Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 292 of 292
Found at i:84714013 original size:12 final size:12
Alignment explanation
Indices: 84713998--84714026 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
84713988 ATATATTTAA
84713998 AAATATTAAAAC
1 AAATATTAAAAC
84714010 AAATATTAAAAC
1 AAATATTAAAAC
84714022 AAATA
1 AAATA
84714027 AAAATGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:84716097 original size:21 final size:21
Alignment explanation
Indices: 84716073--84716113 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
84716063 CTGCAAAAAA
84716073 AAAAAAAAAAAGAAGCAAACT
1 AAAAAAAAAAAGAAGCAAACT
* *
84716094 AAAAAGAAAAAGAATCAAAC
1 AAAAAAAAAAAGAAGCAAAC
84716114 GGAAGTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.76, C:0.10, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAAAAAAAAGAAGCAAACT
Found at i:84716782 original size:9 final size:9
Alignment explanation
Indices: 84716768--84716821 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
84716758 AAGACCAGGG
84716768 AAAGAAATA
1 AAAGAAATA
84716777 AAAGAAATA
1 AAAGAAATA
84716786 ACATA-AAATA
1 A-A-AGAAATA
84716796 AAAGAAATA
1 AAAGAAATA
* *
84716805 AAACAAAGAA
1 AAAGAAA-TA
84716815 AAAGAAA
1 AAAGAAA
84716822 AAGAAAGGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 1 0.03
9 22 0.58
10 14 0.37
11 1 0.03
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAGAAATA
Found at i:84716817 original size:19 final size:19
Alignment explanation
Indices: 84716772--84716821 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
84716762 CCAGGGAAAG
* *
84716772 AAATAAAAGAAATAACATA
1 AAATAAAAGAAATAAAACA
84716791 AAATAAAAGAAATAAAACA
1 AAATAAAAGAAATAAAACA
84716810 AAGA-AAAAGAAA
1 AA-ATAAAAGAAA
84716822 AAGAAAGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (19 bp):
AAATAAAAGAAATAAAACA
Found at i:84721447 original size:51 final size:51
Alignment explanation
Indices: 84721392--84721527 Score: 173
Period size: 51 Copynumber: 2.7 Consensus size: 51
84721382 TGGAAACATG
* *
84721392 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * ** * *
84721443 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * *
84721494 ATCTTAGAAGATATAATTTTATATTCTTCGAGAT
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGAT
84721528 TTAATTGTAG
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
Found at i:84721497 original size:19 final size:19
Alignment explanation
Indices: 84721424--84721501 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
84721414 AATCTTAGAG
*
84721424 ATCTTAGATATGATATGTA
1 ATCTTAGATAAGATATGTA
84721443 ATCTT--ATAAGATAT-T-
1 ATCTTAGATAAGATATGTA
* **
84721458 AT-TT-TATAAGAT-TACA
1 ATCTTAGATAAGATATGTA
84721474 TATCTTAGATAAGATATGTA
1 -ATCTTAGATAAGATATGTA
84721494 ATCTTAGA
1 ATCTTAGA
84721502 AGATATAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
14 3 0.06
15 9 0.19
16 1 0.02
17 10 0.21
18 2 0.04
19 20 0.43
20 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (19 bp):
ATCTTAGATAAGATATGTA
Found at i:84726649 original size:51 final size:51
Alignment explanation
Indices: 84726587--84726722 Score: 173
Period size: 51 Copynumber: 2.7 Consensus size: 51
84726577 TGGAAACATG
* *
84726587 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATCATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * * ** * *
84726638 ATCTTATAAGATATTATTTTACAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATCATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* *
84726689 ATCTTAGAAGATATCATTTTATATTCTTAGAGAT
1 ATCTTAAAAGATATCATTTTATAATCTTAGAGAT
84726723 TTAATTGTAG
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (51 bp):
ATCTTAAAAGATATCATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
Found at i:84732237 original size:23 final size:22
Alignment explanation
Indices: 84732211--84732267 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
84732201 AAATGAAGGA
*
84732211 ATAAAAATTATTTAATTTTAATT
1 ATAAAAATTATTTAATATTAA-T
84732234 ATAAAAA-TA-TTAATATTAAT
1 ATAAAAATTATTTAATATTAAT
*
84732254 ATAATAATATATTT
1 ATAAAAAT-TATTT
84732268 TTAAAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 7 0.24
21 9 0.31
22 4 0.14
23 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAAAATTATTTAATATTAAT
Found at i:84732970 original size:23 final size:23
Alignment explanation
Indices: 84732928--84732972 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
84732918 AAATTATATT
84732928 TTTAAAAAGAAATTTCAAAATCC
1 TTTAAAAAGAAATTTCAAAATCC
*
84732951 TTTAAAATATAAATTT-AAAATC
1 TTTAAAA-AGAAATTTCAAAATC
84732973 TGCATTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TTTAAAAAGAAATTTCAAAATCC
Found at i:84746223 original size:22 final size:22
Alignment explanation
Indices: 84746198--84746240 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
84746188 AATAAACAAG
84746198 TTTACTTATTTGATTAGTGGAC
1 TTTACTTATTTGATTAGTGGAC
84746220 TTTACTTATTTGATTAGTGGA
1 TTTACTTATTTGATTAGTGGA
84746241 ATCTGGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.07, G:0.19, T:0.51
Consensus pattern (22 bp):
TTTACTTATTTGATTAGTGGAC
Found at i:84748950 original size:30 final size:30
Alignment explanation
Indices: 84748909--84749024 Score: 92
Period size: 30 Copynumber: 3.9 Consensus size: 30
84748899 AAAAAGGCCC
*
84748909 ACGGTCCATGCAGAAG-CTACAGAAGCGCCG
1 ACGGACCATGCAGAAGTC-ACAGAAGCGCCG
*
84748939 ACGGACCATGCAGAAGTCGCAGAAGCGCCG
1 ACGGACCATGCAGAAGTCACAGAAGCGCCG
* * ** * *
84748969 AC-TATCTATGCAGAAGTCGTAGAAGCGTCA
1 ACGGA-CCATGCAGAAGTCACAGAAGCGCCG
* * * *
84748999 ACTGTCCATGCAGAAGCCGCAGAAGC
1 ACGGACCATGCAGAAGTCACAGAAGC
84749025 AGCAATTGTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.01
30 69 0.97
31 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.13
Consensus pattern (30 bp):
ACGGACCATGCAGAAGTCACAGAAGCGCCG
Found at i:84751195 original size:3 final size:3
Alignment explanation
Indices: 84751187--84751213 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
84751177 TCAATAAGTA
84751187 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
84751214 TAGATCTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:84752562 original size:21 final size:22
Alignment explanation
Indices: 84752536--84752577 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
