Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 201 of 208
Found at i:61047043 original size:16 final size:18
Alignment explanation
Indices: 61047004--61047045 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
61046994 TAAGTTTATA
61047004 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
61047021 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
61047038 A-ATTTATA
1 ATATTTATA
61047046 ACACATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:61049592 original size:10 final size:10
Alignment explanation
Indices: 61049577--61049607 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
61049567 GGATGAATTC
61049577 ATAAAATTTT
1 ATAAAATTTT
61049587 ATAAAATTTT
1 ATAAAATTTT
61049597 ATAAAATTTT
1 ATAAAATTTT
61049607 A
1 A
61049608 ATTCAGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:61049883 original size:28 final size:28
Alignment explanation
Indices: 61049834--61049903 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
61049824 AAATAAAAAA
*
61049834 TTACCAAAATGT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTTAT
*
61049862 TTACCAAAATATATATTA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
61049889 TTACCAAAATATATA
1 TTACCAAAATATATA
61049904 AAAAAACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 24 0.62
28 11 0.28
29 4 0.10
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.50
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:61050090 original size:3 final size:3
Alignment explanation
Indices: 61050079--61050273 Score: 301
Period size: 3 Copynumber: 66.0 Consensus size: 3
61050069 AAAAAAACAG
61050079 AGA AG- AGA AGA AGAA AGA AGA AG- AGA AG- AGAA AGA AGA AGA AGA
1 AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA
61050123 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
61050171 AGA AGA AGA AGA AGA AGA AGA AGA CGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * *
61050219 AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA AAA AGA A-T AGA TGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61050265 AGA AGA AGA
1 AGA AGA AGA
61050274 TGATGATGAT
Statistics
Matches: 177, Mismatches: 8, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
2 9 0.05
3 163 0.92
4 5 0.03
ACGTcount: A:0.66, C:0.01, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:61050278 original size:3 final size:3
Alignment explanation
Indices: 61050272--61050345 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
61050262 AGAAGAAGAA
61050272 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
61050320 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
61050346 AGAAGAAGAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:61050353 original size:6 final size:6
Alignment explanation
Indices: 61050344--61050412 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
61050334 TGATGATGAT
* * * * * * *
61050344 GAAGAA GAAGAA AAAGAG GGAGAA GAAGAA GAGGAA AAAGAG GAAAAA
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
* *
61050392 GAGGAA GATGAA GAAGAA GAA
1 GAAGAA GAAGAA GAAGAA GAA
61050413 CAAAAAGCCA
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.01
Consensus pattern (6 bp):
GAAGAA
Found at i:61050369 original size:18 final size:18
Alignment explanation
Indices: 61050344--61050411 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
61050334 TGATGATGAT
61050344 GAAGAAGAAGAAAAAGAG
1 GAAGAAGAAGAAAAAGAG
*
61050362 G--G-AGAAGAAGAAGAG
1 GAAGAAGAAGAAAAAGAG
* *
61050377 GAAAAAGAGGAAAAAGAG
1 GAAGAAGAAGAAAAAGAG
* *
61050395 GAAGATGAAGAAGAAGA
1 GAAGAAGAAGAAAAAGA
61050412 ACAAAAAGCC
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
15 13 0.33
16 1 0.03
18 25 0.64
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.01
Consensus pattern (18 bp):
GAAGAAGAAGAAAAAGAG
Found at i:61050393 original size:24 final size:24
Alignment explanation
Indices: 61050344--61050408 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
61050334 TGATGATGAT
* *
61050344 GAAGAAGAAGAAAAAGAGGGAGAA
1 GAAGAAGAAGAAAAAGAGGAAAAA
*
61050368 GAAGAAGAGGAAAAAGAGGAAAAA
1 GAAGAAGAAGAAAAAGAGGAAAAA
* * *
61050392 GAGGAAGATGAAGAAGA
1 GAAGAAGAAGAAAAAGA
61050409 AGAACAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.02
Consensus pattern (24 bp):
GAAGAAGAAGAAAAAGAGGAAAAA
Found at i:61056691 original size:27 final size:29
Alignment explanation
Indices: 61056655--61056722 Score: 106
Period size: 28 Copynumber: 2.4 Consensus size: 29
61056645 TATTTTTTTG
61056655 ATATATTTTGGTAAAT-AAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
*
61056682 ATATTTTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
61056711 A-ATATTTTGGTA
1 ATATATTTTGGTA
61056723 TTTTTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.41
28 17 0.46
29 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:61057078 original size:13 final size:13
Alignment explanation
Indices: 61057060--61057085 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61057050 GTCGATTAAT
61057060 TTGGTTCGAAATC
1 TTGGTTCGAAATC
61057073 TTGGTTCGAAATC
1 TTGGTTCGAAATC
61057086 GAGTAATTAA
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:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TTGGTTCGAAATC
Found at i:61058202 original size:13 final size:14
Alignment explanation
Indices: 61058169--61058207 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
61058159 ATTGATACAA
61058169 AATTTTAATATTTT
1 AATTTTAATATTTT
*
61058183 AAATTTAAT-TTTT
1 AATTTTAATATTTT
*
61058196 ATTTTTAATATT
1 AATTTTAATATT
61058208 AAAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATTTTAATATTTT
Found at i:61061126 original size:17 final size:17
Alignment explanation
Indices: 61061104--61061142 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
61061094 GTAATAAAAG
61061104 TAAAACCCTTTGACTTT
1 TAAAACCCTTTGACTTT
61061121 TAAAACCCTTTGACTTT
1 TAAAACCCTTTGACTTT
61061138 TAAAA
1 TAAAA
61061143 GGTAGCAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (17 bp):
TAAAACCCTTTGACTTT
Found at i:61061465 original size:29 final size:30
Alignment explanation
Indices: 61061409--61061474 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
61061399 ATTTATAAAA
* * *
61061409 AATTAAATTAAATAAAAAATTTACATATA-
1 AATTACATAAAATAAAAAATTGACATATAT
*
61061438 AAGTTACATAAAAT-AAAAATTGATATATAT
1 AA-TTACATAAAATAAAAAATTGACATATAT
61061468 AATTACA
1 AATTACA
61061475 AAACTCGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (30 bp):
AATTACATAAAATAAAAAATTGACATATAT
Found at i:61065740 original size:17 final size:18
Alignment explanation
Indices: 61065707--61065741 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61065697 ATCAAAAATT
61065707 TATTTTAAAAATAAAAAG
1 TATTTTAAAAATAAAAAG
*
61065725 TATTTTAAAATTAAAAA
1 TATTTTAAAAATAAAAA
61065742 AATAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TATTTTAAAAATAAAAAG
