explanation
Indices: 25153894--25153970 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 30
25153884 ATTAATTATC
25153894 ACTATAGTTTAAGGTTTTTGGTTTAGG-G-T
1 ACTAT-GTTTAAGGTTTTTGGTTTAGGAGTT
**
25153923 A-TATGGTTT-AGAGTTTAAGGTTTAGGAGTT
1 ACTAT-GTTTAAG-GTTTTTGGTTTAGGAGTT
25153953 ACTAT-TTTAAGGTTTTTG
1 ACTATGTTTAAGGTTTTTG
25153971 TAGATTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
27 2 0.05
28 19 0.50
29 10 0.26
30 4 0.11
31 3 0.08
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.48
Consensus pattern (30 bp):
ACTATGTTTAAGGTTTTTGGTTTAGGAGTT
Found at i:25154050 original size:20 final size:21
Alignment explanation
Indices: 25154011--25154050 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
25154001 GTTTCTGGAT
*
25154011 ATTTGTTGTTGGTGGTTAGAG
1 ATTTGTTGTTGGTGGATAGAG
*
25154032 ATTT-TTGTTGTTGGATAGA
1 ATTTGTTGTTGGTGGATAGA
25154051 AATGTGTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (21 bp):
ATTTGTTGTTGGTGGATAGAG
Found at i:25154637 original size:21 final size:21
Alignment explanation
Indices: 25154609--25154658 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
25154599 AGGACAGTTA
25154609 TAAGGGTT-GGGGTTTAAGGGT
1 TAAGGGTTAGGGG-TTAAGGGT
*
25154630 TATGGGTTAGGGGTTAAGGGT
1 TAAGGGTTAGGGGTTAAGGGT
25154651 TAAGGGTT
1 TAAGGGTT
25154659 TACGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (21 bp):
TAAGGGTTAGGGGTTAAGGGT
Found at i:25154638 original size:7 final size:7
Alignment explanation
Indices: 25154609--25154658 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
25154599 AGGACAGTTA
25154609 TAAGGGT
1 TAAGGGT
*
25154616 T-GGGGTT
1 TAAGGG-T
25154623 TAAGGGT
1 TAAGGGT
*
25154630 TATGGGT
1 TAAGGGT
*
25154637 TAGGGGT
1 TAAGGGT
25154644 TAAGGGT
1 TAAGGGT
25154651 TAAGGGT
1 TAAGGGT
25154658 T
1 T
25154659 TACGATTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 3 0.08
7 30 0.83
8 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (7 bp):
TAAGGGT
Found at i:25155452 original size:23 final size:23
Alignment explanation
Indices: 25155416--25155461 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
25155406 ATCACTTAAC
25155416 TAAAAATTGTTAGCAGA-CAAAA
1 TAAAAATTGTTAGCAGAGCAAAA
*
25155438 TAAAAGATTTTTAGCAGAGCAAAA
1 TAAAA-ATTGTTAGCAGAGCAAAA
25155462 CAGCGTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 11 0.52
24 5 0.24
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (23 bp):
TAAAAATTGTTAGCAGAGCAAAA
Found at i:25157628 original size:11 final size:11
Alignment explanation
Indices: 25157612--25157636 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25157602 ATTTCGTGGG
25157612 CCCCACTTAAT
1 CCCCACTTAAT
25157623 CCCCACTTAAT
1 CCCCACTTAAT
25157634 CCC
1 CCC
25157637 GTGTTTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (11 bp):
CCCCACTTAAT
Found at i:25158440 original size:2 final size:2
Alignment explanation
Indices: 25158433--25158460 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25158423 TGAAGGGTTC
25158433 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
25158461 TNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25159436 original size:22 final size:22
Alignment explanation
Indices: 25159408--25159560 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
25159398 TGTTGATAGT
*
25159408 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
25159430 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
25159452 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
25159474 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
25159496 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
25159518 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
25159540 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
25159561 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:25164424 original size:15 final size:15
Alignment explanation
Indices: 25164394--25164440 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
25164384 NNNNNNNTTA
25164394 AATTAT-ATAT-TTT
1 AATTATAATATATTT
25164407 AATTATAATATATTT
1 AATTATAATATATTT
*
25164422 AATAATAAT-TATGTT
1 AATTATAATATAT-TT
25164437 AATT
1 AATT
25164441 TATATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 6 0.21
14 7 0.24
15 16 0.55
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
AATTATAATATATTT
Found at i:25164521 original size:59 final size:59
Alignment explanation
Indices: 25164458--25164641 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
25164448 TATAGTATCA
25164458 TATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * * * *
25164517 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATT-ATGTTAATTTA-TATTTTA-TAGTA
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTGA--TT-ATTAAGAATTTTATTA-AA
25164575 T
59 T
25164576 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
25164637 TATAT
1 TATAT
25164642 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 9 0.09
59 19 0.20
60 8 0.08
61 14 0.15
62 9 0.09
63 12 0.13
64 6 0.06
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
Found at i:25164544 original size:15 final size:15
Alignment explanation
Indices: 25164509--25164560 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25164499 TTAAGAATTT
*
25164509 TATTAAATTAT-ATA
1 TATTTAATTATAATA
25164523 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
25164537 TATTTAATAATAAT-
1 TATTTAATTATAATA
25164551 TATGTTAATT
1 TAT-TTAATT
25164561 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:25164604 original size:120 final size:120
Alignment explanation
Indices: 25164391--25164676 Score: 572
Period size: 120 Copynumber: 2.4 Consensus size: 120
25164381 NNNNNNNNNN
25164391 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTAT
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTAT
25164456 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTA
66 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTA
25164511 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTAT
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTAT
25164576 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTA
66 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTA
25164631 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
25164677 TAAATATGAT
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 166 1.00
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTAT
CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTA
Found at i:25164642 original size:61 final size:61
Alignment explanation
Indices: 25164457--25164644 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
25164447 TTATAGTATC
25164457 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
25164518 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
25164577 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
25164638 ATATATT
1 ATATATT
25164645 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:25164659 original size:16 final size:16
Alignment explanation
Indices: 25164638--25164679 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25164628 TTATTAAATT
*
25164638 ATATATTTTAATTATA
1 ATATATTTTAATAATA
25164654 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
25164669 AT-TATGTTTAA
1 ATATAT-TTTAA
25164680 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:25164664 original size:15 final size:15
Alignment explanation