84752526 GGTTCAATTA
84752536 AATATATA-ATTAAAAATTTAT
1 AATATATATATTAAAAATTTAT
84752557 AATATATATATTAAAAATTTA
1 AATATATATATTAAAAATTTA
84752578 GTTAAACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATATATATTAAAAATTTAT
Found at i:84753496 original size:16 final size:16
Alignment explanation
Indices: 84753456--84753488 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
84753446 AAATTTAACT
84753456 TTAA-AAAAAATTAAA
1 TTAATAAAAAATTAAA
84753471 TTAATAAAAAATATAAA
1 TTAATAAAAAAT-TAAA
84753488 T
1 T
84753489 ATTAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAATAAAAAATTAAA
Found at i:84755640 original size:12 final size:12
Alignment explanation
Indices: 84755623--84755647 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84755613 TTTTTTTCTT
84755623 TTTTTATATTGC
1 TTTTTATATTGC
84755635 TTTTTATATTGC
1 TTTTTATATTGC
84755647 T
1 T
84755648 GGGCCAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTTATATTGC
Found at i:84766253 original size:21 final size:21
Alignment explanation
Indices: 84766229--84766269 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
84766219 ATCTGCTCAA
* *
84766229 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
84766250 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
84766270 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:84770276 original size:15 final size:15
Alignment explanation
Indices: 84770256--84770290 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
84770246 GACATGATTT
84770256 AAAATAAATATTGTA
1 AAAATAAATATTGTA
* *
84770271 AAAATAGATATTTTA
1 AAAATAAATATTGTA
84770286 AAAAT
1 AAAAT
84770291 TATTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (15 bp):
AAAATAAATATTGTA
Found at i:84787098 original size:18 final size:18
Alignment explanation
Indices: 84787072--84787106 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84787062 ACCAATGATC
*
84787072 TTGAGAGGTACCTCTTTT
1 TTGACAGGTACCTCTTTT
*
84787090 TTGACAGGTTCCTCTTT
1 TTGACAGGTACCTCTTT
84787107 CTCAGACAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (18 bp):
TTGACAGGTACCTCTTTT
Found at i:84798261 original size:32 final size:34
Alignment explanation
Indices: 84798224--84798289 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
84798214 TTTAATTGTG
84798224 TTAATAATTAAA-C-AAATTTTAAAATCTGAAAA
1 TTAATAATTAAACCTAAATTTTAAAATCTGAAAA
* *
84798256 TTAATAGTTAAACCTAAATTTTAAGATCTGAAAA
1 TTAATAATTAAACCTAAATTTTAAAATCTGAAAA
84798290 ATAGGACTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 11 0.37
33 1 0.03
34 18 0.60
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (34 bp):
TTAATAATTAAACCTAAATTTTAAAATCTGAAAA
Found at i:84810133 original size:21 final size:21
Alignment explanation
Indices: 84810099--84810138 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
84810089 GAATTAAATA
*
84810099 AATTTTTATAATT-ATTTTGT
1 AATTTTTACAATTAATTTTGT
84810119 AATTTGTTACAATTAATTTT
1 AATTT-TTACAATTAATTTT
84810139 TCTAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (21 bp):
AATTTTTACAATTAATTTTGT
Found at i:84811727 original size:28 final size:28
Alignment explanation
Indices: 84811671--84811739 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
84811661 TTATCGTTAA
* *
84811671 TAAA-TATAAAATTATATTTTGATCTTT
1 TAAATTATAAAATTATAATTTAATCTTT
*
84811698 TAAATTATAAAATTTTAATTTAAT-TATT
1 TAAATTATAAAATTATAATTTAATCT-TT
84811726 TAAAATTTATAAAA
1 T-AAA-TTATAAAA
84811740 ATTAGACTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.14
28 19 0.54
29 3 0.09
30 8 0.23
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
TAAATTATAAAATTATAATTTAATCTTT
Found at i:84818162 original size:22 final size:22
Alignment explanation
Indices: 84818122--84818163 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
84818112 TGGCCACCCA
*
84818122 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
84818144 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
84818164 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:84818284 original size:21 final size:22
Alignment explanation
Indices: 84818258--84818338 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 22
84818248 ATGATTGTTC
84818258 TTTG-TTTTGGAAGAGGTTTTT
1 TTTGTTTTTGGAAGAGGTTTTT
*
84818279 TTTGTTTTTTGG-AG-GTTTTTT
1 TTTG-TTTTTGGAAGAGGTTTTT
*
84818300 TTTGTTTTTTGGAAAGAAGGTTGTT
1 TTTG-TTTTTGG-AAG-AGGTTTTT
84818325 TTTGTTTCTTGGAA
1 TTTGTTT-TTGGAA
84818339 AGGCTAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
21 22 0.44
22 2 0.04
23 8 0.16
24 5 0.10
25 13 0.26
ACGTcount: A:0.14, C:0.01, G:0.26, T:0.59
Consensus pattern (22 bp):
TTTGTTTTTGGAAGAGGTTTTT
Found at i:84818295 original size:20 final size:21
Alignment explanation
Indices: 84818270--84818312 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
84818260 TGTTTTGGAA
84818270 GAGG-TTTTTTTTGTTTTTTG
1 GAGGTTTTTTTTTGTTTTTTG
84818290 GAGGTTTTTTTTTGTTTTTTG
1 GAGGTTTTTTTTTGTTTTTTG
84818311 GA
1 GA
84818313 AAGAAGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.07, C:0.00, G:0.26, T:0.67
Consensus pattern (21 bp):
GAGGTTTTTTTTTGTTTTTTG
Found at i:84818326 original size:25 final size:23
Alignment explanation
Indices: 84818229--84818351 Score: 87
Period size: 23 Copynumber: 5.3 Consensus size: 23
84818219 AGTGAGGTGA
*
84818229 GTTTTTGGTTTTTTGG-AGAATGATT
1 GTTTTT-GTTTTTTGGAAG-A-GGTT
84818254 GTTCTTTG--TTTTGGAAGAGGTT
1 GTT-TTTGTTTTTTGGAAGAGGTT
* *
84818276 TTTTTTGTTTTTTGG-AG-GTTT
1 GTTTTTGTTTTTTGGAAGAGGTT
*
84818297 TTTTTTGTTTTTTGGAAAGAAGGTT
1 GTTTTTGTTTTTTGG-AAG-AGGTT
* *
84818322 GTTTTTGTTTCTTGGAA-AGGCTA
1 GTTTTTGTTTTTTGGAAGAGG-TT
84818345 GTTTTTG
1 GTTTTTG
84818352 GAGATTAATC
Statistics
Matches: 82, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
21 22 0.27
22 10 0.12
23 23 0.28
24 4 0.05
25 20 0.24
26 3 0.04
ACGTcount: A:0.14, C:0.02, G:0.27, T:0.57
Consensus pattern (23 bp):
GTTTTTGTTTTTTGGAAGAGGTT
Found at i:84818656 original size:3 final size:3
Alignment explanation
Indices: 84818650--84818730 Score: 62
Period size: 3 Copynumber: 26.3 Consensus size: 3
84818640 TTTTATTTTT
* *
84818650 TTA TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A
84818696 TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
84818731 ATATGCCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 5 0.08