Found at i:61066524 original size:128 final size:128
Alignment explanation
Indices: 61066296--61066551 Score: 451
Period size: 128 Copynumber: 2.0 Consensus size: 128
61066286 TGAATCTCAC
61066296 ATGGGTACTAATTTTTAACTTAACTGTCTTATAAACATGACCGAAGTTTATTAATCATAAATGAA
1 ATGGGTACTAATTTTTAACTTAACTGTCTTATAAACATGACCGAAGTTTATTAATCATAAATGAA
* *
61066361 AATACAAATATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAGATAGAAT
66 AATACAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
*
61066424 ATGGGTACTAATTTTTAACTTAACTGTCTTATAAGCATGACC-AGAGTTTATTAATCATAAATGA
1 ATGGGTACTAATTTTTAACTTAACTGTCTTATAAACATGACCGA-AGTTTATTAATCATAAATGA
* *
61066488 AACTGCAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
65 AAATACAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
61066552 TTTGTTACTT
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
127 1 0.01
128 121 0.99
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (128 bp):
ATGGGTACTAATTTTTAACTTAACTGTCTTATAAACATGACCGAAGTTTATTAATCATAAATGAA
AATACAAACATGTATTTGAATTTAGGAATTTAAATAATTATAAAATGATATTTTAAATAGAAT
Found at i:61072164 original size:24 final size:24
Alignment explanation
Indices: 61072119--61072236 Score: 96
Period size: 24 Copynumber: 4.9 Consensus size: 24
61072109 AGCGCTCTCT
*
61072119 TGAGCCATATAATGGGAAGCTCATG
1 TGAGCCAT-TAACGGGAAGCTCATG
*
61072144 TGAGCCATTAACGGGAAGCTCATA
1 TGAGCCATTAACGGGAAGCTCATG
* *
61072168 AGAGCCA-TAATCAGGAAGCTCATG
1 TGAGCCATTAA-CGGGAAGCTCATG
* * *** * *
61072192 CGAGCCAATAGTTGGTAGCTC-CG
1 TGAGCCATTAACGGGAAGCTCATG
61072215 ATGAGCCATTAACGGGAAGCTC
1 -TGAGCCATTAACGGGAAGCTC
61072237 CGGATAGCCA
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
23 4 0.05
24 59 0.81
25 10 0.14
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.20
Consensus pattern (24 bp):
TGAGCCATTAACGGGAAGCTCATG
Found at i:61072237 original size:24 final size:24
Alignment explanation
Indices: 61072119--61072360 Score: 77
Period size: 24 Copynumber: 9.9 Consensus size: 24
61072109 AGCGCTCTCT
* *
61072119 TGAGCCATATAATGGGAAGCTCATG-
1 TGAGCCAT-TAACGGGAAGCTC-CGA
**
61072144 TGAGCCATTAACGGGAAGCTCATA
1 TGAGCCATTAACGGGAAGCTCCGA
* *
61072168 AGAGCCA-TAATCAGGAAGCT-C-A
1 TGAGCCATTAA-CGGGAAGCTCCGA
* *** *
61072190 TGCGAGCCAATAGTTGGTAGCTCCGA
1 T--GAGCCATTAACGGGAAGCTCCGA
61072216 TGAGCCATTAACGGGAAGCTCCGGA
1 TGAGCCATTAACGGGAAGCTCC-GA
* * * *
61072241 T-AGCCATATATCTGGAAG-TTCAA
1 TGAGCCAT-TAACGGGAAGCTCCGA
* *
61072264 GTGAGTCA-TATCGGGAAGCTCCGGA
1 -TGAGCCATTAACGGGAAGCTCC-GA
** *
61072289 -GAGCCATTAATTAGGAAGCTCACAA
1 TGAGCCATTAA-CGGGAAGCTC-CGA
* * *
61072314 AGATCCTTTAATCGGGAAGCTCCGA
1 TGAGCCATTAA-CGGGAAGCTCCGA
* * *
61072339 AGAGCCATATATCGGGACGCTC
1 TGAGCCAT-TAACGGGAAGCTC
61072361 ATAAGAACTG
Statistics
Matches: 161, Mismatches: 38, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
22 1 0.01
23 18 0.11
24 67 0.42
25 53 0.33
26 22 0.14
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (24 bp):
TGAGCCATTAACGGGAAGCTCCGA
Found at i:61077297 original size:15 final size:15
Alignment explanation
Indices: 61077274--61077310 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
61077264 TTATCTCAGA
* *
61077274 TTACATTTTAGTCAT
1 TTACGTTTTAGTCAC
61077289 TTACGTTTTAGTCAC
1 TTACGTTTTAGTCAC
61077304 TTACGTT
1 TTACGTT
61077311 AATATGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (15 bp):
TTACGTTTTAGTCAC
Found at i:61077882 original size:2 final size:2
Alignment explanation
Indices: 61077875--61077915 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
61077865 ATAATTTTCG
61077875 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61077916 CAATTAATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61078884 original size:17 final size:18
Alignment explanation
Indices: 61078854--61078888 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
61078844 TTGTATACCT
*
61078854 TTTTGAAAATTTTTCAAA
1 TTTTGAAAAATTTTCAAA
61078872 TTTT-AAAAATTTTCAAA
1 TTTTGAAAAATTTTCAAA
61078889 AAAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTGAAAAATTTTCAAA
Found at i:61080592 original size:12 final size:13
Alignment explanation
Indices: 61080567--61080591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61080557 AAATAATTTA
61080567 AAAATGATTTTTT
1 AAAATGATTTTTT
61080580 AAAATGATTTTT
1 AAAATGATTTTT
61080592 ATTTTTTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AAAATGATTTTTT
Found at i:61088053 original size:13 final size:14
Alignment explanation
Indices: 61088006--61088046 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
61087996 GGTTTTAGAG
61088006 AGAAAAAG-ATGA-
1 AGAAAAAGCATGAT
*
61088018 GGAAGAAAGCATGAT
1 AGAA-AAAGCATGAT
61088033 AGAAAAAGCATGAT
1 AGAAAAAGCATGAT
61088047 TAAAAAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 3 0.12
13 4 0.17
14 14 0.58
15 3 0.12
ACGTcount: A:0.56, C:0.05, G:0.27, T:0.12
Consensus pattern (14 bp):
AGAAAAAGCATGAT
Found at i:61094202 original size:21 final size:22
Alignment explanation
Indices: 61094173--61094213 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
61094163 ATGGATATGG
61094173 TTTTAAGAT-CATCTAAAAACC
1 TTTTAAGATACATCTAAAAACC
* *
61094194 TTTTTAGATACATTTAAAAA
1 TTTTAAGATACATCTAAAAA
61094214 AAAAAGGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTTAAGATACATCTAAAAACC
Found at i:61099342 original size:16 final size:15
Alignment explanation
Indices: 61099310--61099343 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
61099300 TTTTTGTATA
* *
61099310 TTTAAAATTTTTATT
1 TTTAAAAATTTAATT
61099325 TTTAAAAATTTAATT
1 TTTAAAAATTTAATT
61099340 TTTA
1 TTTA
61099344 TACTTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAAAAATTTAATT
Found at i:61103572 original size:7 final size:7
Alignment explanation
Indices: 61103560--61103599 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
61103550 TTATTGTTTA
61103560 AAAATTT
1 AAAATTT
61103567 AAAATTT
1 AAAATTT
61103574 AAAATTT
1 AAAATTT
**
61103581 AAAAAAT
1 AAAATTT
*
61103588 AAAATGT
1 AAAATTT
61103595 AAAAT
1 AAAAT
61103600 ATAATTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (7 bp):
AAAATTT
Found at i:61103579 original size:14 final size:14
Alignment explanation
Indices: 61103560--61103603 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
61103550 TTATTGTTTA
*
61103560 AAAATTTAAAATTT
1 AAAATTTAAAATAT
*
61103574 AAAATTTAAAAAAT
1 AAAATTTAAAATAT
*
61103588 AAAATGTAAAATAT
1 AAAATTTAAAATAT
61103602 AA
1 AA
61103604 TTTATCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
AAAATTTAAAATAT
Found at i:61103590 original size:21 final size:22
Alignment explanation
Indices: 61103556--61103599 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
61103546 TTAGTTATTG
* *
61103556 TTTAAAAATTTAAAATTTAAAA
1 TTTAAAAATATAAAATGTAAAA
61103578 TTTAAAAA-ATAAAATGTAAAA
1 TTTAAAAATATAAAATGTAAAA
61103599 T
1 T