Indices: 25164629--25164670 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25164619 TTAAGAATTT
*
25164629 TATTAAATTAT-ATA
1 TATTTAATTATAATA
25164643 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
25164657 TATTTAATAATAAT
1 TATTTAATTATAAT
25164671 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:25164914 original size:16 final size:16
Alignment explanation
Indices: 25164893--25164946 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
25164883 TTGATTTGCT
25164893 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
25164909 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
25164925 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
25164941 AATACA
1 ATTACA
25164947 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.28, C:0.35, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:25165476 original size:25 final size:25
Alignment explanation
Indices: 25165442--25165509 Score: 136
Period size: 25 Copynumber: 2.7 Consensus size: 25
25165432 TATCAGCCAG
25165442 ATTTATGATTGTTTTCTACTGACTC
1 ATTTATGATTGTTTTCTACTGACTC
25165467 ATTTATGATTGTTTTCTACTGACTC
1 ATTTATGATTGTTTTCTACTGACTC
25165492 ATTTATGATTGTTTTCTA
1 ATTTATGATTGTTTTCTA
25165510 TTTTTATTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.21, C:0.13, G:0.12, T:0.54
Consensus pattern (25 bp):
ATTTATGATTGTTTTCTACTGACTC
Found at i:25166388 original size:42 final size:43
Alignment explanation
Indices: 25166341--25166433 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
25166331 ATTCTTTATA
* *
25166341 GTGGTAGAAGTGTCGCTAAAAGTCATGAT-TTTAGCGACGTTT
1 GTGGTAGAAGCGTCGCTAAAAGTCATGATCTTTAGCAACGTTT
* *
25166383 GTGGTAGAAGCGTCGCTAAAGGTCATGGTCTTTAGCAACGTTT
1 GTGGTAGAAGCGTCGCTAAAAGTCATGATCTTTAGCAACGTTT
25166426 GTGGTAGA
1 GTGGTAGA
25166434 CTATTAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (43 bp):
GTGGTAGAAGCGTCGCTAAAAGTCATGATCTTTAGCAACGTTT
Found at i:25166477 original size:19 final size:20
Alignment explanation
Indices: 25166438--25166477 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
25166428 GGTAGACTAT
25166438 TAATTTTAAATATAGAATTA
1 TAATTTTAAATATAGAATTA
25166458 TAATTTTAAATATA-AATTA
1 TAATTTTAAATATAGAATTA
25166477 T
1 T
25166478 TTGTAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTTTAAATATAGAATTA
Found at i:25177792 original size:28 final size:29
Alignment explanation
Indices: 25177737--25177793 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
25177727 ATTCGATTTT
* *
25177737 GTAATTATTTAGTTTTAAAAAGTTTTGAG
1 GTAATTATTTAGTTCTAAAAAATTTTGAG
25177766 GTAATTATTTAG-TCTAAAAAATTTTGAG
1 GTAATTATTTAGTTCTAAAAAATTTTGAG
25177794 ACTCAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.46
Consensus pattern (29 bp):
GTAATTATTTAGTTCTAAAAAATTTTGAG
Found at i:25179224 original size:3 final size:3
Alignment explanation
Indices: 25179216--25179247 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25179206 AGATGAATTA
25179216 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25179248 GCTTGAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25182246 original size:2 final size:2
Alignment explanation
Indices: 25182239--25182270 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
25182229 NNNNNNNNAG
*
25182239 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25182271 CGTTTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25182570 original size:38 final size:38
Alignment explanation
Indices: 25182497--25182572 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
25182487 CGTATGTACA
*
25182497 AATATAAAAATAATAAAAAAATAATGATGATAATAAAT
1 AATATAAAAATAATAAAAAAATAATGATGAAAATAAAT
* *
25182535 AATATAACAATAAT-AATAAATAATGGGA-GAAAATAAAT
1 AATATAAAAATAATAAAAAAATAAT--GATGAAAATAAAT
25182573 TAAAAAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 9 0.27
38 22 0.67
39 2 0.06
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.25
Consensus pattern (38 bp):
AATATAAAAATAATAAAAAAATAATGATGAAAATAAAT
Found at i:25183771 original size:35 final size:35
Alignment explanation
Indices: 25183717--25184062 Score: 229
Period size: 35 Copynumber: 9.6 Consensus size: 35
25183707 CAATAGAAAG
* *
25183717 TTTTAAAACACGAGAATTTTTTTGAAAACATGAAAAT
1 TTTTGAAACAC-AGAA-TTTTTTGAAAACACGAAAAT
25183754 TTTTGAAACACA-AATTTTTTTTTGAAAACACGAAAAT
1 TTTTGAAACACAGAA---TTTTTTGAAAACACGAAAAT
* * * * * **
25183791 TTTTAAAACACCGAAATTTTTAAAAACGCGAGGAT
1 TTTTGAAACACAGAATTTTTTGAAAACACGAAAAT
* **
25183826 TTTTGAAACAC-GAAATTTTCTTTGAAAACAGGAATTT
1 TTTTGAAACACAG-AA-TTT-TTTGAAAACACGAAAAT
** * *
25183863 TTTTTTATCACCAGAA-ATTTTGAAAACACGAAAAT
1 TTTTGAAACA-CAGAATTTTTTGAAAACACGAAAAT
* * ** *
25183898 TTTTGAAATACAGAAATTTTTGAAAACACGAGGAG
1 TTTTGAAACACAGAATTTTTTGAAAACACGAAAAT
* *
25183933 TTTTGAAACACA-AAATTTTTGAAAACATGAAAAT
1 TTTTGAAACACAGAATTTTTTGAAAACACGAAAAT
* * * *
25183967 TTTT-TATCACCAGAA-CTTTTGAAAGCACGAAAAT
1 TTTTGAAACA-CAGAATTTTTTGAAAACACGAAAAT
*
25184001 TTTTGAAATACGAGAATTTTTTTTTGAAAACACGGAAAATAT
1 TTTTGAAACAC-AGAA---TTTTTTGAAAACAC-G-AAA-AT
*
25184043 TTTTGAAACAC-GATTTTTTT
1 TTTTGAAACACAGAATTTTTT
25184063 AAGAAGTATC
Statistics
Matches: 240, Mismatches: 49, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
33 3 0.01
34 51 0.21
35 83 0.35
36 4 0.02
37 64 0.27
38 5 0.02
39 12 0.05
40 3 0.01
41 3 0.01
42 12 0.05
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (35 bp):
TTTTGAAACACAGAATTTTTTGAAAACACGAAAAT
Found at i:25183774 original size:37 final size:39
Alignment explanation
Indices: 25183717--25183811 Score: 128
Period size: 37 Copynumber: 2.5 Consensus size: 39
25183707 CAATAGAAAG
*
25183717 TTTTAAAACA-CGAGAA--TTTTTTTGAAAACATGAAAAT
1 TTTTAAAACACCGA-AATTTTTTTTTGAAAACACGAAAAT
*
25183754 TTTTGAAACA-C-AAATTTTTTTTTGAAAACACGAAAAT
1 TTTTAAAACACCGAAATTTTTTTTTGAAAACACGAAAAT
25183791 TTTTAAAACACCGAAATTTTT
1 TTTTAAAACACCGAAATTTTT
25183812 AAAAACGCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
35 2 0.04
36 1 0.02
37 39 0.76
38 1 0.02
39 8 0.16
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (39 bp):
TTTTAAAACACCGAAATTTTTTTTTGAAAACACGAAAAT
Found at i:25183793 original size:17 final size:17
Alignment explanation
Indices: 25183773--25183969 Score: 105
Period size: 18 Copynumber: 11.2 Consensus size: 17
25183763 ACAAATTTTT
25183773 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* *
25183790 TTTTTAAAACACCGAAAT
1 TTTTGAAAACA-CGAAAA
* * * *
25183808 TTTTAAAAACGCGAGGAT
1 TTTTGAAAACACGA-AAA
*
25183826 TTTTG-AAACACGAAATTT
1 TTTTGAAAACACGAAA--A
* **
25183844 TCTTTGAAAACAGGAATT
1 T-TTTGAAAACACGAAAA
*** * *
25183862 TTTTTTTATCACCAGAAA
1 TTTTGAAAACACGA-AAA
25183880 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
*
25183897 TTTTTGAAATACA-GAAAT
1 -TTTTGAAA-ACACGAAAA
* *
25183915 TTTTGAAAACACGAGGAG
1 TTTTGAAAACACGA-AAA
25183933 TTTTG-AAACAC-AAAA
1 TTTTGAAAACACGAAAA
*
25183948 TTTTTGAAAACATGAAAA
1 -TTTTGAAAACACGAAAA
25183966 TTTT
1 TTTT
25183970 TTATCACCAG
Statistics
Matches: 137, Mismatches: 29, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
15 1 0.01
16 10 0.07
17 55 0.40
18 56 0.41
19 7 0.05
20 8 0.06
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:25183866 original size:72 final size:72
Alignment explanation
Indices: 25183717--25183970 Score: 207
Period size: 72 Copynumber: 3.5 Consensus size: 72
25183707 CAATAGAAAG
* * * * *
25183717 TTTTAAAACACGAGAATTTTTTTGAAAACATGAAAATTTTTGAAACAC-AAATTTTTTTTTGAAA