3 50 0.78
4 7 0.11
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:84818664 original size:12 final size:12
Alignment explanation
Indices: 84818642--84818730 Score: 78
Period size: 12 Copynumber: 7.3 Consensus size: 12
84818632 GAGCTTTGTT
*
84818642 TTATT-TTTTTA
1 TTATTATTTATA
*
84818653 TTATTATTTTTA
1 TTATTATTTATA
*
84818665 CTATTATTTATA
1 TTATTATTTATA
84818677 TTATTA-TTATTA
1 TTATTATTTA-TA
84818689 TT-TCTCATGTATATA
1 TTAT-T-AT-T-TATA
84818704 TTATTATTTATA
1 TTATTATTTATA
84818716 TTATTA-TTATA
1 TTATTATTTATA
84818727 TTAT
1 TTAT
84818731 ATATGCCCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
11 18 0.27
12 36 0.54
13 2 0.03
14 2 0.03
15 6 0.09
16 3 0.04
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:84818723 original size:18 final size:18
Alignment explanation
Indices: 84818650--84818734 Score: 88
Period size: 18 Copynumber: 4.7 Consensus size: 18
84818640 TTTTATTTTT
84818650 TTATTA-TTAT-TT-TTA
1 TTATTATTTATATTATTA
*
84818665 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
84818683 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
84818704 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
84818722 TTA-TATTATATAT
1 TTATTATT-TATAT
84818735 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
15 5 0.08
16 4 0.07
17 6 0.10
18 22 0.37
19 5 0.08
20 5 0.08
21 12 0.20
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:84818732 original size:30 final size:31
Alignment explanation
Indices: 84818641--84818734 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 31
84818631 AGAGCTTTGT
* *
84818641 TTTATTT-TTTTATTATTAT-TTTTACTATTA
1 TTTATTTATATTATTATTATATTATA-TATTA
*
84818671 TTTATATTATTATTATTATTTCTCATGTATATATTA
1 TTTAT-TTA-TATTATTA-TTAT-AT-TATATATTA
84818707 -TTATTTATATTATTATTATATTATATAT
1 TTTATTTATATTATTATTATATTATATAT
84818735 GCCCTCTCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
30 12 0.23
31 4 0.08
32 3 0.06
33 15 0.28
34 6 0.11
35 4 0.08
36 6 0.11
37 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (31 bp):
TTTATTTATATTATTATTATATTATATATTA
Found at i:84819021 original size:119 final size:121
Alignment explanation
Indices: 84818896--84819163 Score: 264
Period size: 122 Copynumber: 2.2 Consensus size: 121
84818886 TAATATATTA
*
84818896 TTAATATTACTCATATTTTCATTATT-T-TTGCTATCA-CTATTATTATTATATATTAGTGTATA
1 TTAATATTA-TCATATTTTCATTATTGTATTGCTAT-ATCTATTATTATTATATAGTAGTGTATA
* * * *
84818958 -TT-T-TTATGT-GTATATATATATATATTTATATATAGTATTGTTTTTTATTACTTTAAT
64 TTTCTATTATATAATATATATATATATATTTATATATAGTA-T-TATTGT-TTACTTTAAT
* * * * * *
84819015 TTAATATTTTTATTATATTTGC-TTTTTGTATTTCTATATTTATTATTATTATATAGTAGTGTGT
1 TTAATA---TTATCATATTTTCATTATTGTATTGCTATATCTATTATTATTATATAGTAGTGTAT
*
84819079 ATTTCTATTATATACATATATATATATATATTTATATATAGTATTATTGTTTACTTTACT
63 ATTTCTATTATATA-ATATATATATATATATTTATATATAGTATTATTGTTTACTTTAAT
* *
84819139 TTAATATTATTCTTATTATCATTAT
1 TTAATATTA-TCATATTTTCATTAT
84819164 ATCCAACCCA
Statistics
Matches: 119, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
119 6 0.05
120 4 0.03
121 13 0.11
122 38 0.32
123 5 0.04
124 16 0.13
125 9 0.08
126 1 0.01
127 27 0.23
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.59
Consensus pattern (121 bp):
TTAATATTATCATATTTTCATTATTGTATTGCTATATCTATTATTATTATATAGTAGTGTATATT
TCTATTATATAATATATATATATATATTTATATATAGTATTATTGTTTACTTTAAT
Found at i:84833459 original size:6 final size:6
Alignment explanation
Indices: 84833434--84833482 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
84833424 GGAAGGCGGC
* * * *
84833434 GTCGGA GCCGGA GCCGGA GTCGGA GTCAGA GTCAGA GTCGGA GTCGGA
1 GTCGGA GTCGGA GTCGGA GTCGGA GTCGGA GTCGGA GTCGGA GTCGGA
84833482 G
1 G
84833483 AGCCCAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.20, C:0.20, G:0.47, T:0.12
Consensus pattern (6 bp):
GTCGGA
Found at i:84834273 original size:18 final size:18
Alignment explanation
Indices: 84834250--84834288 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
84834240 CTACAAAAAA
84834250 TCTCTCAAGTATGAACAT
1 TCTCTCAAGTATGAACAT
84834268 TCTCTCAAGTATGAACAT
1 TCTCTCAAGTATGAACAT
84834286 TCT
1 TCT
84834289 TTCTTAGTCA
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:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (18 bp):
TCTCTCAAGTATGAACAT
Found at i:84840717 original size:36 final size:36
Alignment explanation
Indices: 84840677--84840748 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
84840667 AAATACATCA
84840677 ATTAATTGCTTGTGGTTGATTATAAATGAAAACTCT
1 ATTAATTGCTTGTGGTTGATTATAAATGAAAACTCT
*
84840713 ATTAATTGTTTGTGGTTGATTATAAATGAAAACTCT
1 ATTAATTGCTTGTGGTTGATTATAAATGAAAACTCT
84840749 GATTTTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (36 bp):
ATTAATTGCTTGTGGTTGATTATAAATGAAAACTCT
Found at i:84846653 original size:53 final size:53
Alignment explanation
Indices: 84846512--84846662 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
84846502 ACAAGTGTGC
* **
84846512 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
84846565 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
84846618 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
84846663 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:84854153 original size:53 final size:53
Alignment explanation
Indices: 84854012--84854162 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
84854002 ACAAGTGTGC
* **
84854012 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
84854065 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
84854118 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
84854163 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:84862850 original size:23 final size:23
Alignment explanation
Indices: 84862788--84862851 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
84862778 TTTTATTTTA
*
84862788 ATATTTATATATATTAATACGTAG
1 ATATTTATAT-TATTATTACGTAG
* *
84862812 A-ATTTATTATTTTTATTA-GTTG
1 ATATTTA-TATTATTATTACGTAG
84862834 TATATTTATATTATTATT
1 -ATATTTATATTATTATT
84862852 TAAGTTCCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
22 3 0.09
23 21 0.64
24 9 0.27
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (23 bp):
ATATTTATATTATTATTACGTAG
Found at i:84864086 original size:23 final size:25
Alignment explanation