61103600 ATAATTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTAAAAATATAAAATGTAAAA
Found at i:61106582 original size:2 final size:2
Alignment explanation
Indices: 61106566--61106607 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
61106556 ATTCTATTAA
61106566 AT AT AT -T AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61106605 AT A
1 AT A
61106608 AATTATGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61112705 original size:24 final size:24
Alignment explanation
Indices: 61112651--61112705 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
61112641 CTTGTTGGTA
* * *
61112651 TTATATTCTTTGTATTGTGTTTTAG
1 TTAT-TTCTCTGTATTGTCTTGTAG
61112676 TTATTTCTCTGTATTGTCTTGT-G
1 TTATTTCTCTGTATTGTCTTGTAG
61112699 TTCATTT
1 TT-ATTT
61112706 TAAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 3 0.12
24 19 0.73
25 4 0.15
ACGTcount: A:0.13, C:0.09, G:0.15, T:0.64
Consensus pattern (24 bp):
TTATTTCTCTGTATTGTCTTGTAG
Found at i:61116463 original size:168 final size:168
Alignment explanation
Indices: 61116182--61116517 Score: 591
Period size: 168 Copynumber: 2.0 Consensus size: 168
61116172 ATTCTCATTC
61116182 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
1 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
*
61116247 ATGTCCTGGTTTCCAAAATCTCAACACTTTAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
66 ATGTCCTGGTTTCCAAAATCTCAACACTTCAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
* **
61116312 CCTTAGTAAAAAACTTGAGATTAATTTTTTCAGTTTTT
131 CCTTAGTAAAAAACTTAAGATTAATCGTTTCAGTTTTT
*
61116350 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGGAAGTCAATGACTTGC
1 ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
* * *
61116415 ATGTCCTGGTTTCCAGAATCTCAACACTTCAGTTCAGCAAATTATTCTTAAAATTGTTTTTTGCC
66 ATGTCCTGGTTTCCAAAATCTCAACACTTCAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
*
61116480 CCTTAGTAAAAAACTTAAGATTTATCGTTTCAGTTTTT
131 CCTTAGTAAAAAACTTAAGATTAATCGTTTCAGTTTTT
61116518 GATTAGATAC
Statistics
Matches: 159, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 159 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (168 bp):
ACTTTCAACCTAAACCTTTTTAGTTCTTTTTCTTTTGATTCATTCTGGGAAAGTCAATGACTTGC
ATGTCCTGGTTTCCAAAATCTCAACACTTCAGTTCAGCAAACTATTCTTAAAATTGGTTTTTGCC
CCTTAGTAAAAAACTTAAGATTAATCGTTTCAGTTTTT
Found at i:61117247 original size:44 final size:44
Alignment explanation
Indices: 61117197--61117285 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
61117187 AAGAAGAGAA
61117197 ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
1 ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
* * *
61117241 ACCTCTTTCGTATATTACTAATGAGTGAAGAATTGTACATATTT
1 ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
61117285 A
1 A
61117286 TAGTCTACGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (44 bp):
ACCTCTTTCATATATTACTAATGAGTAAAGAATTGTACACATTT
Found at i:61117573 original size:23 final size:23
Alignment explanation
Indices: 61117547--61117592 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
61117537 TACAAGGCAA
* *
61117547 AAATCAGTGAATTAAATTCCTAT
1 AAATCAATGAATTAAATCCCTAT
61117570 AAATCAATGAATTAAATCCCTAT
1 AAATCAATGAATTAAATCCCTAT
61117593 GTTCAAGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (23 bp):
AAATCAATGAATTAAATCCCTAT
Found at i:61141846 original size:41 final size:41
Alignment explanation
Indices: 61141801--61141945 Score: 218
Period size: 41 Copynumber: 3.5 Consensus size: 41
61141791 GACTTTAAGT
61141801 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
* * *
61141842 CTAGCAGGCTATGTGCTGGTGATATGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
* * * *
61141883 CTAGCAGGCTATGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
*
61141924 CTAGCAGGCTAAGTGCGGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
61141946 ATACGTTAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
Found at i:61152092 original size:2 final size:2
Alignment explanation
Indices: 61152085--61152115 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
61152075 TTGATGTAAT
61152085 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61152116 GAAACTTCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61153280 original size:18 final size:18
Alignment explanation
Indices: 61153230--61153277 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
61153220 AATATAAAAA
61153230 TATAAAAATATTAAATTT
1 TATAAAAATATTAAATTT
*
61153248 TAGAAAAATATTAAATTT
1 TATAAAAATATTAAATTT
61153266 TAATAAAAATAT
1 T-ATAAAAATAT
61153278 AAAAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TATAAAAATATTAAATTT
Found at i:61153657 original size:25 final size:24
Alignment explanation
Indices: 61153628--61153706 Score: 86
Period size: 26 Copynumber: 3.2 Consensus size: 24
61153618 TATTTTTAAC
*
61153628 TTTAAAATACTTTTAAAATTACTTT
1 TTTAAAAT-TTTTTAAAATTACTTT
** *
61153653 TTTAAAATTTTTTAATTTTAAAATTT
1 TTTAAAATTTTTTAAAATT--ACTTT
*
61153679 TTTAAATTTTTTTAAAATTACTTT
1 TTTAAAATTTTTTAAAATTACTTT
61153703 TTTA
1 TTTA
61153707 TTTTTTAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
24 16 0.36
25 8 0.18
26 20 0.45
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTAAAATTTTTTAAAATTACTTT
Found at i:61153665 original size:10 final size:10
Alignment explanation
Indices: 61153650--61153697 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
61153640 TTAAAATTAC
61153650 TTTTTTAAAA
1 TTTTTTAAAA
61153660 TTTTTT--AA
1 TTTTTTAAAA
61153668 --TTTTAAAA
1 TTTTTTAAAA
*
61153676 TTTTTTAAAT
1 TTTTTTAAAA
61153686 TTTTTTAAAA
1 TTTTTTAAAA
61153696 TT
1 TT
61153698 ACTTTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
6 4 0.12
8 4 0.12
10 24 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:61153666 original size:47 final size:43
Alignment explanation
Indices: 61153609--61153734 Score: 110
Period size: 50 Copynumber: 2.8 Consensus size: 43
61153599 TAAATAATTA
61153609 TTTTA-TTTTTATTTTTAACTTTAAAATACTTTTAAAATTACTT
1 TTTTATTTTTTATTTTTAA-TTTAAAATACTTTTAAAATTACTT
* * **
61153652 TTTTAAAATTTTTTAATTTTAAAATTTTTTAAATTTTTTTAAAATTACTT
1 TTTT---ATTTTTT-ATTTT-TAA--TTTAAAATACTTTTAAAATTACTT
* **
61153702 TTTTATTTTTTAATTTTAAAATAAAATACTTTT
1 TTTTATTTTTTATTTTTAATTTAAAATACTTTT
61153735 TTTAATTTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
43 13 0.20
45 2 0.03
46 5 0.08
47 12 0.19
48 5 0.08
49 2 0.03
50 25 0.39
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (43 bp):
TTTTATTTTTTATTTTTAATTTAAAATACTTTTAAAATTACTT
Found at i:61153673 original size:16 final size:17
Alignment explanation
Indices: 61153652--61153688 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
61153642 AAAATTACTT
61153652 TTTTAAAATTTTTT-AA
1 TTTTAAAATTTTTTAAA
61153668 TTTTAAAATTTTTTAAA
1 TTTTAAAATTTTTTAAA
61153685 TTTT
1 TTTT
61153689 TTTAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATTTTTTAAA
Found at i:61153736 original size:47 final size:48
Alignment explanation
Indices: 61153638--61153739 Score: 127
Period size: 47 Copynumber: 2.1 Consensus size: 48
61153628 TTTAAAATAC
****
61153638 TTTTAAAATTACTTTTTTAAAATTTTTTAATTTTAAAATTTTTTAAATTT
1 TTTTAAAATTACTTTTTT--AATTTTTTAATTTTAAAATAAAATAAATTT
*
61153688 TTTTAAAATTACTTTTTT-ATTTTTTAATTTTAAAATAAAAT-ACTTT
1 TTTTAAAATTACTTTTTTAATTTTTTAATTTTAAAATAAAATAAATTT
61153734 TTTTAA
1 TTTTAA
61153740 TTTTTAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 10 0.21
47 19 0.40
50 18 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (48 bp):
TTTTAAAATTACTTTTTTAATTTTTTAATTTTAAAATAAAATAAATTT
Found at i:61153745 original size:7 final size:7
Alignment explanation
Indices: 61153733--61153765 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
61153723 TAAAATACTT
61153733 TTTTTAA
1 TTTTTAA
61153740 TTTTTAA
1 TTTTTAA
61153747 TTTTTAA
1 TTTTTAA
61153754 --TTTAA
1 TTTTTAA
61153759 TTTTTAA
1 TTTTTAA
61153766 AATAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.21
7 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTTAA
Found at i:61153759 original size:12 final size:12
Alignment explanation
Indices: 61153742--61153775 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
61153732 TTTTTTAATT
61153742 TTTAATTTTTAA
1 TTTAATTTTTAA
61153754 TTTAATTTTTAA
1 TTTAATTTTTAA
**
61153766 AATAATTTTT
1 TTTAATTTTT
61153776 GGTATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTTTTAA
Found at i:61158464 original size:13 final size:13
Alignment explanation
Indices: 61158446--61158509 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
61158436 AGTTCTTTAT
*
61158446 TACTTTTGAAATG
1 TACTTTTGAAAAG
61158459 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* *
61158472 T-GTTGTGGAAAAG
1 TACTT-TTGAAAAG
*
61158485 TACTTTTGAGAAG
1 TACTTTTGAAAAG
*
61158498 TGCTTTTGAAAA
1 TACTTTTGAAAA
61158510 ATTTGATTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 2 0.05
13 37 0.90
14 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:61158508 original size:26 final size:26
Alignment explanation
Indices: 61158448--61158509 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
61158438 TTCTTTATTA
*
61158448 CTTTTGAAATGTACTTTTGAAAAGTG
1 CTTTTGAAAAGTACTTTTGAAAAGTG
* *
61158474 -TTGTGGAAAAGTACTTTTGAGAAGTG
1 CTT-TTGAAAAGTACTTTTGAAAAGTG
61158500 CTTTTGAAAA
1 CTTTTGAAAA
61158510 ATTTGATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 26 0.87
27 2 0.07
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (26 bp):
CTTTTGAAAAGTACTTTTGAAAAGTG
Found at i:61162926 original size:19 final size:21
Alignment explanation
Indices: 61162899--61162938 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
61162889 AACCCTTATA
61162899 ATATATTTTATATAA-TATTT
1 ATATATTTTATATAATTATTT
*
61162919 ATAT-TTTTATGTAATTATTT
1 ATATATTTTATATAATTATTT
61162939 TCCTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATATATTTTATATAATTATTT
Found at i:61168754 original size:44 final size:44
Alignment explanation
Indices: 61168700--61168796 Score: 167
Period size: 44 Copynumber: 2.2 Consensus size: 44
61168690 TGCGTGCTGT
61168700 TGACAGAACTTTGAGAGACTTGTCAATGCTAACAATTCTGAATTA
1 TGACA-AACTTTGAGAGACTTGTCAATGCTAACAATTCTGAATTA
**
61168745 TGACAAACTTTGAGAGACTTGTTTATGCTAACAATTCTGAATTA
1 TGACAAACTTTGAGAGACTTGTCAATGCTAACAATTCTGAATTA
61168789 TGACAAAC
1 TGACAAAC
61168797 GGCACGACGG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 45 0.90
45 5 0.10
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (44 bp):
TGACAAACTTTGAGAGACTTGTCAATGCTAACAATTCTGAATTA
Found at i:61178630 original size:28 final size:29
Alignment explanation
Indices: 61178599--61178676 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
61178589 CAACTTTATA
61178599 TTTTTTTTCTAATTTGGTATTTGAACTT-
1 TTTTTTTTCTAATTTGGTATTTGAACTTG
* *
61178627 TTTTTGGTT-TGATTTGGTATTTGAACTTGG
1 TTTTT-TTTCTAATTTGGTATTTGAACTT-G
*
61178657 CTTTTTTTCCTAATTTGGTA
1 -TTTTTTTTCTAATTTGGTA
61178677 CCTAAACTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
28 23 0.57
29 2 0.05
30 1 0.03
31 14 0.35
ACGTcount: A:0.15, C:0.08, G:0.17, T:0.60
Consensus pattern (29 bp):
TTTTTTTTCTAATTTGGTATTTGAACTTG
Found at i:61178685 original size:31 final size:31
Alignment explanation
Indices: 61178650--61178772 Score: 115
Period size: 31 Copynumber: 4.0 Consensus size: 31
61178640 TTGGTATTTG
* *
61178650 AACTTGGCTTTTTTTCCTAATTTGGTACCTA
1 AACTTGACTCTTTTTCCTAATTTGGTACCTA
* * * *
61178681 AACTTGACACTTTTTCTTAAGTTGGTACTTA
1 AACTTGACTCTTTTTCCTAATTTGGTACCTA
** *****
61178712 AACTT-TTTGGGGGTCC-AATTTGGTACCTA
1 AACTTGACTCTTTTTCCTAATTTGGTACCTA
61178741 AACTTGACTCTTTTTCCTAATTTGGTACCTA
1 AACTTGACTCTTTTTCCTAATTTGGTACCTA
61178772 A
1 A
61178773 TCTTTTTTTG
Statistics
Matches: 66, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
29 16 0.24
30 6 0.09
31 44 0.67
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (31 bp):
AACTTGACTCTTTTTCCTAATTTGGTACCTA
Found at i:61218125 original size:14 final size:13
Alignment explanation
Indices: 61218102--61218135 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
61218092 TATCCTCTTC
61218102 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
61218115 TTTTGTTCTTTTTT
1 TTTT-TTCTTTTTT
61218129 TCTTTTT
1 T-TTTTT
61218136 AACTTTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 12 0.63
15 3 0.16
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTT
Found at i:61220848 original size:2 final size:2
Alignment explanation
Indices: 61220835--61220870 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
61220825 ATTGTTGTTT
*
61220835 TA TA TT TA TA 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 TA TA TA TA TA
61220871 ATTAATTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:61223765 original size:4 final size:4
Alignment explanation
Indices: 61223756--61223783 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
61223746 ATAATTTACC
61223756 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
61223784 TCTTTCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:61230936 original size:21 final size:21
Alignment explanation
Indices: 61230910--61230949 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61230900 CCAAGCTCCT
* *
61230910 ATCTTCTTCCTCTTCATCGTC
1 ATCTTCTTCATCGTCATCGTC
61230931 ATCTTCTTCATCGTCATCG
1 ATCTTCTTCATCGTCATCG
61230950 AACTCCGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.07, T:0.45
Consensus pattern (21 bp):
ATCTTCTTCATCGTCATCGTC
Found at i:61230940 original size:15 final size:15
Alignment explanation
Indices: 61230920--61230948 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61230910 ATCTTCTTCC
61230920 TCTTCATCGTCATCT
1 TCTTCATCGTCATCT
61230935 TCTTCATCGTCATC
1 TCTTCATCGTCATC
61230949 GAACTCCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.34, G:0.07, T:0.45