1 TTTTAAAACACCAGAA--ATTTTAAAAACACGAAAATTTTTGAAACACGAAA-TTTTCTTTGAAA
25183781 ACACGAAAAT
63 ACACGAAAAT
* **
25183791 TTTTAAAACACC-GAAATTTTTAAAAACGCGAGGATTTTTGAAACACGAAATTTTCTTTGAAAAC
1 TTTTAAAACACCAGAAA-TTTTAAAAACACGAAAATTTTTGAAACACGAAATTTTCTTTGAAAAC
* **
25183855 AGGAATTT
65 ACGAAAAT
** * * *
25183863 TTTTTTATCACCAGAAATTTTGAAAACACGAAAATTTTTGAAATACAGAAA--TT-TTTGAAAAC
1 TTTTAAAACACCAGAAATTTTAAAAACACGAAAATTTTTGAAACAC-GAAATTTTCTTTGAAAAC
** *
25183925 ACGAGGAG
65 ACGAAAAT
* * *
25183933 TTTTGAAACA-CA-AAATTTTTGAAAACATGAAAATTTTT
1 TTTTAAAACACCAGAAA-TTTTAAAAACACGAAAATTTTT
25183971 TATCACCAGA
Statistics
Matches: 147, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
68 3 0.02
69 23 0.16
70 19 0.13
71 2 0.01
72 75 0.51
73 14 0.10
74 11 0.07
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (72 bp):
TTTTAAAACACCAGAAATTTTAAAAACACGAAAATTTTTGAAACACGAAATTTTCTTTGAAAACA
CGAAAAT
Found at i:25184006 original size:18 final size:18
Alignment explanation
Indices: 25183717--25184021 Score: 172
Period size: 17 Copynumber: 17.2 Consensus size: 18
25183707 CAATAGAAAG
*
25183717 TTTT-AAAACACGAGAATTT
1 TTTTGAAAACACGA-AA-AT
*
25183736 TTTTGAAAACATGAAAAT
1 TTTTGAAAACACGAAAAT
*
25183754 TTTTG-AAACAC-AAATTTTT
1 TTTTGAAAACACGAAA---AT
25183773 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
25183791 TTTT-AAAACACCG-AAAT
1 TTTTGAAAACA-CGAAAAT
* * **
25183808 TTTTAAAAACGCGAGGAT
1 TTTTGAAAACACGAAAAT
*
25183826 TTTTG-AAACACGAAATTT
1 TTTTGAAAACACGAAA-AT
* *
25183844 TCTTTGAAAACA-GGAATT
1 T-TTTGAAAACACGAAAAT
*** * *
25183862 TTTTTTTATCACCAGAAA-
1 TTTTGAAAACACGA-AAAT
25183880 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
25183898 TTTTGAAATACA-G-AAAT
1 TTTTGAAA-ACACGAAAAT
** *
25183915 TTTTGAAAACACGAGGAG
1 TTTTGAAAACACGAAAAT
25183933 TTTTG-AAACAC-AAAAT
1 TTTTGAAAACACGAAAAT
*
25183949 TTTTGAAAACATGAAAAT
1 TTTTGAAAACACGAAAAT
* * * * *
25183967 TTTT--TATCACCAGAAC
1 TTTTGAAAACACGAAAAT
*
25183983 TTTTGAAAGCACGAAAAT
1 TTTTGAAAACACGAAAAT
* *
25184001 TTTTG-AAATACGAGAAT
1 TTTTGAAAACACGAAAAT
25184018 TTTT
1 TTTT
25184022 TTTTGAAAAC
Statistics
Matches: 217, Mismatches: 47, Indels: 46
0.70 0.15 0.15
Matches are distributed among these distances:
16 23 0.11
17 74 0.34
18 74 0.34
19 24 0.11
20 19 0.09
21 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:25184051 original size:20 final size:20
Alignment explanation
Indices: 25183983--25184054 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
25183973 TCACCAGAAC
25183983 TTTTGAAAGCAC-G-AAA-AT
1 TTTTGAAA-CACGGAAAATAT
* ** *
25184001 TTTTGAAATACGAGAATTTTT
1 TTTTGAAACACG-GAAAATAT
25184022 TTTTGAAAACACGGAAAATAT
1 TTTTG-AAACACGGAAAATAT
25184043 TTTTGAAACACG
1 TTTTGAAACACG
25184055 ATTTTTTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
17 2 0.05
18 8 0.20
19 1 0.02
20 8 0.20
21 16 0.39
22 6 0.15
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (20 bp):
TTTTGAAACACGGAAAATAT
Found at i:25184353 original size:16 final size:16
Alignment explanation
Indices: 25184332--25184369 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
25184322 TTAAAATTAT
25184332 TTAAAA-TAAATTAAAA
1 TTAAAATTAAATT-AAA
*
25184348 TTAAAATTGAATTAAA
1 TTAAAATTAAATTAAA
25184364 TTAAAA
1 TTAAAA
25184370 ATATAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
TTAAAATTAAATTAAA
Found at i:25184395 original size:16 final size:14
Alignment explanation
Indices: 25184366--25184428 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
25184356 GAATTAAATT
25184366 AAAAATATAAATAC
1 AAAAATATAAATAC
25184380 AAAAATATAAA-A-
1 AAAAATATAAATAC
* *
25184392 ATACATA-AAATAC
1 AAAAATATAAATAC
*
25184405 TAATAATATTAAA-AC
1 -AAAAATA-TAAATAC
25184420 AAAAATATA
1 AAAAATATA
25184429 TAAAAATACG
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
11 3 0.08
12 6 0.16
13 3 0.08
14 21 0.55
15 2 0.05
16 3 0.08
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATATAAATAC
Found at i:25184552 original size:19 final size:19
Alignment explanation
Indices: 25184525--25184575 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
25184515 AAATTAAACC
25184525 TTTTTTTTCTT-TTTTCCT
1 TTTTTTTTCTTCTTTTCCT
*
25184543 TTTTTATTTCTTCTTTTTCT
1 TTTTT-TTTCTTCTTTTCCT
25184563 TTTCTTTTT-TTCT
1 TTT-TTTTTCTTCT
25184576 CTCTGCTGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 12 0.41
21 2 0.07
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTTTCTTCTTTTCCT
Found at i:25184826 original size:21 final size:22
Alignment explanation
Indices: 25184781--25184833 Score: 74
Period size: 21 Copynumber: 2.4 Consensus size: 22
25184771 GGCTGCTGCT
25184781 GGGTCGGGTTGGGTCACCTGATC
1 GGGTCGGGTTGGG-CACCTGATC
25184804 GGGTCGGGTT-GG-ACCTGGATC
1 GGGTCGGGTTGGGCACCT-GATC
25184825 GGGTCGGGT
1 GGGTCGGGT
25184834 CGGCCTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.14
21 13 0.45
22 2 0.07
23 10 0.34
ACGTcount: A:0.08, C:0.19, G:0.49, T:0.25
Consensus pattern (22 bp):
GGGTCGGGTTGGGCACCTGATC
Found at i:25184868 original size:6 final size:6
Alignment explanation
Indices: 25184857--25184900 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
25184847 TTAAAAAAAA
25184857 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
25184901 TCTTCTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTCTTT
Found at i:25184907 original size:34 final size:33
Alignment explanation
Indices: 25184869--25184958 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 33
25184859 CTTTTTCTTT
* *
25184869 TTCTTTTTCTTTTTCTTTTTCTTTTTCTTTTTTC
1 TTCTTTTTCTTTTTCTTTTT-TTTTTCTTGTTCC
** *
25184903 TTCTTTTTTCTTTCCCTATTTTTTTTCTTGTTCC
1 TTC-TTTTTCTTTTTCTTTTTTTTTTCTTGTTCC
* *
25184937 TTCTTCCTTCTTCTTCTTTTTT
1 TTCTT-TTTCTTTTTCTTTTTT
25184959 CTTCTCCTTC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
33 2 0.05
34 28 0.64
35 14 0.32
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.76
Consensus pattern (33 bp):
TTCTTTTTCTTTTTCTTTTTTTTTTCTTGTTCC
Found at i:25185737 original size:5 final size:5
Alignment explanation
Indices: 25185727--25185766 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
25185717 TTTAACATAT
*
25185727 ATAAA ATAAA ATAAG ATAAA AT-AA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
25185767 ACACGAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:25185754 original size:19 final size:19
Alignment explanation
Indices: 25185730--25185766 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25185720 AACATATATA
*
25185730 AAATAAAATAAGATAAAAT
1 AAATAAAATAAAATAAAAT
25185749 AAATAAAATAAAATAAAA
1 AAATAAAATAAAATAAAA
25185767 ACACGAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (19 bp):
AAATAAAATAAAATAAAAT
Found at i:25186034 original size:78 final size:78
Alignment explanation
Indices: 25185940--25186515 Score: 794
Period size: 78 Copynumber: 7.5 Consensus size: 78
25185930 GCGACTCAAA
*
25185940 GCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACCTCA
* *
25186005 GCATGTG-TCCGAG
65 GCATGCGACCCGAG
*
25186018 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTG-AAAAC---AATTT---AAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAAAATACCTCA
*
25186076 GC--GTGACCCGAG
65 GCATGCGACCCGAG
25186088 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAAAACAGAAATTTAAAAAAATACCTC
*
25186153 AGCGTGCGACCCGAG
64 AGCATGCGACCCGAG
* * * *