Indices: 84864051--84864096 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
84864041 ATAATTAAAC
84864051 TTTCACACTTAATTCAAT-TTAATCA
1 TTTCACACTTAATT-AATCTTAATCA
84864076 TTTC-CAC-TAATTAATCTTAAT
1 TTTCACACTTAATTAATCTTAAT
84864097 TAAGCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.15
23 10 0.50
24 3 0.15
25 4 0.20
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.46
Consensus pattern (25 bp):
TTTCACACTTAATTAATCTTAATCA
Found at i:84868229 original size:4 final size:4
Alignment explanation
Indices: 84868220--84868254 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
84868210 CTTTTCTCCA
84868220 TTTC TTTC TTTC TTTTC TTTC TTTTC TTTC TTTC T
1 TTTC TTTC TTTC -TTTC TTTC -TTTC TTTC TTTC T
84868255 CCCCTGTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 21 0.72
5 8 0.28
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:84868236 original size:13 final size:13
Alignment explanation
Indices: 84868220--84868254 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
84868210 CTTTTCTCCA
84868220 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
84868233 TTTCTTTCTTT-T
1 TTTCTTTCTTTCT
84868245 CTTTCTTTCT
1 -TTTCTTTCT
84868255 CCCCTGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:84868238 original size:9 final size:9
Alignment explanation
Indices: 84868220--84868252 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
84868210 CTTTTCTCCA
84868220 TTTC-TTTC
1 TTTCTTTTC
84868228 TTTCTTTTC
1 TTTCTTTTC
84868237 TTTCTTTTC
1 TTTCTTTTC
84868246 TTTCTTT
1 TTTCTTT
84868253 CTCCCCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 20 0.83
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:84869533 original size:25 final size:25
Alignment explanation
Indices: 84869466--84869520 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
84869456 ATGTTTGACT
84869466 ACAAGATCACAATATCAAGCCTACA
1 ACAAGATCACAATATCAAGCCTACA
84869491 ACAAGATCACAATATCAAGCCTACA
1 ACAAGATCACAATATCAAGCCTACA
84869516 ACAAG
1 ACAAG
84869521 CATTCAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.49, C:0.27, G:0.09, T:0.15
Consensus pattern (25 bp):
ACAAGATCACAATATCAAGCCTACA
Found at i:84874374 original size:25 final size:25
Alignment explanation
Indices: 84874282--84874361 Score: 151
Period size: 25 Copynumber: 3.2 Consensus size: 25
84874272 ATGTTAGACT
84874282 ACAAGATCACAATATCAAGCCTACA
1 ACAAGATCACAATATCAAGCCTACA
84874307 ACAAGATCACAATATCAAGCCTACA
1 ACAAGATCACAATATCAAGCCTACA
*
84874332 ACAAGATCACAATATCAAGCCTACG
1 ACAAGATCACAATATCAAGCCTACA
84874357 ACAAG
1 ACAAG
84874362 CATTCAACTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.47, C:0.28, G:0.10, T:0.15
Consensus pattern (25 bp):
ACAAGATCACAATATCAAGCCTACA
Found at i:84875486 original size:10 final size:11
Alignment explanation
Indices: 84875470--84875499 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
84875460 TTCGAGTAAT
84875470 TATAAAATAAA
1 TATAAAATAAA
84875481 -ATAAAATAAA
1 TATAAAATAAA
84875491 TATAAAATA
1 TATAAAATA
84875500 CAAACGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TATAAAATAAA
Found at i:84883901 original size:58 final size:59
Alignment explanation
Indices: 84883791--84883902 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 59
84883781 GACTAATATT
*
84883791 TATCACAAAAATAGTATACATATTTCCTCCAAGTTTTTCAGTGTGTAAACTTAAAATGTA
1 TATCACAAAAACAGTATACATATTT-CTCCAAGTTTTTCAGTGTGTAAACTTAAAATGTA
* **
84883851 TATCACAAACACAGTATACATATTT-TCTGAGTTTTTCAGTGTGTAAACTTAA
1 TATCACAAAAACAGTATACATATTTCTCCAAGTTTTTCAGTGTGTAAACTTAA
84883903 CTATTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 25 0.52
60 23 0.48
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (59 bp):
TATCACAAAAACAGTATACATATTTCTCCAAGTTTTTCAGTGTGTAAACTTAAAATGTA
Found at i:84887036 original size:13 final size:13
Alignment explanation
Indices: 84887018--84887043 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84887008 ATTCGATCTT
84887018 TAATCAGACACTC
1 TAATCAGACACTC
84887031 TAATCAGACACTC
1 TAATCAGACACTC
84887044 AACTCGGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
TAATCAGACACTC
Found at i:84890056 original size:116 final size:116
Alignment explanation
Indices: 84889852--84890097 Score: 316
Period size: 116 Copynumber: 2.1 Consensus size: 116
84889842 CCAACACTTG
* ** * * * *
84889852 ATGAGTCGTGGGTGTTATGCTGCATTTTGCTATATCGATGCTAATACCTAACAATGGTTGATCGC
1 ATGAGTCATGGGTGTTATGCCACATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCAC
* * * *
84889917 CAAATTATATTCCTTTAAGTCATTGAACTAGGTCCTACAAGCCTATTTCCC
66 CAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAAGACTATTTCCC
* * * *
84889968 ATGAGTCATGGGTTTTATGCCATATTTTGCAATGTTGATGCTAATACCTAACAATGGCTCATCAC
1 ATGAGTCATGGGTGTTATGCCACATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCAC
84890033 CAAATGT-CATT-CTTGTAAGTCATTGAACCAAGTCCTACAAGACTATTTCCC
66 CAAAT-TACATTCCTT-TAAGTCATTGAACCAAGTCCTACAAGACTATTTCCC
*
84890084 ATGAGCCATGGGTG
1 ATGAGTCATGGGTG
84890098 CTAAGCCATA
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
115 3 0.03
116 107 0.96
117 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (116 bp):
ATGAGTCATGGGTGTTATGCCACATTTTGCAATATCGATGCTAATACCTAACAATGGCTCATCAC
CAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAAGACTATTTCCC
Found at i:84890128 original size:116 final size:116
Alignment explanation
Indices: 84889892--84890392 Score: 316
Period size: 116 Copynumber: 4.3 Consensus size: 116
84889882 TATATCGATG
* * * * * *
84889892 CTAATACCTAACAATGGTTGATCGCCAAATTATATTCCTTTAAGTCATTGAACTAGGTCCTACAA
1 CTAATACCTAACAATGGCTCATCACCAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAA
* * ** * ** * ** *
84889957 GCCTATTTCCCATGAGTCATGGGTTTTATGCCATATTTTGCAATGTTGATG
66 GACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
84890008 CTAATACCTAACAATGGCTCATCACCAAATGT-CATT-CTTGTAAGTCATTGAACCAAGTCCTAC
1 CTAATACCTAACAATGGCTCATCACCAAAT-TACATTCCTT-TAAGTCATTGAACCAAGTCCTAC
**
84890071 AAGACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGTGAGGTCAATA
64 AAGACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
* * ** * * ** * * * * *
84890124 CTAATGCCCATTAAT-GTTCGTTGCCAACATT-TATTCC-CTAACTCATTGAACTAAGTCCTATA
1 CTAATACCTAACAATGGCTCATCACCAA-ATTACATTCCTTTAAGTCATTGAACCAAGTCCTACA