Consensus pattern (15 bp):
TCTTCATCGTCATCT
Found at i:61236094 original size:14 final size:16
Alignment explanation
Indices: 61236075--61236111 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
61236065 ATATTCTCAT
61236075 TTTTAATA-ATTT-AA
1 TTTTAATAGATTTCAA
*
61236089 TTTTAATAGTTTTCAA
1 TTTTAATAGATTTCAA
61236105 TTTTAAT
1 TTTTAAT
61236112 GACTTTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 3 0.15
16 9 0.45
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTTAATAGATTTCAA
Found at i:61237186 original size:20 final size:21
Alignment explanation
Indices: 61237161--61237215 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
61237151 ATTATATATT
61237161 AAATATATATATTT-TTAATC
1 AAATATATATATTTATTAATC
* *
61237181 AAATATATAT-TTTATTTATT
1 AAATATATATATTTATTAATC
*
61237201 AAATATATACATTTA
1 AAATATATATATTTA
61237216 ATATGGGTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATATATATATTTATTAATC
Found at i:61244544 original size:18 final size:18
Alignment explanation
Indices: 61244521--61244585 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
61244511 TTTATATTTT
*
61244521 TTTAAATAAAAATAAAAA
1 TTTAAAAAAAAATAAAAA
61244539 TTTAAAAAAAAATAAAGAA
1 TTTAAAAAAAAATAAA-AA
* **
61244558 TATATAAAGAAAGTTAAAAA
1 T-T-TAAAAAAAAATAAAAA
61244578 TTTAAAAA
1 TTTAAAAA
61244586 TTTTCTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 20 0.51
19 4 0.10
20 4 0.10
21 11 0.28
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TTTAAAAAAAAATAAAAA
Found at i:61245287 original size:21 final size:22
Alignment explanation
Indices: 61245261--61245304 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
61245251 TTTATGATAG
* *
61245261 TAAAAATTTATTTTATCATTTT
1 TAAAAACTAATTTTATCATTTT
61245283 TAAAAACTAATTTTATCATTTT
1 TAAAAACTAATTTTATCATTTT
61245305 AATAATCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAAAACTAATTTTATCATTTT
Found at i:61245739 original size:53 final size:51
Alignment explanation
Indices: 61245649--61245767 Score: 132
Period size: 53 Copynumber: 2.3 Consensus size: 51
61245639 AAATAATGAA
*
61245649 TTTTTTAATTTTTTTAAATTGAAAATATTAAGTTTCTTTTTTTAATACCAT
1 TTTTTTAATTTTTTTAAATTGAAAATATTAAGTTTCTTTTTATAATACCAT
* * * **
61245700 TTTTTTATATTTTTTTAATATT-TAGATTTTAAAGTTTCTTTTTATAATTTCAT
1 TTTTTTA-ATTTTTTTAA-ATTGAAAATATT-AAGTTTCTTTTTATAATACCAT
61245753 TTCTTTTGAATTTTT
1 TT-TTTT-AATTTTT
61245768 ATTAGACTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
51 7 0.12
52 15 0.26
53 24 0.42
54 10 0.18
55 1 0.02
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (51 bp):
TTTTTTAATTTTTTTAAATTGAAAATATTAAGTTTCTTTTTATAATACCAT
Found at i:61245742 original size:52 final size:52
Alignment explanation
Indices: 61245649--61245767 Score: 127
Period size: 52 Copynumber: 2.2 Consensus size: 52
61245639 AAATAATGAA
61245649 TTTTTTAATTTTTTTAAATTGAAAATATTAAGTTTCTTTTTT-TAATACCAT
1 TTTTTTAATTTTTTTAAATTGAAAATATTAAGTTTCTTTTTTATAATACCAT
* * * **
61245700 TTTTTTATATTTTTTTAATATT-TAGATTTTAAAGTTTC-TTTTTATAATTTCAT
1 TTTTTTA-ATTTTTTTAA-ATTGAAAATATT-AAGTTTCTTTTTTATAATACCAT
61245753 TTCTTTTGAATTTTT
1 TT-TTTT-AATTTTT
61245768 ATTAGACTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
51 7 0.12
52 20 0.35
53 19 0.33
54 10 0.18
55 1 0.02
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (52 bp):
TTTTTTAATTTTTTTAAATTGAAAATATTAAGTTTCTTTTTTATAATACCAT
Found at i:61249693 original size:25 final size:22
Alignment explanation
Indices: 61249657--61249704 Score: 53
Period size: 25 Copynumber: 2.0 Consensus size: 22
61249647 AAATACTAAA
61249657 AATTATAGAATATTATTATAATTTT
1 AATTATAGAATA--ATTA-AATTTT
61249682 AATTATTA-AATAATTAAATTTT
1 AATTA-TAGAATAATTAAATTTT
61249704 A
1 A
61249705 TATTTTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
25 9 0.41
26 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTATAGAATAATTAAATTTT
Found at i:61252219 original size:11 final size:10
Alignment explanation
Indices: 61252201--61252254 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
61252191 TTTTTTTAAA
61252201 ATTT-TAATT
1 ATTTATAATT
61252210 CATTTATAATTT
1 -ATTTATAA-TT
*
61252222 ATTTATGATT
1 ATTTATAATT
61252232 ATTTATATATT
1 ATTTATA-ATT
61252243 -TTTATAATT
1 ATTTATAATT
61252252 ATT
1 ATT
61252255 AGATTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 3 0.08
10 20 0.53
11 13 0.34
12 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
ATTTATAATT
Found at i:61253593 original size:16 final size:16
Alignment explanation
Indices: 61253572--61253607 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
61253562 ATAAATTAAA
* *
61253572 ATATGTATGTATATAT
1 ATATGTATATAAATAT
61253588 ATATGTATATAAATAT
1 ATATGTATATAAATAT
61253604 ATAT
1 ATAT
61253608 AAATTATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (16 bp):
ATATGTATATAAATAT
Found at i:61253769 original size:3 final size:3
Alignment explanation
Indices: 61253763--61253823 Score: 50
Period size: 3 Copynumber: 18.3 Consensus size: 3
61253753 AAAAAAAAGT
*
61253763 ATA ATA AGTAA ATA ATA ATAA ATAA ATAA ATAA ATA ATA GTA ATA ATA
1 ATA ATA A-T-A ATA ATA AT-A AT-A AT-A AT-A ATA ATA ATA ATA ATA
*
61253811 ATA TTA ATA ATA A
1 ATA ATA ATA ATA A
61253824 CAAAACAATG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
3 32 0.63
4 17 0.33
5 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:61253792 original size:18 final size:18
Alignment explanation
Indices: 61253765--61253823 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 18
61253755 AAAAAAGTAT
*
61253765 AATAAGTAAATAATAATA
1 AATAAATAAATAATAATA
61253783 AATAAATAAATAAATAATA
1 AATAAATAAAT-AATAATA
61253802 GTAAT-AATAATATTAATAATA
1 --AATAAATAA-A-TAATAATA
61253823 A
1 A
61253824 CAAAACAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 10 0.29
19 8 0.23
20 5 0.14
21 11 0.31
22 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AATAAATAAATAATAATA
Found at i:61260456 original size:29 final size:29
Alignment explanation
Indices: 61260405--61260473 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
61260395 TTATTTTAAT
61260405 ATTTTATATT-TTTATAGGATT-AAATCA-A
1 ATTTT-TATTATTTATAGGATTAAAAT-ATA
*
61260433 ATTTTTATTATTTTTAGGAGTTAAAATATA
1 ATTTTTATTATTTATAGGA-TTAAAATATA
61260463 A-TTTTATTATT
1 ATTTTTATTATT
61260474 AATAATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 4 0.11
28 13 0.36
29 13 0.36
30 6 0.17
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (29 bp):
ATTTTTATTATTTATAGGATTAAAATATA
Found at i:61262820 original size:42 final size:42
Alignment explanation
Indices: 61262637--61262796 Score: 293
Period size: 42 Copynumber: 3.8 Consensus size: 42
61262627 GTTTACAAAC
61262637 AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
*
61262679 AAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
*
61262721 AAAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
*