25186168 GCTCAACTCACCTCCCGCAATATGAGTTGATTTTCGAATAACAGAAA-TT-GAAAAATACCTC-G
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCTCAG
* * * *
25186230 -ACGTGACTCTAG
66 CATGCGACCCGAG
25186242 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTTAAAAGAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACCTCA
25186306 GCATGCGACCCGAG
65 GCATGCGACCCGAG
*
25186320 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTT---AAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAAAATACCTCA
*
25186382 GCGTGCGACCCGAG
65 GCATGCGACCCGAG
25186396 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTTAAAAGAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACCTCA
* *
25186460 GCGTGCGAACCGAG
65 GCATGCGACCCGAG
25186474 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
25186516 NNNNNNNNNN
Statistics
Matches: 447, Mismatches: 26, Indels: 49
0.86 0.05 0.09
Matches are distributed among these distances:
69 9 0.02
70 34 0.08
71 12 0.03
72 6 0.01
73 9 0.02
74 56 0.13
75 19 0.04
76 72 0.16
77 5 0.01
78 152 0.34
79 17 0.04
80 56 0.13
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (78 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCTCAG
CATGCGACCCGAG
Found at i:25186276 original size:154 final size:151
Alignment explanation
Indices: 25185940--25186513 Score: 885
Period size: 154 Copynumber: 3.8 Consensus size: 151
25185930 GCGACTCAAA
*
25185940 GCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTTAAAAGAAATACCTCA
* * *
25186005 GCATGTG-TCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAAAC---AATTTA
65 GCATGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTTA
25186066 AAATACCTCAGCGTGACCCGAG
130 AAATACCTCAGCGTGACCCGAG
25186088 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAA-AAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG---AAAACAGAAATTTAAAAGAAATACCT
* * *
25186152 CAGCGTGCGACCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA-TTTTCGAATAACAGAAAT
63 CAGCATGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAAT
* * *
25186216 TGAAAAATACCTC-GACGTGACTCTAG
127 T-TAAAATACCTCAG-CGTGACCCGAG
25186242 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCAG
*
25186307 CATGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTA
66 CATGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTTA
25186372 AAATACCTCAGCGTGCGACCCGAG
130 AAATACCTCAGCGT--GACCCGAG
25186396 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCAG
* *
25186461 CGTGCGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAA
66 CATGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
25186514 ACNNNNNNNN
Statistics
Matches: 391, Mismatches: 20, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
148 35 0.09
149 22 0.06
150 54 0.14
151 17 0.04
152 68 0.17
153 27 0.07
154 168 0.43
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (151 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCAG
CATGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTTAA
AATACCTCAGCGTGACCCGAG
Found at i:25186377 original size:228 final size:219
Alignment explanation
Indices: 25185900--25186513 Score: 813
Period size: 228 Copynumber: 2.7 Consensus size: 219
25185890 CTTTTTATTC
** * * * * * * *
25185900 GAAAAACAGAAATCGAGAATAGCTCGGCGTGCGACTCAAAGCTCAACTCACCTCTCGAAATATGA
1 GAAAAACAGAAATTTAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
25185965 GTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCATGTGTCCGAGGCTCAACTCACT
66 GTTGATTTTTG-AAAACAGAAATTTAAAAGAAATACCTC-G-ACGTGACCGAGGCTCAACTCACC
*
25186030 TCTCGCAATATGAGTTGATTTTTTGAAAACAATTTAAAATACCTCAGCGTGACCCGAGGCTCAAC
128 TCTCGCAATATGAGTTGA-TTTTTGAAAACAATTTAAAATACCTCAGCGCGACCCGAGGCTCAAC
25186095 TCACCTCTCGCAATATGAGTTGATTTTT
192 TCACCTCTCGCAATATGAGTTGATTTTT
*
25186123 GAAAAAAACAGAAATTTAAAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCCCGCAA
1 G--AAAAACAGAAATTT---AAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAA
* * *
25186188 TATGAGTTGATTTTCGAATAACAGAAA-TT-GAA-AAATACCTCGACGTGACTCTAGGCTCAACT
61 TATGAGTTGATTTTTGAA-AACAGAAATTTAAAAGAAATACCTCGACGTGAC-CGAGGCTCAACT
25186250 CACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCAGCATGCGAC
124 CACCTCTCGCAATATGAGTTGATTTTTGAAAAC---AATTT---A-AAATACCTCAGC--GCGAC
*
25186315 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
180 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
25186356 GAAAAACAGAAATTTAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 GAAAAACAGAAATTTAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
25186421 GTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTC-AGCGTGCGAACCGAGGCTCAACTCAC
66 GTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCGA-CGT--G-ACCGAGGCTCAACTCAC
25186485 CTCTCGCAATATGAGTTGATTTTTGAAAA
127 CTCTCGCAATATGAGTTGATTTTTGAAAA
25186514 ACNNNNNNNN
Statistics
Matches: 345, Mismatches: 22, Indels: 39
0.85 0.05 0.10
Matches are distributed among these distances:
223 17 0.05
224 33 0.10
225 21 0.06
226 7 0.02
227 12 0.03
228 123 0.36
229 4 0.01
230 24 0.07
231 14 0.04
232 82 0.24
233 8 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (219 bp):
GAAAAACAGAAATTTAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCGACGTGACCGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGAAAACAATTTAAAATACCTCAGCGCGACCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTT
Found at i:25187583 original size:7 final size:7
Alignment explanation
Indices: 25187573--25187616 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 7
25187563 TTTTTATATT
25187573 TTTTTTG
1 TTTTTTG
25187580 TTTTTTG
1 TTTTTTG
*
25187587 TTTTTTTT
1 -TTTTTTG
25187595 TGTTTTTG
1 T-TTTTTG
25187603 TTTTTGTG
1 TTTTT-TG
25187611 TTTTTT
1 TTTTTT
25187617 TTAAGGCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 13 0.41
8 19 0.59
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (7 bp):
TTTTTTG
Found at i:25187590 original size:6 final size:6
Alignment explanation
Indices: 25187574--25187618 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
25187564 TTTTATATTT
*
25187574 TTTTTG TTTTT- TGTTTT- TTTTTG TTTTTG TTTTTG TGTTT- TTTTT
1 TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
25187619 AAGGCATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:25187590 original size:16 final size:16
Alignment explanation
Indices: 25187571--25187616 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
25187561 TTTTTTTATA
25187571 TTTTTTTTGTTTTTTG
1 TTTTTTTTGTTTTTTG
25187587 TTTTTTTT-TGTTTTTG
1 TTTTTTTTGT-TTTTTG
*
25187603 -TTTTTGTGTTTTTT
1 TTTTTTTTGTTTTTT
25187617 TTAAGGCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTTTTGTTTTTTG
Found at i:25187600 original size:24 final size:24
Alignment explanation
Indices: 25187574--25187618 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
25187564 TTTTATATTT
25187574 TTTTTGTTTTT-TGTTTTTTTTTG
1 TTTTTGTTTTTGTGTTTTTTTTTG
25187597 TTTTTGTTTTTGTGTTTTTTTT
1 TTTTTGTTTTTGTGTTTTTTTT
25187619 AAGGCATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (24 bp):
TTTTTGTTTTTGTGTTTTTTTTTG
Found at i:25187607 original size:17 final size:17
Alignment explanation
Indices: 25187571--25187607 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
25187561 TTTTTTTATA
25187571 TTTTTTTTGTTTTTTGT
1 TTTTTTTTGTTTTTTGT
25187588 TTTTTTTTG-TTTTTGT
1 TTTTTTTTGTTTTTTGT
25187604 TTTT
1 TTTT
25187608 GTGTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTGT
Found at i:25188997 original size:122 final size:122
Alignment explanation
Indices: 25188780--25189024 Score: 490
Period size: 122 Copynumber: 2.0 Consensus size: 122
25188770 TCCAATCGCT
25188780 ATTCTCCTGATTGTTCTTTTATCATTCTCGTTTGCTTGCTCGGGGTACCTTTGATTCTTGATATA
1 ATTCTCCTGATTGTTCTTTTATCATTCTCGTTTGCTTGCTCGGGGTACCTTTGATTCTTGATATA
25188845 CTCCAAGATATCATGGAACCATGGTCGTCGATCTGACTCCTCCTCAATACTAAAACC
66 CTCCAAGATATCATGGAACCATGGTCGTCGATCTGACTCCTCCTCAATACTAAAACC
25188902 ATTCTCCTGATTGTTCTTTTATCATTCTCGTTTGCTTGCTCGGGGTACCTTTGATTCTTGATATA
1 ATTCTCCTGATTGTTCTTTTATCATTCTCGTTTGCTTGCTCGGGGTACCTTTGATTCTTGATATA
25188967 CTCCAAGATATCATGGAACCATGGTCGTCGATCTGACTCCTCCTCAATACTAAAACC
66 CTCCAAGATATCATGGAACCATGGTCGTCGATCTGACTCCTCCTCAATACTAAAACC
25189024 A
1 A
25189025 GTGTGCAGGG
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (122 bp):
ATTCTCCTGATTGTTCTTTTATCATTCTCGTTTGCTTGCTCGGGGTACCTTTGATTCTTGATATA
CTCCAAGATATCATGGAACCATGGTCGTCGATCTGACTCCTCCTCAATACTAAAACC
Found at i:25191696 original size:4 final size:4
Alignment explanation
Indices: 25191682--25191718 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
25191672 ATGTACATGC
* *
25191682 AATG CATG AATG AATG AATA AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG A
25191719 CAAGTGAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.22, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:25193463 original size:17 final size:17
Alignment explanation
Indices: 25193443--25193820 Score: 56
Period size: 17 Copynumber: 21.4 Consensus size: 17
25193433 AAACGAATGT
25193443 TTTTTTAAACACGAGAA
1 TTTTTTAAACACGAGAA
** * *
25193460 TTTTAGAGACACGAAAA
1 TTTTTTAAACACGAGAA
**
25193477 TTCTTAAAAAACACGA-AA
1 TT-TT-TTAAACACGAGAA
* * *
25193495 ATTTTTAAAAACATAGAAA
1 TTTTTTAAACAC-GAG-AA
*
25193514 TTTTTAAAACACGAGAA
1 TTTTTTAAACACGAGAA
* *
25193531 TTTTTTTTGAAAACATGAAAA
1 --TTTTTT--AAACACGAGAA
* * ***
25193552 TTTTTGAAACACAATTTT
1 TTTTTTAAACACGA-GAA
*
25193570 TTTTTTGAAAACACGAAAA
1 TTTTTT--AAACACGAGAA
*
25193589 TTTTTAAAACACCGA-AA
1 TTTTTTAAACA-CGAGAA
* *
25193606 -TTTTTAAAAACGTGAAGA
1 TTTTTTAAACACGAG-A-A
*
25193624 TTTTTGAAACACGA-AA
1 TTTTTTAAACACGAGAA
25193640 TTTTCTTTGAAA-AC-AGGAA
1 -TTT-TTT-AAACACGA-GAA
* * *
25193659 TTTTTTTTATCACCAGAAA
1 -TTTTTTAAACACGAG-AA
** *
25193678 TTTTGAAAACACGAAAA
1 TTTTTTAAACACGAGAA
*
25193695 TTTTTGAAATTC-CG-GAA
1 TTTTTTAAA--CACGAGAA
* * **
25193712 TTTTTGAAAACTCGAGGG
1 TTTTT-TAAACACGAGAA
* *
25193730 TTTTTGAAACAC-AAAA
1 TTTTTTAAACACGAGAA
*
25193746 TTTTTGAAAACACGA-AA
1 TTTTT-TAAACACGAGAA
* * *
25193763 TTTTTTTATCACCAGAA
1 TTTTTTAAACACGAGAA
* * * *
25193780 ATTCTGAAAGCACGAAAA
1 TTTTTTAAA-CACGAGAA
* *
25193798 TTTTTGAAATACGAGAA
1 TTTTTTAAACACGAGAA
25193815 TTTTTT
1 TTTTTT
25193821 TTTGAAAACA
Statistics
Matches: 254, Mismatches: 73, Indels: 68
0.64 0.18 0.17
Matches are distributed among these distances:
15 2 0.01
16 26 0.10
17 93 0.37
18 60 0.24
19 57 0.22
20 7 0.03
21 9 0.04
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (17 bp):
TTTTTTAAACACGAGAA
Found at i:25193463 original size:18 final size:18
Alignment explanation
Indices: 25193442--25193768 Score: 101
Period size: 17 Copynumber: 18.3 Consensus size: 18
25193432 AAAACGAATG
*
25193442 TTTTTTTAAACACGAGAA
1 TTTTTTAAAACACGAGAA
* *
25193460 --TTTTAGAGACACGAAAA
1 TTTTTTA-AAACACGAGAA
** *
25193477 TTCTTAAAAAACACGAAAA
1 TT-TTTTAAAACACGAGAA
* *
25193496 TTTTTAAAAACA-TAGAA
1 TTTTTTAAAACACGAGAA
*
25193513 ATTTTTAAAACACGAGAA
1 TTTTTTAAAACACGAGAA
*
25193531 TTTTTTTTGAAAACATGA-AA
1 --TTTTTT-AAAACACGAGAA
* * * ***
25193551 ATTTTTGAAACACAATTTT
1 TTTTTTAAAACACGA-GAA
25193570 TTTTTTGAAAACACGA-AA
1 TTTTTT-AAAACACGAGAA
*
25193588 ATTTTTAAAACACCGA-AA
1 TTTTTTAAAACA-CGAGAA
*
25193606 -TTTTTAAAA-ACGTGAA
1 TTTTTTAAAACACGAGAA
* *
25193622 GATTTTTGAAACACGA-AA
1 -TTTTTTAAAACACGAGAA
25193640 TTTTCTTTGAAAACA-G-GAA
1 -TTT-TTT-AAAACACGAGAA
** * *
25193659 TTTTTTTTATCACCAGAA
1 TTTTTTAAAACACGAGAA
* * *
25193677 ATTTTGAAAACACGAAAA
1 TTTTTTAAAACACGAGAA
* *
25193695 TTTTTGAAATTC-CG-GAA
1 TTTTTTAAA-ACACGAGAA
* * *
25193712 TTTTTGAAAACTCGAG-G
1 TTTTTTAAAACACGAGAA
* * *
25193729 GTTTTTGAAACAC-AAAA
1 TTTTTTAAAACACGAGAA
*
25193746 TTTTTGAAAACACGA-AA
1 TTTTTTAAAACACGAGAA
25193763 TTTTTT
1 TTTTTT
25193769 TATCACCAGA
Statistics
Matches: 225, Mismatches: 58, Indels: 53
0.67 0.17 0.16
Matches are distributed among these distances:
15 2 0.01
16 12 0.05
17 85 0.38
18 69 0.31
19 27 0.12
20 22 0.10
21 8 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (18 bp):
TTTTTTAAAACACGAGAA
Found at i:25193492 original size:19 final size:19
Alignment explanation
Indices: 25193468--25193505 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25193458 AATTTTAGAG
25193468 ACACGAAAATTCTTAAAAA
1 ACACGAAAATTCTTAAAAA
*
25193487 ACACGAAAATTTTTAAAAA
1 ACACGAAAATTCTTAAAAA
25193506 CATAGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (19 bp):
ACACGAAAATTCTTAAAAA
Found at i:25193513 original size:19 final size:18
Alignment explanation
Indices: 25193472--25193616 Score: 71
Period size: 18 Copynumber: 7.9 Consensus size: 18
25193462 TTAGAGACAC
* *
25193472 GAAAATTCTTAAAAAACAC
1 GAAAATT-TTTAAAAACAA
25193491 GAAAATTTTTAAAAACATA
1 GAAAATTTTTAAAAACA-A
*
25193510 G-AAATTTTTAAAACACGA
1 GAAAATTTTTAAAA-ACAA
** * *
25193528 GAATTTTTTTTGAAAACAT
1 GAA-AATTTTTAAAAACAA
*
25193547 GAAAATTTTTGAAACACAA
1 GAAAATTTTT-AAAAACAA
***** * *
25193566 TTTTTTTTTTGAAAACAC
1 GAAAATTTTTAAAAACAA
*
25193584 GAAAATTTTT-AAAACACC
1 GAAAATTTTTAAAAACA-A
25193602 G-AAATTTTTAAAAAC
1 GAAAATTTTTAAAAAC
25193617 GTGAAGATTT
Statistics
Matches: 93, Mismatches: 26, Indels: 15
0.69 0.19 0.11
Matches are distributed among these distances:
17 14 0.15
18 45 0.48
19 26 0.28
20 8 0.09
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (18 bp):
GAAAATTTTTAAAAACAA
Found at i:25193537 original size:37 final size:36
Alignment explanation
Indices: 25193484--25193654 Score: 163
Period size: 37 Copynumber: 4.7 Consensus size: 36
25193474 AAATTCTTAA
* *
25193484 AAAACACGAAA-ATTTTTAAAAACAT-AGAAATTTTT
1 AAAACACGAAATTTTTTTGAAAACATGA-AAATTTTT
25193519 AAAACACGAGAATTTTTTTTGAAAACATGAAAATTTTT
1 AAAACACGA-AA-TTTTTTTGAAAACATGAAAATTTTT
* * *
25193557 GAAACAC-AATTTTTTTTTTGAAAACACGAAAATTTTT
1 AAAACACGAA--ATTTTTTTGAAAACATGAAAATTTTT
* * *
25193594 AAAACACCGAAA--TTTTTAAAAACGTGAAGATTTTT
1 AAAACA-CGAAATTTTTTTGAAAACATGAAAATTTTT
*
25193629 GAAACACGAAATTTTCTTTGAAAACA
1 AAAACACGAAATTTT-TTTGAAAACA
25193655 GGAATTTTTT
Statistics
Matches: 111, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
34 5 0.05
35 33 0.30
36 5 0.05
37 38 0.34
38 27 0.24
39 3 0.03
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (36 bp):
AAAACACGAAATTTTTTTGAAAACATGAAAATTTTT
Found at i:25193665 original size:72 final size:71
Alignment explanation
Indices: 25193511--25193703 Score: 185
Period size: 72 Copynumber: 2.6 Consensus size: 71
25193501 AAAAACATAG
* * * * *
25193511 AAATTTTTAAAACACGAGAATTTTTTTTGAAAACATGAAAATTTTTGAAACACAATTTTTTTTTT
1 AAATTTTT-AAACACCAGAA--ATTTTTAAAAAC-TGAAAATTTTTGAAACACAATATTTTCTTT
25193576 GAAAACACGA
62 GAAAACACGA
*
25193586 AAATTTTTAAAACACC-GAAATTTTTAAAAACGTGAAGATTTTTGAAACACGAA-ATTTTCTTTG
1 AAATTTTT-AAACACCAGAAATTTTTAAAAAC-TGAAAATTTTTGAAACAC-AATATTTTCTTTG
*
25193649 AAAACAGGA
63 AAAACACGA