* * * * * ** * *
84890186 AGCCCA-TTCCCAATGAGTCATGGGTGTTATGCCATACCGTTCAAGGTCAATG
65 AGACTATTTCCC-ATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
* * * ** ** * * * *
84890238 CTAACAGCTATCAATGGCTCATTGCCAGAA-TACATTCCCAT-AGTTATTGTACGTAAGTCCTAT
1 CTAATACCTAACAATGGCTCATCACCA-AATTACATTCCTTTAAGTCATTGAAC-CAAGTCCTAC
* * * * * * * *
84890301 GAGCCTGTTTCCCATAAGCCATGGGTGTTATGCCATATTGTGCAAGGTCAATG
64 AAGACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
* * * *
84890354 CTAATACCTATCAATGCCTCATCACCAAAATATATTCCT
1 CTAATACCTAACAATGGCTCATCACCAAATTACATTCCT
84890393 ACGAGTTATT
Statistics
Matches: 303, Mismatches: 70, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
113 5 0.02
114 67 0.22
115 40 0.13
116 185 0.61
117 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (116 bp):
CTAATACCTAACAATGGCTCATCACCAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAA
GACTATTTCCCATGAGCCATGGGTGCTAAGCCATATAGTGCAAGGTCAATA
Found at i:84891984 original size:32 final size:32
Alignment explanation
Indices: 84891943--84892007 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
84891933 CAGGCTAAAA
84891943 AAGATTGCTATCAGTTATTTTTGTTGACTTAC
1 AAGATTGCTATCAGTTATTTTTGTTGACTTAC
84891975 AAGATTGCTATCAGTTATTTTTGTTGACTTAC
1 AAGATTGCTATCAGTTATTTTTGTTGACTTAC
84892007 A
1 A
84892008 CCTCATGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (32 bp):
AAGATTGCTATCAGTTATTTTTGTTGACTTAC
Found at i:84895717 original size:18 final size:18
Alignment explanation
Indices: 84895694--84895730 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
84895684 CTAATTTTCC
84895694 TTTTAAAATGACTTTACA
1 TTTTAAAATGACTTTACA
84895712 TTTTAAAATGACTTTACA
1 TTTTAAAATGACTTTACA
84895730 T
1 T
84895731 GTATTACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (18 bp):
TTTTAAAATGACTTTACA
Found at i:84901181 original size:13 final size:13
Alignment explanation
Indices: 84901163--84901206 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
84901153 TTTAACAATG
84901163 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
84901176 CTTTTGAAAAATA
1 CTTTTGAAAAGTA
* *
84901189 CTGTGGAAAAGTA
1 CTTTTGAAAAGTA
84901202 CTTTT
1 CTTTT
84901207 CAGAAGTGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:84901995 original size:11 final size:11
Alignment explanation
Indices: 84901979--84902015 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
84901969 ATATTAACTA
84901979 ATTTAAATATT
1 ATTTAAATATT
84901990 ATTTAAATA-T
1 ATTTAAATATT
84902000 A-TTAAATATT
1 ATTTAAATATT
*
84902010 ACTTAA
1 ATTTAA
84902016 TAAAACAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.29
10 4 0.17
11 13 0.54
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTTAAATATT
Found at i:84903003 original size:19 final size:19
Alignment explanation
Indices: 84902979--84903016 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
84902969 CTGCCTTGGA
84902979 ATTTCATTGTGTTATTTAT
1 ATTTCATTGTGTTATTTAT
84902998 ATTTCATTGTGTTATTTAT
1 ATTTCATTGTGTTATTTAT
84903017 CCACCTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (19 bp):
ATTTCATTGTGTTATTTAT
Found at i:84913145 original size:4 final size:4
Alignment explanation
Indices: 84913136--84913190 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
84913126 CTGAATTTTT
84913136 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
84913184 TATG TAT
1 TATG TAT
84913191 TTCTCTAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:84922093 original size:43 final size:44
Alignment explanation
Indices: 84922032--84922124 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
84922022 TCCTAATTGG
84922032 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
84922075 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
84922119 -AAAATA
1 GAAAATA
84922125 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:84926822 original size:43 final size:44
Alignment explanation
Indices: 84926761--84926853 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
84926751 TCCTAATTGG
84926761 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
84926804 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
84926848 -AAAATA
1 GAAAATA
84926854 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:84927254 original size:20 final size:20
Alignment explanation
Indices: 84927212--84927254 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
84927202 AAAACCACAA
*
84927212 AAAAATATAAAAATATATTT
1 AAAAATATAAAAATATATAT
*
84927232 AAAAATATTAAAAT-TATGAT
1 AAAAATATAAAAATATAT-AT
84927252 AAA
1 AAA
84927255 TATTCGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATATAAAAATATATAT
Found at i:84927850 original size:254 final size:254
Alignment explanation
Indices: 84927401--84927901 Score: 921
Period size: 254 Copynumber: 2.0 Consensus size: 254
84927391 ATTGAATTGC
84927401 CCTACCTCTTATCCATTGCTAAGTGGACCAATTTGAAAATATGTCACAAATTTAGACAAAAAAAC
1 CCTACCTCTTATCCATTGCTAAGTGGACCAATTTGAAAATATGTCACAAATTTAGACAAAAAAAC
*
84927466 AATAAACATTTAAAGGAATATGGTTAAAGTAAATAGCATGAAATATATATATTGATCAAGGGGAA
66 AATAAACATTTAAAGGAATATGGTTAAAGTAAATAGCATGAAATATAAATATTGATCAAGGGGAA
*
84927531 AAGAGAAAAGTTAAAAGATTTTATTTTTTTGGGTTTTTGGTTTAGTGAGGGTTATTTTAATTTTG
131 AAGAGAAAAGTTAAAAGATTTTATTTTTTTGGGTTTTCGGTTTAGTGAGGGTTATTTTAATTTTG
**
84927596 GTTATTTATTTTAAATTGGGATTAATTTTTAAATATTTTTATTAATTTTTATAATATGT
196 GTTATTTATTTTAAATTAAGATTAATTTTTAAATATTTTTATTAATTTTTATAATATGT
*
84927655 CCTACCTCTTATCCATTGCTAAGTGGACCAATTTGAAAATATGTCACAAATTTGGACAAAAAAAC
1 CCTACCTCTTATCCATTGCTAAGTGGACCAATTTGAAAATATGTCACAAATTTAGACAAAAAAAC
* *
84927720 AATAAACATTTAAAGGAATATGGTTGAAGTAAATAGCATGAAATATAAATATTGATTAAGGGGAA
66 AATAAACATTTAAAGGAATATGGTTAAAGTAAATAGCATGAAATATAAATATTGATCAAGGGGAA
*
84927785 AAGAGAAAAGTTAAAAGATTTTATTTTTTTGGGTTTTCGGTTTAGTGAGGGTTGTTTTAATTTTG
131 AAGAGAAAAGTTAAAAGATTTTATTTTTTTGGGTTTTCGGTTTAGTGAGGGTTATTTTAATTTTG
*
84927850 GTTATTTATTTTAGATTAAGATTAATTTTTAAATATTTTTATTAATTTTTAT
196 GTTATTTATTTTAAATTAAGATTAATTTTTAAATATTTTTATTAATTTTTAT
84927902 CATTGTGTCT
Statistics
Matches: 238, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
254 238 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (254 bp):
CCTACCTCTTATCCATTGCTAAGTGGACCAATTTGAAAATATGTCACAAATTTAGACAAAAAAAC
AATAAACATTTAAAGGAATATGGTTAAAGTAAATAGCATGAAATATAAATATTGATCAAGGGGAA