61262763 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
61262797 TTTATTCTTA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 113 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (42 bp):
AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
Found at i:61266026 original size:11 final size:10
Alignment explanation
Indices: 61266012--61266080 Score: 59
Period size: 10 Copynumber: 6.5 Consensus size: 10
61266002 AAAAATTAAA
61266012 AAAAGTATTTT
1 AAAA-TATTTT
61266023 AAAAATATTTTT
1 -AAAATA-TTTT
61266035 AAAATATTTT
1 AAAATATTTT
***
61266045 AAAAT-TAAA
1 AAAATATTTT
61266054 AAAAGTATTTT
1 AAAA-TATTTT
61266065 AAAAATATTTT
1 -AAAATATTTT
61266076 AAAAT
1 AAAAT
61266081 TAAAAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
9 5 0.11
10 15 0.32
11 15 0.32
12 12 0.26
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (10 bp):
AAAATATTTT
Found at i:61266070 original size:31 final size:30
Alignment explanation
Indices: 61266023--61266109 Score: 122
Period size: 31 Copynumber: 2.9 Consensus size: 30
61266013 AAAGTATTTT
*
61266023 AAAAATATTTTTAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAAATATTTTAAAATTAA
61266053 AAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAA-TATTTTAAAAATATTTTAAAATTAA
**
61266084 AAAAA-ATTAAAAAAAGTATTTTAAAA
1 AAAAATATTTTAAAAA-TATTTTAAAA
61266110 ATAATTTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 8 0.15
30 15 0.29
31 29 0.56
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAAATATTTTAAAAATATTTTAAAATTAA
Found at i:61266076 original size:41 final size:40
Alignment explanation
Indices: 61265986--61266169 Score: 253
Period size: 41 Copynumber: 4.5 Consensus size: 40
61265976 GGCCTATTTT
61265986 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTTAAAAAATTAAAAAAAGTATTTTAAAAA
**
61266028 TATTTTTAAAATATTTTAAAATTAAAAAAAGTATTTTAAAAA
1 TA-TTTTAAAAT-TTAAAAAATTAAAAAAAGTATTTTAAAAA
*
61266070 TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATT-TAAAAAATTAAAAAAAGTATTTTAAAAA
* * *
61266111 TAATTTAAAATTTAAAAAATT-AAAAAAGTATGTAAAAAA
1 TATTTTAAAATTTAAAAAATTAAAAAAAGTATTTTAAAAA
*
61266150 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTTAAAAAAT
61266170 AAATATATTT
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
39 34 0.27
40 9 0.07
41 46 0.36
42 35 0.27
43 4 0.03
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTTAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:61269218 original size:9 final size:9
Alignment explanation
Indices: 61269206--61269436 Score: 144
Period size: 9 Copynumber: 26.4 Consensus size: 9
61269196 ATTAAGTCAA
61269206 TTATGTAAG
1 TTATGTAAG
*
61269215 TTATGTACG
1 TTATGTAAG
61269224 TGTA--TAAG
1 T-TATGTAAG
61269232 TTATGTAAG
1 TTATGTAAG
61269241 TTATGT-A-
1 TTATGTAAG
*
61269248 TTAAGTAAG
1 TTATGTAAG
* *
61269257 CTATTTAAG
1 TTATGTAAG
*
61269266 TTGTGT-A-
1 TTATGTAAG
61269273 TTATGTAAG
1 TTATGTAAG
61269282 TTATGTAAG
1 TTATGTAAG
**
61269291 TTATCAAAG
1 TTATGTAAG
* *
61269300 TAATGTATG
1 TTATGTAAG
61269309 TTATGTAAG
1 TTATGTAAG
61269318 -T-TGTAAG
1 TTATGTAAG
*
61269325 TTAT-TATG
1 TTATGTAAG
*
61269333 TATTATGTAGG
1 --TTATGTAAG
* *
61269344 TGATGTAGG
1 TTATGTAAG
61269353 TTATGTAAG
1 TTATGTAAG
*
61269362 TTTTGT-A-
1 TTATGTAAG
*
61269369 TTATTTAAG
1 TTATGTAAG
*
61269378 TTGTGTAAG
1 TTATGTAAG
*
61269387 TTATGTATG
1 TTATGTAAG
*
61269396 CTATGTAAG
1 TTATGTAAG
* *
61269405 TAATGTGTA-
1 TTATGT-AAG
61269414 TTATGTAAG
1 TTATGTAAG
*
61269423 TTTATATAAG
1 -TTATGTAAG
61269433 TTAT
1 TTAT
61269437 TATGTAACTA
Statistics
Matches: 167, Mismatches: 38, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
7 22 0.13
8 16 0.10
9 111 0.66
10 15 0.09
11 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:61269272 original size:25 final size:25
Alignment explanation
Indices: 61269190--61269294 Score: 117
Period size: 25 Copynumber: 4.2 Consensus size: 25
61269180 TGATATATAT
61269190 TTATGTATTAAGTCAA-TTATGTAAG
1 TTATGTATTAAGT-AAGTTATGTAAG
61269215 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
* *
61269241 TTATGTATTAAGTAAGCTATTTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
61269266 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
61269291 TTAT
1 TTAT
61269295 CAAAGTAATG
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 44 0.66
26 17 0.25
27 2 0.03
28 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:61269307 original size:34 final size:32
Alignment explanation
Indices: 61269205--61269390 Score: 118
Period size: 34 Copynumber: 5.7 Consensus size: 32
61269195 TATTAAGTCA
*
61269205 ATTATGTAAGTTATGTACGTGTATAAGTTATGT
1 ATTATGTAAGTTATGTAAGT-TATAAGTTATGT
* * *
61269238 AAGTTATGT-A-TTAAGTAAGCTATTTAAGTTGTGT
1 -A-TTATGTAAGTTATGTAAG-T-TATAAGTTATGT
*
61269272 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGT
1 ATTATGTAAGTTATGTAAGTTAT--AAGTTATGT
61269306 ATGTTATGTAAG-T-TGTAAG-T-T-A-TTATGT
1 A--TTATGTAAGTTATGTAAGTTATAAGTTATGT
* * * *
61269334 ATTATGTAGGTGATGTAGGTTATGTAAGTTTTGT
1 ATTATGTAAGTTATGTAAGTTA--TAAGTTATGT
* *
61269368 ATTATTTAAGTTGTGTAAGTTAT
1 ATTATGTAAGTTATGTAAGTTAT
61269391 GTATGCTATG
Statistics
Matches: 117, Mismatches: 19, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
26 8 0.07
28 11 0.09
29 2 0.02
32 11 0.09
33 12 0.10
34 57 0.49
35 7 0.06
36 9 0.08
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.46
Consensus pattern (32 bp):
ATTATGTAAGTTATGTAAGTTATAAGTTATGT
Found at i:61269369 original size:62 final size:63
Alignment explanation
Indices: 61269269--61269395 Score: 143
Period size: 62 Copynumber: 2.0 Consensus size: 63
61269259 ATTTAAGTTG
*
61269269 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAGTTAT-TA
1 TGTATTATGTAAGTGATGTAAGTTATCAAAGTAATGTA--TTATGTAAGTTGTGTAAGTTATGTA
* * ** ** *
61269331 TGTATTATGTAGGTGATGTAGGTTATGTAAGTTTTGTATTATTTAAGTTGTGTAAGTTATGTA
1 TGTATTATGTAAGTGATGTAAGTTATCAAAGTAATGTATTATGTAAGTTGTGTAAGTTATGTA
61269394 TG
1 TG
61269396 CTATGTAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
60 8 0.15
61 1 0.02
62 41 0.76
63 4 0.07
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (63 bp):
TGTATTATGTAAGTGATGTAAGTTATCAAAGTAATGTATTATGTAAGTTGTGTAAGTTATGTA
Found at i:61269517 original size:16 final size:16
Alignment explanation
Indices: 61269205--61269517 Score: 87
Period size: 16 Copynumber: 19.8 Consensus size: 16
61269195 TATTAAGTCA
61269205 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* * *
61269221 ACGTGTATAAGTTATGT
1 A-TTATGTAAGTTATGT
*
61269238 AAGTTATGT-A-TTAAGT
1 -A-TTATGTAAGTTATGT
* * *
61269254 AAGCTATTTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
61269272 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
** *
61269288 AAGTTATCAAAGTAATGT
1 -A-TTATGTAAGTTATGT
61269306 ATGTTATGTAAG-T-TGT
1 A--TTATGTAAGTTATGT
*
61269322 A--A-GTTA-TTATGT
1 ATTATGTAAGTTATGT
* *
61269334 ATTATGTAGGTGATGT