** * * *
25193658 ATTTTTTTTATCACCAGAAATTTTGAAAACAC-GAAAATTTTTGAAA
1 AAATTTTTAAACACCAGAAATTTTTAAAA-ACTGAAAATTTTTGAAA
25193704 TTCCGGAATT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
71 18 0.18
72 61 0.60
73 4 0.04
74 3 0.03
75 15 0.15
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (71 bp):
AAATTTTTAAACACCAGAAATTTTTAAAAACTGAAAATTTTTGAAACACAATATTTTCTTTGAAA
ACACGA
Found at i:25193699 original size:34 final size:34
Alignment explanation
Indices: 25193645--25193802 Score: 115
Period size: 34 Copynumber: 4.6 Consensus size: 34
25193635 CGAAATTTTC
* **
25193645 TTTGAAAACAGGAATTTTTTTTATCACCAGAAAT
1 TTTGAAAACACGAAAATTTTTTATCACCAGAAAT
* * * *
25193679 TTTGAAAACACGAAAATTTTTGAAAT-TCCGGAATT
1 TTTGAAAACACGAAAATTTTT--TATCACCAGAAAT
* *** * *
25193714 TTTGAAAACTCGAGGGTTTTTGA-AACACA-AAATT
1 TTTGAAAACACGAAAATTTTTTATCAC-CAGAAA-T
*
25193748 TTTGAAAACACGAAATTTTTTTATCACCAGAAAT
1 TTTGAAAACACGAAAATTTTTTATCACCAGAAAT
* *
25193782 TCTGAAAGCACGAAAATTTTT
1 TTTGAAAACACGAAAATTTTT
25193803 GAAATACGAG
Statistics
Matches: 93, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
33 4 0.04
34 59 0.63
35 28 0.30
36 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (34 bp):
TTTGAAAACACGAAAATTTTTTATCACCAGAAAT
Found at i:25193824 original size:21 final size:21
Alignment explanation
Indices: 25193798--25193853 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
25193788 AGCACGAAAA
* **
25193798 TTTTTGAAATACGAGAATTTT
1 TTTTTGAAACACGAGAAAATT
25193819 TTTTTGAAAACACG-GAAAATT
1 TTTTTG-AAACACGAGAAAATT
25193840 TTTTTGAAACACGA
1 TTTTTGAAACACGA
25193854 TTTTTTTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 7 0.23
21 17 0.57
22 6 0.20
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
TTTTTGAAACACGAGAAAATT
Found at i:25194349 original size:13 final size:12
Alignment explanation
Indices: 25194337--25194382 Score: 60
Period size: 11 Copynumber: 3.8 Consensus size: 12
25194327 TTCTTTTTTC
25194337 CTTTTTTTCTTT
1 CTTTTTTTCTTT
25194349 C-TTTTTT-TTT
1 CTTTTTTTCTTT
25194359 CTTCTTTTTCTTTT
1 CTT-TTTTTC-TTT
25194373 CTTTTTTTCT
1 CTTTTTTTCT
25194383 CTCTGCTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 4 0.13
11 7 0.23
12 7 0.23
13 6 0.20
14 6 0.20
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
CTTTTTTTCTTT
Found at i:25194355 original size:14 final size:14
Alignment explanation
Indices: 25194319--25194380 Score: 74
Period size: 14 Copynumber: 4.4 Consensus size: 14
25194309 CAAATTAAAC
25194319 CTTTTTTTTTCTTT
1 CTTTTTTTTTCTTT
*
25194333 TTTCCTTTTTTTCTTT
1 CTT--TTTTTTTCTTT
25194349 CTTTTTTTTTC-TT
1 CTTTTTTTTTCTTT
25194362 CTTTTTCTTTTCTTT
1 CTTTTT-TTTTCTTT
25194377 -TTTT
1 CTTTT
25194381 CTCTCTGCTG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
13 8 0.19
14 19 0.45
15 2 0.05
16 13 0.31
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
CTTTTTTTTTCTTT
Found at i:25194366 original size:23 final size:23
Alignment explanation
Indices: 25194330--25194380 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
25194320 TTTTTTTTTC
25194330 TTTTTTCCTTTTTTTC-TTTCTT
1 TTTTTTCCTTTTTTTCTTTTCTT
*
25194352 TTTTTTTCTTCTTTTTCTTTTCTT
1 TTTTTTCCTT-TTTTTCTTTTCTT
25194376 TTTTT
1 TTTTT
25194381 CTCTCTGCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 9 0.35
23 6 0.23
24 11 0.42
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTCCTTTTTTTCTTTTCTT
Found at i:25194366 original size:24 final size:23
Alignment explanation
Indices: 25194321--25194380 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
25194311 AATTAAACCT
*
25194321 TTTTTTTTCTTTTTTCCTTTTTT-
1 TTTTCTTT-TTTTTTCCTTTTTTC
*
25194344 TCTTTCTTTTTTTTTCTTCTTTTTC
1 T-TTTCTTTTTTTTTCCT-TTTTTC
25194369 TTTTCTTTTTTT
1 TTTTCTTTTTTT
25194381 CTCTCTGCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 9 0.28
24 22 0.69
25 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (23 bp):
TTTTCTTTTTTTTTCCTTTTTTC
Found at i:25194377 original size:19 final size:19
Alignment explanation
Indices: 25194346--25194382 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25194336 CCTTTTTTTC
*
25194346 TTTCTTTTTTTTTCTTCTT
1 TTTCTTTTCTTTTCTTCTT
*
25194365 TTTCTTTTCTTTTTTTCT
1 TTTCTTTTCTTTTCTTCT
25194383 CTCTGCTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTCTTTTCTTTTCTTCTT
Found at i:25194629 original size:21 final size:23
Alignment explanation
Indices: 25194589--25194641 Score: 92
Period size: 21 Copynumber: 2.4 Consensus size: 23
25194579 GGCTGCTGCT
25194589 GGGTCGGGTTGGGTAACCGGATC
1 GGGTCGGGTTGGGTAACCGGATC
25194612 GGGTCGGGTT-GG-AACCGGATC
1 GGGTCGGGTTGGGTAACCGGATC
25194633 GGGTCGGGT
1 GGGTCGGGT
25194642 CGGCCCGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 18 0.60
22 2 0.07
23 10 0.33
ACGTcount: A:0.11, C:0.17, G:0.51, T:0.21
Consensus pattern (23 bp):
GGGTCGGGTTGGGTAACCGGATC
Found at i:25194868 original size:16 final size:16
Alignment explanation
Indices: 25194842--25194880 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
25194832 CTTTCTTCTA
* *
25194842 TTTTTTC-CTTGGTTT
1 TTTTTTCTCTTGCTGT
25194857 TTTTTTCTCTTGCTGT
1 TTTTTTCTCTTGCTGT
25194873 TTTTTTCT
1 TTTTTTCT
25194881 TTTCTTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.74
Consensus pattern (16 bp):
TTTTTTCTCTTGCTGT
Found at i:25195530 original size:5 final size:5
Alignment explanation
Indices: 25195520--25195559 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
25195510 TTTAATATAT
*
25195520 ATAAA ATAAA ATAAG ATAAA AT-AA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
25195560 ACACGAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:25195547 original size:19 final size:19
Alignment explanation
Indices: 25195523--25195559 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25195513 AATATATATA
*
25195523 AAATAAAATAAGATAAAAT
1 AAATAAAATAAAATAAAAT
25195542 AAATAAAATAAAATAAAA
1 AAATAAAATAAAATAAAA
25195560 ACACGAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (19 bp):
AAATAAAATAAAATAAAAT
Found at i:25195754 original size:49 final size:48
Alignment explanation
Indices: 25195670--25195777 Score: 119
Period size: 49 Copynumber: 2.2 Consensus size: 48
25195660 GGGAAAAGGT
* * * * *
25195670 TTACAGATGGTGGTAAAGTGGCATTGCTCTCAGACACCTGAGGAGAGGC
1 TTACAGAAGGTGATAAAGTGGCACTGCTCTCAGACACAT-AAGAGAGGC
* *
25195719 TTACAGAAGGTGATAAAGTGGCCCTGTTC-CTAGACACATAAGAGAGGC
1 TTACAGAAGGTGATAAAGTGGCACTGCTCTC-AGACACATAAGAGAGGC
*
25195767 TTAAAGAAGGT
1 TTACAGAAGGT
25195778 AGTAGAGTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 19 0.38
49 31 0.62
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (48 bp):
TTACAGAAGGTGATAAAGTGGCACTGCTCTCAGACACATAAGAGAGGC
Found at i:25195883 original size:96 final size:96
Alignment explanation
Indices: 25195715--25195936 Score: 318
Period size: 96 Copynumber: 2.3 Consensus size: 96
25195705 ACCTGAGGAG
* * *
25195715 AGGCTTACAGAAGGTGATAAAGTGGCCCTGTTCCTAGACACATAAGAGAGGCTTAAAGAAGGTAG
1 AGGCTTACAGAAGGTGGTAAAGTGGCCCTGTTCCAAGACACATAAGAGAGGCTCAAAGAAGGTAG
25195780 TAGAGTGACCTACTCCCACACGCATGGGAAA
66 TAGAGTGACCTACTCCCACACGCATGGGAAA
* * * * * * * *
25195811 AGGTTTACAGAATGTGGTAAAGTGGTCTTGTTCCAAGACGCATAGGAGAGGCTCATAGAAGGTGG
1 AGGCTTACAGAAGGTGGTAAAGTGGCCCTGTTCCAAGACACATAAGAGAGGCTCAAAGAAGGTAG
*
25195876 TAGAGTGACCTACTCCCACACGCATGGGGAA
66 TAGAGTGACCTACTCCCACACGCATGGGAAA
* *
25195907 AGGCTTACGGAAGGTGGTAAAGTGACCCTG
1 AGGCTTACAGAAGGTGGTAAAGTGGCCCTG