AAGAGAAAAGTTAAAAGATTTTATTTTTTTGGGTTTTCGGTTTAGTGAGGGTTATTTTAATTTTG
GTTATTTATTTTAAATTAAGATTAATTTTTAAATATTTTTATTAATTTTTATAATATGT
Found at i:84945355 original size:12 final size:12
Alignment explanation
Indices: 84945340--84945364 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84945330 GTCTCCATGC
84945340 TAGATCAAAGCA
1 TAGATCAAAGCA
84945352 TAGATCAAAGCA
1 TAGATCAAAGCA
84945364 T
1 T
84945365 GAGGAGTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (12 bp):
TAGATCAAAGCA
Found at i:84957764 original size:19 final size:19
Alignment explanation
Indices: 84957744--84957785 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
84957734 TTGTTTTGCA
*
84957744 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
84957764 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
84957783 TTC
1 TTC
84957786 GTGAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:84965791 original size:66 final size:66
Alignment explanation
Indices: 84965719--84965884 Score: 228
Period size: 66 Copynumber: 2.5 Consensus size: 66
84965709 CATTCATACA
* *
84965719 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACAGCATCCTAGTTATTTGA
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACACCATCCTAATTATTTGA
*
84965784 T
66 C
* * * * *
84965785 TCATTCATAACACGTTTAATTAAGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTGA
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACACCATCCTAATTATTTGA
84965850 C
66 C
* *
84965851 ACATTCAT--CACATCTAGTTAGGAGCATTTGATTC
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTC
84965885 GACCATAGCA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 22 0.25
66 65 0.75
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (66 bp):
TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACACCATCCTAATTATTTGA
C
Found at i:84966351 original size:44 final size:44
Alignment explanation
Indices: 84966200--84966351 Score: 132
Period size: 44 Copynumber: 3.5 Consensus size: 44
84966190 GATTTTGTCT
* * * *
84966200 CCCTAAGCAGTAGTGG-AGCAAATCAAAGATGATGGGCTTTAACC
1 CCCTAAGCAGTAG-GGTAACAGATCGAAGATGATGGGCCTTAACC
* * * * **
84966244 CCCTAAGCAGTAGGGTAACA-AGCCGCA-TTTATAGATCC-TAACC
1 CCCTAAGCAGTAGGGTAACAGA-TCGAAGATGAT-GGGCCTTAACC
* *
84966287 CCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCCTTAACC
1 CCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCCTTAACC
*
84966331 CCCTAAGCAGTAGTGTAACAG
1 CCCTAAGCAGTAGGGTAACAG
84966352 GATTGAAATC
Statistics
Matches: 82, Mismatches: 20, Indels: 12
0.72 0.18 0.11
Matches are distributed among these distances:
43 35 0.43
44 47 0.57
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.20
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCCTTAACC
Found at i:84972357 original size:21 final size:23
Alignment explanation
Indices: 84972332--84972374 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
84972322 AATTAAAAAA
*
84972332 AAGTTAATATAT-T-ATAATTAT
1 AAGTTAAAATATGTAATAATTAT
84972353 AAGTTAAAATATGTAATAATTA
1 AAGTTAAAATATGTAATAATTA
84972375 CTTAAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (23 bp):
AAGTTAAAATATGTAATAATTAT
Found at i:84973792 original size:20 final size:20
Alignment explanation
Indices: 84973740--84973796 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
84973730 AGATAGGGGC
*
84973740 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTGTGGCCTGGA
**
84973760 ACACCCCCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
*
84973780 ACATGCCCATGTGGCCT
1 ACATGCCCGTGTGGCCT
84973797 ACCCGTAGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.35, G:0.32, T:0.19
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:84974342 original size:13 final size:13
Alignment explanation
Indices: 84974324--84974359 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
84974314 GATAATTAGT
84974324 AAATCATACATAC
1 AAATCATACATAC
*
84974337 AAATCATACATAT
1 AAATCATACATAC
84974350 AAATTCATAC
1 AAA-TCATAC
84974360 CAAACTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCATACATAC
Found at i:84975764 original size:19 final size:18
Alignment explanation
Indices: 84975731--84975778 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
84975721 ATTTTCCCTT
* *
84975731 TTTCTTTTTCTTTTCTTC-
1 TTTCTTTCTCTTTTC-ACG
84975749 TTTCTTTCTCTCTTTCACG
1 TTTCTTTCTCT-TTTCACG
84975768 TTTCTTTCTCT
1 TTTCTTTCTCT
84975779 GTAACTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCACG
Found at i:84980014 original size:13 final size:13
Alignment explanation
Indices: 84979981--84980014 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
84979971 TTGGTAGTTT
*
84979981 GGTTTTAATTTAG
1 GGTTTTAGTTTAG
*
84979994 GGTTTTAGTTTGG
1 GGTTTTAGTTTAG
84980007 GGTTTTAG
1 GGTTTTAG
84980015 ATTCAAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (13 bp):
GGTTTTAGTTTAG
Found at i:84982285 original size:50 final size:51
Alignment explanation
Indices: 84982208--84982331 Score: 187
Period size: 50 Copynumber: 2.5 Consensus size: 51
84982198 GACCATGGCA
* *
84982208 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
84982259 A-AAGTGATAAGTAATAGCTTCGGCTACCCTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
84982309 ACAAGTGAAAAGTGGTAGCTTCG
1 ACAAGTGATAAGTGATAGCTTCG
84982332 ACTGTCTGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 46 0.71
51 19 0.29
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:84982350 original size:31 final size:30
Alignment explanation
Indices: 84982312--84982460 Score: 181
Period size: 31 Copynumber: 4.8 Consensus size: 30
84982302 ACAAATGACA
**
84982312 AGTGAAAAGTGGTAGCTTCGACTGTCTGATC
1 AGTGAAAAGTGGTAGCTTCG-CTACCTGATC
* *
84982343 AGTGAAAAGTGGTAGCTTCTGCTGCCTGATA
1 AGTGAAAAGTGGTAGCTTC-GCTACCTGATC
84982374 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GCTACCTGATC
* * *
84982405 AATGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GCTACCTGATC
*
84982436 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTC-GCTAC
84982461 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 104 0.99
32 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (30 bp):
AGTGAAAAGTGGTAGCTTCGCTACCTGATC
Found at i:84983813 original size:34 final size:35
Alignment explanation
Indices: 84983685--84983850 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