1 ATTATGTAAGTTATGT
*
61269350 AGGTTATGTAAGTTTTGT
1 A--TTATGTAAGTTATGT
* *
61269368 ATTATTTAAGTTGTGT
1 ATTATGTAAGTTATGT
* *
61269384 AAGTTATGTATGCTATGT
1 -A-TTATGTAAGTTATGT
*
61269402 A--A-GTAA--TGTGT
1 ATTATGTAAGTTATGT
61269413 ATTATGTAAGTTTATATAAGTT
1 ATTATGTAAG--T-TAT--G-T
* *
61269435 ATTATGTAACTAATGT
1 ATTATGTAAGTTATGT
61269451 ATTATGTAAGTT-TGT
1 ATTATGTAAGTTATGT
61269466 -TTGA-G-AA-TT-T-T
1 ATT-ATGTAAGTTATGT
*
61269477 A-TA--TAAGTCATGT
1 ATTATGTAAGTTATGT
61269490 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
61269506 ATTATGTAAGTT
1 ATTATGTAAGTT
61269518 TAATAAGTGT
Statistics
Matches: 217, Mismatches: 43, Indels: 74
0.65 0.13 0.22
Matches are distributed among these distances:
10 3 0.01
11 12 0.06
12 9 0.04
13 8 0.04
14 11 0.05
15 6 0.03
16 80 0.37
17 20 0.09
18 52 0.24
19 4 0.02
20 1 0.00
21 1 0.00
22 10 0.05
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:61270282 original size:16 final size:16
Alignment explanation
Indices: 61270261--61270296 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
61270251 ATTAATTGAA
*
61270261 ATAAAATTGTAAATCG
1 ATAAAATTGCAAATCG
61270277 ATAAAATTGCAAATCG
1 ATAAAATTGCAAATCG
61270293 ATAA
1 ATAA
61270297 TTATAAATAC
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:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (16 bp):
ATAAAATTGCAAATCG
Found at i:61274465 original size:23 final size:23
Alignment explanation
Indices: 61274434--61274478 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
61274424 TGAATATGTA
*
61274434 TAAATCTAAAAAA-TTCTTAAAAG
1 TAAAACTAAAAAAGTT-TTAAAAG
61274457 TAAAACTAAAAAAGTTTTAAAA
1 TAAAACTAAAAAAGTTTTAAAA
61274479 CTAATGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAACTAAAAAAGTTTTAAAAG
Found at i:61274620 original size:5 final size:5
Alignment explanation
Indices: 61274610--61274635 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61274600 TTACTTTGAA
61274610 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
61274636 CAAAGTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:61286668 original size:24 final size:24
Alignment explanation
Indices: 61286641--61286687 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
61286631 CATATGAAAA
*
61286641 TTAAATTAACCAAATCA-AATTATT
1 TTAAATCAACCAAA-CATAATTATT
*
61286665 TTAACTCAACCAAACATAATTAT
1 TTAAATCAACCAAACATAATTAT
61286688 AATACATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (24 bp):
TTAAATCAACCAAACATAATTATT
Found at i:61288850 original size:21 final size:21
Alignment explanation
Indices: 61288824--61288863 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
61288814 ATTATATTAT
61288824 CACAATTCAT-GGACATGACCC
1 CACAATTCATAGGAC-TGACCC
61288845 CACAATTCATAGGACTGAC
1 CACAATTCATAGGACTGAC
61288864 ATTCTGAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (21 bp):
CACAATTCATAGGACTGACCC
Found at i:61294607 original size:18 final size:17
Alignment explanation
Indices: 61294584--61294617 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
61294574 TAGAAGTTAT
61294584 AATAATTATACATTTAAA
1 AATAATTATA-ATTTAAA
61294602 AATAATTATAATTTAA
1 AATAATTATAATTTAA
61294618 TTTACGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:61301329 original size:2 final size:2
Alignment explanation
Indices: 61301322--61301377 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
61301312 TAATTACTCC
61301322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61301364 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
61301378 CAACATTTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61303278 original size:32 final size:33
Alignment explanation
Indices: 61303223--61303284 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
61303213 AGACAATCTA
*
61303223 ACCACCAACCTTTGGAAATAGAGTC-AAATTTC
1 ACCACCAACCTTTGGAAAAAGAGTCGAAATTTC
* * *
61303255 ACCATCAATCTTTTGAAAAAGAGTCGAAAT
1 ACCACCAACCTTTGGAAAAAGAGTCGAAAT
61303285 GATTATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (33 bp):
ACCACCAACCTTTGGAAAAAGAGTCGAAATTTC
Found at i:61307120 original size:6 final size:6
Alignment explanation
Indices: 61307111--61307139 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
61307101 AAATAAAATT
61307111 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
61307140 GTCTACAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:61307193 original size:9 final size:9
Alignment explanation
Indices: 61307179--61307218 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
61307169 GTAGGGATTC
61307179 AATTCGGTT
1 AATTCGGTT
*
61307188 AATTCGGGT
1 AATTCGGTT
61307197 AATTCGGTT
1 AATTCGGTT
61307206 AATTCGGTT
1 AATTCGGTT
61307215 AATT
1 AATT
61307219 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:61309364 original size:38 final size:38
Alignment explanation
Indices: 61309310--61309420 Score: 134
Period size: 38 Copynumber: 2.9 Consensus size: 38
61309300 TCTACAAAGG
* *
61309310 ACATGATAAGCATGTCTACTGTTAATGATGAATTGAGAT
1 ACATGTTAAACATGTCTACTGTTAATGATGAATTGA-AT
* *
61309349 -CATGTTAAACTTGTCTACTGTTAATGATGAATTGATT
1 ACATGTTAAACATGTCTACTGTTAATGATGAATTGAAT
* * * *
61309386 ACATGTTACACATGTCTACTGCTAGTGTTGAATTG
1 ACATGTTAAACATGTCTACTGTTAATGATGAATTG
61309421 TTCCATTACA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.02
38 61 0.98
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38
Consensus pattern (38 bp):
ACATGTTAAACATGTCTACTGTTAATGATGAATTGAAT
Found at i:61309547 original size:44 final size:42
Alignment explanation
Indices: 61309489--61309627 Score: 154
Period size: 44 Copynumber: 3.2 Consensus size: 42
61309479 AGATTGGCAA
* *
61309489 TTTATCTGCAAATTTTGTTTTCAATCCACAACCTAGTGGCAGAT
1 TTTATCTACGAATTTTGTTTTC-ATCCACAACC-AGTGGCAGAT
* *
61309533 TTTATCTATGAATTTTGTTGTGCATCCACAACCCAGTGGCAGAT
1 TTTATCTACGAATTTTGTT-TTCATCCACAA-CCAGTGGCAGAT
* *
61309577 TTTATCTACGAATTTTGTTGTGT-ATCCACAGTCCAGTGGCAAAT
1 TTTATCTACGAATTTTGTT-T-TCATCCACA-ACCAGTGGCAGAT
61309621 TTTATCT
1 TTTATCT
61309628 GCAAAATTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
44 79 0.95
45 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (42 bp):
TTTATCTACGAATTTTGTTTTCATCCACAACCAGTGGCAGAT
Found at i:61330083 original size:53 final size:53
Alignment explanation
Indices: 61330016--61330176 Score: 218
Period size: 54 Copynumber: 3.0 Consensus size: 53
61330006 ATATTCTTAT
* *
61330016 TTATATAATATATTTGAAAATAATAACATATTTATTACCCCCAATTACGACTGAA
1 TTAT-TAA-ATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
* *
61330071 TTCTTAAATATTT-AAATATAATAATATATTTTATTACCCCAAATTACGACTCAA
1 TTATTAAATATTTGAAA-ATAATAATATA-TTTATTACCCCCAATTACGACTCAA
* *
61330125 TTATTAAATATTTGAATATAATAATATATTTATTA-ACCCAATTACGACTCAA
1 TTATTAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
61330177 GGATCACAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
52 18 0.19
53 23 0.24
54 49 0.52