25195937 CTCCTTGATG
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 108 1.00
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.20
Consensus pattern (96 bp):
AGGCTTACAGAAGGTGGTAAAGTGGCCCTGTTCCAAGACACATAAGAGAGGCTCAAAGAAGGTAG
TAGAGTGACCTACTCCCACACGCATGGGAAA
Found at i:25195911 original size:48 final size:48
Alignment explanation
Indices: 25195645--25195933 Score: 177
Period size: 48 Copynumber: 6.0 Consensus size: 48
25195635 CCAAATGTCT
* * * * *
25195645 TACTCCCACACGCATGGGAAAAGGTTTACAGATGGTGGTAAAGTGGCAT
1 TACTCCCACACGCATGGGGAAAGGCTTACAGAAGGTGGTAAAGTGAC-C
* * * * * * * * *
25195694 TGCTCTCAGACACCTGAGGAGAGGCTTACAGAAGGTGATAAAGTGGCCC
1 TACTCCCACACGCATGGGGAAAGGCTTACAGAAGGTGGTAAAGT-GACC
** * * * ** * * * *
25195743 TGTTCCTAGACACAT-AAGAGAGGCTTAAAGAAGGTAGTAGAGTGACC
1 TACTCCCACACGCATGGGGAAAGGCTTACAGAAGGTGGTAAAGTGACC
* * * * *
25195790 TACTCCCACACGCATGGGAAAAGGTTTACAGAATGTGGTAAAGTGGTCT
1 TACTCCCACACGCATGGGGAAAGGCTTACAGAAGGTGGTAAAGT-GACC
** * * * * * * *
25195839 TGTTCCAAGACGCAT-AGGAGAGGCTCATAGAAGGTGGTAGAGTGACC
1 TACTCCCACACGCATGGGGAAAGGCTTACAGAAGGTGGTAAAGTGACC
*
25195886 TACTCCCACACGCATGGGGAAAGGCTTACGGAAGGTGGTAAAGTGACC
1 TACTCCCACACGCATGGGGAAAGGCTTACAGAAGGTGGTAAAGTGACC
25195934 CTGCTCCTTG
Statistics
Matches: 173, Mismatches: 63, Indels: 9
0.71 0.26 0.04
Matches are distributed among these distances:
47 26 0.15
48 88 0.51
49 57 0.33
50 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (48 bp):
TACTCCCACACGCATGGGGAAAGGCTTACAGAAGGTGGTAAAGTGACC
Found at i:25197730 original size:40 final size:40
Alignment explanation
Indices: 25197685--25197819 Score: 107
Period size: 40 Copynumber: 3.4 Consensus size: 40
25197675 GTTTGGAACA
*
25197685 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTATCC
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
* * ** *
25197725 AAAGCGCCGCTAAAGGTAGAGC-TTCAGCGGTGA-TTATCC
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCC
* * * * * *
25197764 GGAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-CAT
1 -AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATC-C
25197804 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
25197820 CCTAAGACCA
Statistics
Matches: 74, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
39 29 0.39
40 45 0.61
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
Found at i:25197915 original size:41 final size:41
Alignment explanation
Indices: 25197858--25198177 Score: 315
Period size: 41 Copynumber: 7.8 Consensus size: 41
25197848 TTTTTTAAAC
* *
25197858 CTTTAGCGGCATTTTTGTGTAAGCGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAGT
*
25197899 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAGT
* * *
25197940 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCG-GAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAG-T
* * *
25197981 CTTTAGCGGCGTTTTTGTCTAGGTGCCGCTAATGCTTG-GAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAG-T
* * * *
25198022 CTTTAGCGGCGTTTTTATAC-AAGCGCCACTAATACTCGAAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGAGT
** * * * * **
25198063 CTTTAGCGGCGTTTTTAACTGAGCCCCACTAATTCTCTTGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAGT
* * * * *
25198104 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATGCATTGA-C
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGC-TCGAGT
** *
25198145 CTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
25198178 AGTAACAAAA
Statistics
Matches: 236, Mismatches: 38, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.01
41 232 0.98
42 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAGT
Found at i:25198095 original size:123 final size:122
Alignment explanation
Indices: 25197858--25198178 Score: 355
Period size: 123 Copynumber: 2.6 Consensus size: 122
25197848 TTTTTTAAAC
* * * * * *
25197858 CTTTAGCGGCATTTTTGTGTAAGCGCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTTGTCTAGGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTTGA-TCTTTAGCGGCGTTTTTATCGAAGC
* * * *
25197923 GCCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTC-GGAT
65 GCCGCTAATACTCGAATCTTTAGCGGCGTTTTCGTGTAGGCCCCACTAATGCTCTGG-T
* *
25197981 CTTTAGCGGCGTTTTTGTCTAGGTGCCGCTAATGCTTGGATCTTTAGCGGCGTTTTTATAC-AAG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTT-GATCTTTAGCGGCGTTTTTAT-CGAAG
* * *
25198045 CGCCACTAATACTCGAATCTTTAGCGGCGTTTTTAAC-TG-A-GCCCCACTAATTCTCTTGT
64 CGCCGCTAATACTCGAATCTTTAGCGGCG-TTTT--CGTGTAGGCCCCACTAATGCTCTGGT
* * * * *
25198104 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATGCATTGACCTTTAGCGGCGTTTTTACCGAAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGC-TTGATCTTTAGCGGCGTTTTTATCGAAGC
25198169 GCCGCTAATA
65 GCCGCTAATA
25198179 GTAACAAAAA
Statistics
Matches: 168, Mismatches: 22, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
122 1 0.01
123 153 0.91
124 11 0.07
125 2 0.01
126 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.34
Consensus pattern (122 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTTGATCTTTAGCGGCGTTTTTATCGAAGCG
CCGCTAATACTCGAATCTTTAGCGGCGTTTTCGTGTAGGCCCCACTAATGCTCTGGT
Found at i:25199147 original size:2 final size:2
Alignment explanation
Indices: 25199140--25199165 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25199130 TGTAAACTAC
25199140 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
25199166 ATTAACTTGC
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):
TA
Found at i:25201522 original size:37 final size:37
Alignment explanation
Indices: 25201472--25201546 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
25201462 AATGTGCTCA
25201472 TTATGTATGTATATATTTACGAATGATGGTGACTTGC
1 TTATGTATGTATATATTTACGAATGATGGTGACTTGC
25201509 TTATGTATGTATATATTTACGAATGATGGTGACTTGC
1 TTATGTATGTATATATTTACGAATGATGGTGACTTGC
25201546 T
1 T
25201547 CTAATTTCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (37 bp):
TTATGTATGTATATATTTACGAATGATGGTGACTTGC
Found at i:25203070 original size:16 final size:16
Alignment explanation
Indices: 25203049--25203084 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
25203039 ATTAATATTA
25203049 TACATAACTGACAACT
1 TACATAACTGACAACT
*
25203065 TACATAACTTACAACT
1 TACATAACTGACAACT
25203081 TACA
1 TACA
25203085 ACTTACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (16 bp):
TACATAACTGACAACT
Found at i:25203141 original size:31 final size:30
Alignment explanation
Indices: 25203100--25203486 Score: 266
Period size: 31 Copynumber: 12.6 Consensus size: 30
25203090 CATTTTTTTA
* *
25203100 ATTATTCATAAATTACATAACATACATTAAT
1 ATTATACATAAATTACATAACTTA-ATTAAT
25203131 ATTATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAAC----TTAATTAAT
*
25203165 ATTATACATAAATTACATAACTTAATT-TT
1 ATTATACATAAATTACATAACTTAATTAAT
*
25203194 ATGT-T-C-T-TA-TACATAACTTACATTAAT
1 AT-TATACATAAATTACATAACTTA-ATTAAT
25203221 ATTATACATAAATTACATAACTTAATTAATT
1 ATTATACATAAATTACATAACTTAATTAA-T
* *
25203252 AATATACATAAGTTACATAACTTACATTAAT
1 ATTATACATAAATTACATAACTTA-ATTAAT
*
25203283 ATGATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAAC----TTAATTAAT
*
25203317 ATTATACATAACTTAC--AACTTACA-T-A-
1 ATTATACATAAATTACATAACTTA-ATTAAT
* * ** *
25203343 ACT-TACATAACTTACAT---TTTTTTTA-
1 ATTATACATAAATTACATAACTTAATTAAT
* *
25203368 ATTATTCATAAATTACATAACTTAATTAGTT
1 ATTATACATAAATTACATAACTTAATTA-AT
* *