84983675 TCCTCATTGA
** *
84983685 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
84983720 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
84983760 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
84983795 AATACCATA-CTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
84983829 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
84983851 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
34 32 0.28
35 53 0.46
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:84985302 original size:49 final size:48
Alignment explanation
Indices: 84985231--84985364 Score: 172
Period size: 49 Copynumber: 2.9 Consensus size: 48
84985221 ACATCAGTGA
*
84985231 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
*
84985279 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
* **
84985328 GA-A---GA-T-GTGTAAGACCATAGTTGAACTATGACATCGA
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGA
84985365 GTAAACGAAG
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
42 28 0.35
44 1 0.01
45 2 0.03
48 12 0.15
49 37 0.46
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
Found at i:84989406 original size:30 final size:30
Alignment explanation
Indices: 84989370--84989442 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
84989360 TTTATTTATG
84989370 TATTATTATATTAAATCATTTAATATC-ATT
1 TATTATTATATTAAATCATTTAA-ATCTATT
* **
84989400 TATTATTGA-GTTAAATTTTTTAAATCTTATT
1 TATTATT-ATATTAAATCATTTAAATC-TATT
84989431 TATTATTATATT
1 TATTATTATATT
84989443 TAACTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
29 3 0.09
30 19 0.54
31 13 0.37
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (30 bp):
TATTATTATATTAAATCATTTAAATCTATT
Found at i:84989465 original size:26 final size:25
Alignment explanation
Indices: 84989431--84989492 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 25
84989421 AAATCTTATT
*
84989431 TATTATTATATTTAACTT-TTTTAAAAA
1 TATT-TTATATATAA-TTATTTT-AAAA
84989458 TATTTTATATATAATTAATTTTAAAA
1 TATTTTATATATAATT-ATTTTAAAA
84989484 TGATTTTAT
1 T-ATTTTAT
84989493 TAATTACTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 2 0.06
26 14 0.45
27 15 0.48
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TATTTTATATATAATTATTTTAAAA
Found at i:84989998 original size:9 final size:9
Alignment explanation
Indices: 84989984--84990033 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
84989974 TTTATATAAA
84989984 TAATTCGGT
1 TAATTCGGT
*
84989993 TAATTCAGT
1 TAATTCGGT
*
84990002 TAATTCGAT
1 TAATTCGGT
84990011 TAATTCGGT
1 TAATTCGGT
84990020 TAATT-GGAT
1 TAATTCGG-T
84990029 TAATT
1 TAATT
84990034 TTATACTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
8 2 0.06
9 34 0.94
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:84997851 original size:16 final size:15
Alignment explanation
Indices: 84997826--84997856 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
84997816 AAAAAATTAA
84997826 AAATTATATATTTTT
1 AAATTATATATTTTT
84997841 AAATATATATATTTTT
1 AAAT-TATATATTTTT
84997857 TGGATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AAATTATATATTTTT
Found at i:84997921 original size:19 final size:20
Alignment explanation
Indices: 84997885--84997922 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
84997875 TTGAAATTTA
*
84997885 AAAATTATTTTATATTTTTG
1 AAAATAATTTTATATTTTTG
84997905 AAAATAATTTT-TATTTTT
1 AAAATAATTTTATATTTTT
84997923 TTTAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
AAAATAATTTTATATTTTTG
Found at i:84999970 original size:21 final size:21
Alignment explanation
Indices: 84999946--84999992 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
84999936 GTCCAGACCG
84999946 TGTGAC-AGAGGGACACGCCTA
1 TGTGACTA-AGGGACACGCCTA
* *
84999967 TGTGACTAAGGTACACGCCTG
1 TGTGACTAAGGGACACGCCTA
84999988 TGTGA
1 TGTGA
84999993 GCTAGCCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (21 bp):
TGTGACTAAGGGACACGCCTA
Found at i:85000621 original size:13 final size:13
Alignment explanation
Indices: 85000597--85000630 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
85000587 CATCAAAGGG
85000597 GCACACCGGCTTGA
1 GCACA-CGGCTTGA
85000611 GCACACGGCTTGA
1 GCACACGGCTTGA
85000624 GCACACG
1 GCACACG
85000631 CTCCGAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.24, C:0.35, G:0.29, T:0.12
Consensus pattern (13 bp):
GCACACGGCTTGA
Found at i:85001655 original size:322 final size:322
Alignment explanation
Indices: 85001070--85001713 Score: 1236
Period size: 322 Copynumber: 2.0 Consensus size: 322
85001060 ATTTTAATTG
*
85001070 CTAAATAAACAAAGAGCCCCAAAATATAGAGATGCGAAATGCTTTATCCTACAAGAGCACTCACT
1 CTAAATAAACAAAGAGCCCCAAAATATAAAGATGCGAAATGCTTTATCCTACAAGAGCACTCACT
*
85001135 ATATATTTAGCCCACAATGCAGGAGAAAGGTAAGCATGAACACAACCGAGAAAAGTGCTGTACCA
66 ATATATTTAGCCCACAATGCAGGAGAAAGGTAAGCATGAACACAACCGAGAAAAGTGCTGGACCA
85001200 GCATTCCTATATAATGAGCTTAAAGCCCTCTCTTATAACAAATGGAACTTAATCAAAATCAAATG
131 GCATTCCTATATAATGAGCTTAAAGCCCTCTCTTATAACAAATGGAACTTAATCAAAATCAAATG
85001265 CCCCTATAGAAAAATGAGCCTAAGTCAAAATTAAAGTGCAAAAGTCATTGTGAAATGATTATCTC
196 CCCCTATAGAAAAATGAGCCTAAGTCAAAATTAAAGTGCAAAAGTCATTGTGAAATGATTATCTC
85001330 AGAACTATGTACATTCTGTATTCT-AAAAGTGAAATGTGAATTCCATCGTACTGATGACAAAT
261 AGAACTATGTACATTCTGTATTCTCAAAA-TGAAATGTGAATTCCATCGTACTGATGACAAAT
*
85001392 CTAAATAAGCAAAGAGCCCCAAAATATAAAGATGCGAAATGCTTTATCCTACAAGAGCACTCACT
1 CTAAATAAACAAAGAGCCCCAAAATATAAAGATGCGAAATGCTTTATCCTACAAGAGCACTCACT
85001457 ATATATTTAGCCCACAATGCAGGAGAAAGGTAAGCATGAACACAACCGAGAAAAGTGCTGGACCA
66 ATATATTTAGCCCACAATGCAGGAGAAAGGTAAGCATGAACACAACCGAGAAAAGTGCTGGACCA
*
85001522 GCATTCCTATATAATGAGCTTAAAGCCCTCTCTTATAACAAATGGAACTTAATCGAAATCAAATG
131 GCATTCCTATATAATGAGCTTAAAGCCCTCTCTTATAACAAATGGAACTTAATCAAAATCAAATG
85001587 CCCCTATAGAAAAATGAGCCTAAGTCAAAATTAAAGTGCAAAAGTCATTGTGAAATGATTATCTC
196 CCCCTATAGAAAAATGAGCCTAAGTCAAAATTAAAGTGCAAAAGTCATTGTGAAATGATTATCTC
85001652 AGAACTATGTACATTCTGTATTCTCAAAATGAAATGTGAATTCCATCGTACTGATGACAAAT
261 AGAACTATGTACATTCTGTATTCTCAAAATGAAATGTGAATTCCATCGTACTGATGACAAAT
85001714 ATAATACTGC
Statistics
Matches: 317, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
322 313 0.99
323 4 0.01
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (322 bp):