25203399 AATATACATAAATTAGATAACTTATTAATTAATTAAT
1 ATTATACATAAATTACATAAC-------TTAATTAAT
25203436 ATTATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAAC----TTAATTAAT
*
25203470 ATTATACATAACTTACA
1 ATTATACATAAATTACA
25203487 ACTTACATAA
Statistics
Matches: 289, Mismatches: 31, Indels: 69
0.74 0.08 0.18
Matches are distributed among these distances:
24 3 0.01
25 26 0.09
26 19 0.07
27 6 0.02
28 6 0.02
29 10 0.03
30 13 0.04
31 91 0.31
32 8 0.03
34 75 0.26
35 5 0.02
37 20 0.07
38 7 0.02
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (30 bp):
ATTATACATAAATTACATAACTTAATTAAT
Found at i:25203204 original size:34 final size:33
Alignment explanation
Indices: 25203100--25203486 Score: 252
Period size: 34 Copynumber: 12.5 Consensus size: 33
25203090 CATTTTTTTA
* * *
25203100 ATTATTCATAAATTACATAACAT-A-CATTAAT
1 ATTATACATAAATTACATAACTTAATTATTAAT
*
25203131 ATTATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAACTTAATT-ATTAAT
25203165 ATTATACATAAATTACATAACTTAATT-TT-AT
1 ATTATACATAAATTACATAACTTAATTATTAAT
* * *
25203196 -GT-T-C-T-TA-TACATAACTT-A-CATTAAT
1 ATTATACATAAATTACATAACTTAATTATTAAT
25203221 ATTATACATAAATTACATAACTTAATTAATT-A-
1 ATTATACATAAATTACATAACTTAATT-ATTAAT
* *
25203253 A-TATACATAAGTTACATAACTT-A-CATTAAT
1 ATTATACATAAATTACATAACTTAATTATTAAT
* *
25203283 ATGATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAACTTAATT-ATTAAT
* *
25203317 ATTATACATAACTTAC--AACTT-A-CA-T-A-
1 ATTATACATAAATTACATAACTTAATTATTAAT
* * *
25203343 ACT-TACATAACTTACAT---TT--TTTTTAATT
1 ATTATACATAAATTACATAACTTAATTATTAA-T
*
25203371 ATT-C--ATAAATTACATAACTTAATTAGTT-A-
1 ATTATACATAAATTACATAACTTAATTA-TTAAT
*
25203400 A-TATACATAAATTAGATAACTTATTAATTAATTAAT
1 ATTATACATAAATTACATAAC---TTAATT-ATTAAT
*
25203436 ATTATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAACTTAATT-ATTAAT
*
25203470 ATTATACATAACTTACA
1 ATTATACATAAATTACA
25203487 ACTTACATAA
Statistics
Matches: 280, Mismatches: 33, Indels: 83
0.71 0.08 0.21
Matches are distributed among these distances:
24 5 0.02
25 25 0.09
26 15 0.05
27 3 0.01
28 9 0.03
29 7 0.03
30 4 0.01
31 88 0.31
32 11 0.04
33 1 0.00
34 91 0.32
35 2 0.01
36 1 0.00
37 18 0.06
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (33 bp):
ATTATACATAAATTACATAACTTAATTATTAAT
Found at i:25203208 original size:90 final size:87
Alignment explanation
Indices: 25203113--25203275 Score: 272
Period size: 90 Copynumber: 1.8 Consensus size: 87
25203103 ATTCATAAAT
*
25203113 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAAAT
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAATTAATT-A-A-TATACATAAAT
25203178 TACATAACTTAATTTTATGTTCTTA
63 TACATAACTTAATTTTATGTTCTTA
* *
25203203 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATACATAAGTTAC
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAATTAATTAATATACATAAATTAC
25203268 ATAACTTA
66 ATAACTTA
25203276 CATTAATATG
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
87 21 0.30
88 1 0.01
89 1 0.01
90 47 0.67
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (87 bp):
TACATAACATACATTAATATTATACATAAATTACATAACTTAATTAATTAATATACATAAATTAC
ATAACTTAATTTTATGTTCTTA
Found at i:25203228 original size:22 final size:22
Alignment explanation
Indices: 25203200--25203300 Score: 72
Period size: 22 Copynumber: 4.8 Consensus size: 22
25203190 TTTTATGTTC
*
25203200 TTATACATAACTTACATTAATA
1 TTATACATAAATTACATTAATA
25203222 TTATACATAAATTACA-T-A-A
1 TTATACATAAATTACATTAATA
* *
25203241 CT-TA-ATTAATTA-ATATACATAA
1 TTATACATAAATTACAT-TA-AT-A
* *
25203263 GT-TACATAACTTACATTAATA
1 TTATACATAAATTACATTAATA
*
25203284 TGATACATAAATTACAT
1 TTATACATAAATTACAT
25203301 AACTTAGTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
16 1 0.02
17 7 0.11
18 3 0.05
19 2 0.03
20 2 0.03
21 2 0.03
22 34 0.56
23 8 0.13
24 2 0.03
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.39
Consensus pattern (22 bp):
TTATACATAAATTACATTAATA
Found at i:25203342 original size:16 final size:17
Alignment explanation
Indices: 25203321--25203359 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
25203311 ATTAATATTA
25203321 TACATAACTTAC-AACT
1 TACATAACTTACAAACT
25203337 TACATAACTTACATAACT
1 TACATAACTTACA-AACT
25203355 TACAT
1 TACAT
25203360 TTTTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (17 bp):
TACATAACTTACAAACT
Found at i:25203345 original size:9 final size:9
Alignment explanation
Indices: 25203225--25203359 Score: 76
Period size: 9 Copynumber: 15.6 Consensus size: 9
25203215 ATTAATATTA
*
25203225 TACATAAAT
1 TACATAACT
25203234 TACATAACT
1 TACATAACT
25203243 TA-ATTAA-T
1 TACA-TAACT
25203251 TA-AT-A--
1 TACATAACT
*
25203256 TACATAAGT
1 TACATAACT
25203265 TACATAACT
1 TACATAACT
*
25203274 TACATTAATAT
1 TACA-TAA-CT
*
25203285 GATACATAAAT
1 --TACATAACT
25203296 TACATAACT
1 TACATAACT
**
25203305 TAGTTAA-T
1 TACATAACT
*
25203313 TA-AT-ATT
1 TACATAACT
25203320 ATACATAACT
1 -TACATAACT
25203330 TAC--AACT
1 TACATAACT
25203337 TACATAACT
1 TACATAACT
25203346 TACATAACT
1 TACATAACT
25203355 TACAT
1 TACAT
25203360 TTTTTTTAAT
Statistics
Matches: 103, Mismatches: 8, Indels: 30
0.73 0.06 0.21
Matches are distributed among these distances:
5 2 0.02
6 4 0.04
7 11 0.11
8 10 0.10
9 61 0.59
10 5 0.05
11 3 0.03
12 3 0.03
13 4 0.04
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (9 bp):
TACATAACT
Found at i:25203495 original size:16 final size:16
Alignment explanation
Indices: 25203473--25203520 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 16
25203463 AATTAATATT
25203473 ATACATAACTTACAAC
1 ATACATAACTTACAAC
* *
25203489 TTACATAACTATTACGAC
1 ATACATAAC--TTACAAC
25203507 ATACATAACTTACA
1 ATACATAACTTACA
25203521 TAGCATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (16 bp):
ATACATAACTTACAAC
Found at i:25203579 original size:16 final size:16
Alignment explanation
Indices: 25203558--25203591 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
25203548 ACATAATTCA
25203558 ACATAATAAATAACTT
1 ACATAATAAATAACTT
*
25203574 ACATAATACATAACTT
1 ACATAATAAATAACTT
25203590 AC
1 AC
25203592 GTAGCTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (16 bp):
ACATAATAAATAACTT
Found at i:25209198 original size:66 final size:65
Alignment explanation
Indices: 25209091--25209261 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 65
25209081 GAGCAAATTA
* * * *
25209091 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
25209155 G
65 G
* *
25209156 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
25209221 G
65 G
* * * *
25209222 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
25209262 CGGCAGCGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:25209305 original size:21 final size:21
Alignment explanation
Indices: 25209232--25209344 Score: 127
Period size: 21 Copynumber: 5.4 Consensus size: 21
25209222 CAGCAGCTTA
* * * *
25209232 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* *
25209253 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* *
25209274 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
**
25209295 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
25209316 AAGCAGAGGCTACAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
25209337 AAGCAGAG
1 AAGCAGAG
25209345 TAGCGTCAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 81 1.00
ACGTcount: A:0.35, C:0.18, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Done.