CTAAATAAACAAAGAGCCCCAAAATATAAAGATGCGAAATGCTTTATCCTACAAGAGCACTCACT
ATATATTTAGCCCACAATGCAGGAGAAAGGTAAGCATGAACACAACCGAGAAAAGTGCTGGACCA
GCATTCCTATATAATGAGCTTAAAGCCCTCTCTTATAACAAATGGAACTTAATCAAAATCAAATG
CCCCTATAGAAAAATGAGCCTAAGTCAAAATTAAAGTGCAAAAGTCATTGTGAAATGATTATCTC
AGAACTATGTACATTCTGTATTCTCAAAATGAAATGTGAATTCCATCGTACTGATGACAAAT
Found at i:85014319 original size:21 final size:21
Alignment explanation
Indices: 85014293--85014335 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
85014283 TATCGGTGGA
85014293 CTTTTCGGAATTTACAATGCG
1 CTTTTCGGAATTTACAATGCG
*
85014314 CTTTTCTGAATTTACAATGCG
1 CTTTTCGGAATTTACAATGCG
85014335 C
1 C
85014336 GTAATTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (21 bp):
CTTTTCGGAATTTACAATGCG
Found at i:85015150 original size:90 final size:90
Alignment explanation
Indices: 85015043--85015224 Score: 346
Period size: 90 Copynumber: 2.0 Consensus size: 90
85015033 TCTGACCATT
*
85015043 TCATTTAGGTTCTTTCTTTTGGTCTTTGCTGGAAGCTAATAAATGAATTCTGGCTTTCTCTGATC
1 TCATTTAGATTCTTTCTTTTGGTCTTTGCTGGAAGCTAATAAATGAATTCTGGCTTTCTCTGATC
85015108 TTTTAGATTGTTGAAATTGATCTGA
66 TTTTAGATTGTTGAAATTGATCTGA
85015133 TCATTTAGATTCTTTCTTTTGGTCTTTGCTGGAAGCTAATAAATGAATTCTGGCTTTCTCTGATC
1 TCATTTAGATTCTTTCTTTTGGTCTTTGCTGGAAGCTAATAAATGAATTCTGGCTTTCTCTGATC
*
85015198 TTTTAGATTGTTGATATTGATCTGA
66 TTTTAGATTGTTGAAATTGATCTGA
85015223 TC
1 TC
85015225 TAGGACCTTA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (90 bp):
TCATTTAGATTCTTTCTTTTGGTCTTTGCTGGAAGCTAATAAATGAATTCTGGCTTTCTCTGATC
TTTTAGATTGTTGAAATTGATCTGA
Found at i:85022178 original size:360 final size:356
Alignment explanation
Indices: 85021467--85022187 Score: 1063
Period size: 360 Copynumber: 2.0 Consensus size: 356
85021457 TTTTATTGTC
*
85021467 TCCTGGTTTTCCCTTTTTCAACTAGTAAAAACATTATATTTGTTGAGGGAATAAGAAAACACTAA
1 TCCTGGTTTTCCCTTTTTCAACTAGTAAAAACATTATATTTGTTGAGGGAATAAGAAAAAACTAA
***
85021532 TTAAATCATACTGAGTTTTTTTTTTAAAAAAAAGCCCAAGTGGTAATATCAAAAAAAAAAAAAAT
66 TTAAATCATACTGAGTTTTTTTGAAAAAAAAAAGCCCAAGTGGTAATATCAAAAAAAAAAAAAAT
* * *
85021597 TCTGGAATGAAATGGAAATGAAGTGAAAGATCGGAGAGGGTATCGTATCGTCAAAGAGAAGCTCG
131 TCTGGAATGAAAAGGAAATGAAATGAAAGATCGGAGACGGTATCGTATCGTCAAAGAGAAGCTCG
* *
85021662 GGGCATTAGGAAAATTACTGGGACTGAAAGACTATTGAGGAAATTAATTAAAAAATCTATTTTTT
196 GGGCATTAGGAAAATTACTGGGACTGAAAGACTATTCAGGAAAATAATTAAAAAATCTATTTTTT
* * * * * * * **
85021727 TTCTTGTTCTAGTAATTTTCGTTCTTATTCTTCCTCAGGGATATCCCTGTGATAACCTGCTTCGG
261 TTCTTGTTCCAGTAATTTTCGTTCTCATTCTCCCTCACGGATATCCCTCTGATAACCCGATGAGG
* *
85021792 AATAAGCTATTCTTTGAATATTCACATCATA
326 AATAAGCTATTCCTAGAATATTCACATCATA
85021823 TCCTGGTTTTCCCTTTTTCAACTAGTAAAAACATTATATTTGTTGAGGGAATAAGAAAAAAACTA
1 TCCTGGTTTTCCCTTTTTCAACTAGTAAAAACATTATATTTGTTGAGGGAATAAG-AAAAAACTA
* * * *
85021888 ATTGAATCATACTGAGTTTTTTTAAGAAAAAAATAAAGCCTAAGTGGTAATTTCAAAGAAAAAAA
65 ATTAAATCATACTGAGTTTTTTT--GAAAAAAA-AAAGCCCAAGTGGTAATATCAAAAAAAAAAA
*
85021953 AAATTCTGGAATGAAAAGGAAATGAAATG-AAGATCGGAGACGGTATCGTATTGTCAAAGAGAAG
127 AAATTCTGGAATGAAAAGGAAATGAAATGAAAGATCGGAGACGGTATCGTATCGTCAAAGAGAAG
* *
85022017 CTCGGGGCATTAGGAAAATTACTGGGAGTGAATGACTATTCAGGAAAATAATTAAAAAAATCTA-
192 CTCGGGGCATTAGGAAAATTACTGGGACTGAAAGACTATTCAGGAAAATAATT-AAAAAATCTAT
* **
85022081 TTTTTTTCTTGTTCCAGTTAATTTTCGTTCTCATTC-CCACTGACGGATATCCCTCT-ATTTTCC
256 TTTTTTTCTTGTTCCAG-TAATTTTCGTTCTCATTCTCC-CTCACGGATATCCCTCTGA-TAACC
*
85022144 CGATGAGGAATAAGCTATTCCTAGAATGTTCACATCATA
318 CGATGAGGAATAAGCTATTCCTAGAATATTCACATCATA
85022183 TCCTG
1 TCCTG
85022188 TCCCGGTTCT
Statistics
Matches: 326, Mismatches: 31, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
356 55 0.17
357 30 0.09
359 105 0.32
360 136 0.42
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (356 bp):
TCCTGGTTTTCCCTTTTTCAACTAGTAAAAACATTATATTTGTTGAGGGAATAAGAAAAAACTAA
TTAAATCATACTGAGTTTTTTTGAAAAAAAAAAGCCCAAGTGGTAATATCAAAAAAAAAAAAAAT
TCTGGAATGAAAAGGAAATGAAATGAAAGATCGGAGACGGTATCGTATCGTCAAAGAGAAGCTCG
GGGCATTAGGAAAATTACTGGGACTGAAAGACTATTCAGGAAAATAATTAAAAAATCTATTTTTT
TTCTTGTTCCAGTAATTTTCGTTCTCATTCTCCCTCACGGATATCCCTCTGATAACCCGATGAGG
AATAAGCTATTCCTAGAATATTCACATCATA
Found at i:85025659 original size:78 final size:78
Alignment explanation
Indices: 85025530--85025680 Score: 223
Period size: 78 Copynumber: 1.9 Consensus size: 78
85025520 CTCATATTCT
* * *
85025530 ACCATTAAACCGTGATCCCTTGATCTCACCAACTGGGAGAGTCGGTGATCATGTTGATAATGATC
1 ACCATTAAACCGTGATCCCTTGATCGCACCAACTAGGAGAGTCGGTGATCATGTTGATAACGATC
85025595 ACCATGGAGTTCG
66 ACCATGGAGTTCG
* * * *
85025608 ACCATTAAA-CGCTGATCCCTTGATCGCATCAGCTAGGAGAGTTGGTGATCATGTTGATAGCGAT
1 ACCATTAAACCG-TGATCCCTTGATCGCACCAACTAGGAGAGTCGGTGATCATGTTGATAACGAT
85025672 CACCATGGA
65 CACCATGGA
85025681 CTTTGTGTAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
77 2 0.03
78 63 0.97
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (78 bp):
ACCATTAAACCGTGATCCCTTGATCGCACCAACTAGGAGAGTCGGTGATCATGTTGATAACGATC
ACCATGGAGTTCG
Found at i:85033797 original size:69 final size:69
Alignment explanation
Indices: 85033686--85033824 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 69
85033676 CAAGACTCTA
*
85033686 TCAGCCCTACCACCACTACAAAACCTGCTAAAAATCCTACAGCCACTGTTATTCCTATTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTAAAAATCCTACAGCCACTGTTATTCCTATTTTGGAA
85033751 CCTG
66 CCTG
** * *
85033755 TCAGCCCTACCACAACTACAAAACCTGCTGGAAATCCTACAGCCATTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTAAAAATCCTACAGCCACTGTTATTCCTATTTTGGAA
85033820 CCTG
66 CCTG
85033824 T
1 T
85033825 TTTTTCTATC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (69 bp):
TCAGCCCTACCACAACTACAAAACCTGCTAAAAATCCTACAGCCACTGTTATTCCTATTTTGGAA
CCTG
Found at i:85034966 original size:33 final size:33
Alignment explanation
Indices: 85034929--85035052 Score: 212
Period size: 33 Copynumber: 3.8 Consensus size: 33
85034919 CTCTGTTTCA
*
85034929 GGTTGCTGGACAGGAGCTGGAATGTGGGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
85034962 GGTTGTTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
85034995 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
85035028 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
85035053 CAAGAAGAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.17, C:0.09, G:0.44, T:0.31
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Done.