55 5 0.05
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (53 bp):
TTATTAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
Found at i:61335497 original size:16 final size:16
Alignment explanation
Indices: 61335476--61335509 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
61335466 AATATACTAG
61335476 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
61335492 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
61335508 TT
1 TT
61335510 AATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (16 bp):
TTTAAGTTTTTTATGT
Found at i:61335750 original size:16 final size:16
Alignment explanation
Indices: 61335729--61335770 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
61335719 AATAATTTGA
*
61335729 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
61335745 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
61335761 TAGTTTTAAT
1 TAATTTTAAT
61335771 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:61337234 original size:15 final size:15
Alignment explanation
Indices: 61337181--61337235 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
61337171 TCCACCACCG
*
61337181 GGATATCCTCCACAA
1 GGATATCCTCCTCAA
61337196 GGATA---TCCTCAA
1 GGATATCCTCCTCAA
*
61337208 GGTTATCCTCCTCAA
1 GGATATCCTCCTCAA
61337223 GGATATCCTCCTC
1 GGATATCCTCCTC
61337236 CTTACGCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.29
15 24 0.71
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
GGATATCCTCCTCAA
Found at i:61338335 original size:20 final size:21
Alignment explanation
Indices: 61338310--61338360 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
61338300 AAAGGAATAT
61338310 TTAAATTATTTATTTT-ATTA
1 TTAAATTATTTATTTTAATTA
* *
61338330 TTAAATTAATTATTTTAATTT
1 TTAAATTATTTATTTTAATTA
*
61338351 TTATATTATT
1 TTAAATTATT
61338361 AAGAAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTAAATTATTTATTTTAATTA
Found at i:61343542 original size:15 final size:16
Alignment explanation
Indices: 61343506--61343543 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
61343496 GAGCAGTTGC
61343506 AGAAGCAGAAGCTGCA
1 AGAAGCAGAAGCTGCA
*
61343522 A-TAGCAGAAGCTG-A
1 AGAAGCAGAAGCTGCA
61343536 AGAAGCAG
1 AGAAGCAG
61343544 CAAGAGAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 2 0.11
15 16 0.84
16 1 0.05
ACGTcount: A:0.45, C:0.16, G:0.32, T:0.08
Consensus pattern (16 bp):
AGAAGCAGAAGCTGCA
Found at i:61343589 original size:21 final size:21
Alignment explanation
Indices: 61343565--61343604 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
61343555 GAGGTTGCTG
*
61343565 AAGCTGATGCAGAGGCAGCGC
1 AAGCTGATGCAGAAGCAGCGC
**
61343586 AAGCTTTTGCAGAAGCAGC
1 AAGCTGATGCAGAAGCAGC
61343605 AATGAAAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (21 bp):
AAGCTGATGCAGAAGCAGCGC
Found at i:61354323 original size:72 final size:70
Alignment explanation
Indices: 61354171--61354323 Score: 180
Period size: 70 Copynumber: 2.2 Consensus size: 70
61354161 GAACACTAGA
* * ** * *
61354171 AATAAGATGGACAGAGGACATTGTTTATGTAGAGGTTATTTTTAAGAAATAAAGTTAATGCAAGC
1 AATAAGATGGACAAAGAACATTGTTTACATAGAGGTTATTTTTAAGAAATAAAATTAATGCAAAC
*
61354236 CCAAT
66 CCAAC
* * *
61354241 AATAAGATGGACAAAGAACATTGTTTACATAGAGGCTTCTTTTTAAGAAAATAAAATTAGTTCAA
1 AATAAGATGGACAAAGAACATTGTTTACATAGAGG-TTATTTTTAAG-AAATAAAATTAATGCAA
* *
61354306 ATCCAGC
64 ACCCAAC
61354313 AATAAGATGGA
1 AATAAGATGGA
61354324 GGTGGAAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
70 31 0.45
71 10 0.14
72 28 0.41
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (70 bp):
AATAAGATGGACAAAGAACATTGTTTACATAGAGGTTATTTTTAAGAAATAAAATTAATGCAAAC
CCAAC
Found at i:61363477 original size:20 final size:20
Alignment explanation
Indices: 61363452--61363531 Score: 151
Period size: 20 Copynumber: 4.0 Consensus size: 20
61363442 ACTCCTGATA
61363452 GTGTGTAAGTTTTATACACG
1 GTGTGTAAGTTTTATACACG
61363472 GTGTGTAAGTTTTATACACG
1 GTGTGTAAGTTTTATACACG
61363492 GTGTGTAAGTTTTATACACG
1 GTGTGTAAGTTTTATACACG
*
61363512 GTGTATAAGTTTTATACACG
1 GTGTGTAAGTTTTATACACG
61363532 AAGAGTAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (20 bp):
GTGTGTAAGTTTTATACACG
Found at i:61364599 original size:17 final size:17
Alignment explanation
Indices: 61364559--61364602 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
61364549 TTTTTTATTT
61364559 TTTA-TTTTTTAAAAAA
1 TTTATTTTTTTAAAAAA
***
61364575 TACCTTTTTTTAAAAAA
1 TTTATTTTTTTAAAAAA
61364592 TTTATTTTTTT
1 TTTATTTTTTT
61364603 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATTTTTTTAAAAAA
Found at i:61364994 original size:18 final size:20
Alignment explanation
Indices: 61364971--61365016 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
61364961 GTATTATTGT
*
61364971 ATAAATTAT-CGAT-AATAC
1 ATAAATTATACCATCAATAC
61364989 ATAAATTATACCATCAATAC
1 ATAAATTATACCATCAATAC
61365009 ATCAAATT
1 AT-AAATT
61365017 TAACCCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 3 0.12
20 7 0.29
21 5 0.21
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAATTATACCATCAATAC
Found at i:61368733 original size:2 final size:2
Alignment explanation
Indices: 61368691--61368717 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
61368681 CATGGCATGC
61368691 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
61368718 GTTATATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61371840 original size:11 final size:11
Alignment explanation
Indices: 61371812--61371850 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
61371802 TAAATATATT
61371812 TATTTTTAAAA
1 TATTTTTAAAA
61371823 -A-TTTTAAAA
1 TATTTTTAAAA
61371832 TATTTTTAAAA
1 TATTTTTAAAA
61371843 TACTTTTT
1 TA-TTTTT
61371851 TAATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.32
10 2 0.08
11 10 0.40
12 5 0.20
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:61371870 original size:20 final size:20
Alignment explanation
Indices: 61371833--61371872 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
61371823 ATTTTAAAAT
**
61371833 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAAATTTTTA
61371853 ATTTTTAAAATAAATTTTTA
1 ATTTTTAAAATAAATTTTTA
61371873 GTATTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:61371879 original size:20 final size:20
Alignment explanation
Indices: 61371836--61371879 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
61371826 TTAAAATATT
** *
61371836 TTTAAAATACTTTTTTAATT
1 TTTAAAATAAATTTTTAATA
*
61371856 TTTAAAATAAATTTTTAGTA
1 TTTAAAATAAATTTTTAATA
61371876 TTTA
1 TTTA
61371880 TTAAAAATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAAATAAATTTTTAATA
Found at i:61374823 original size:21 final size:22
Alignment explanation
Indices: 61374797--61374842 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
61374787 AAACTGTTAC
* *
61374797 TTTTTTATTGTTTTCTTGCT-G
1 TTTTTTACTATTTTCTTGCTAG
61374818 TTTTTTACTATTTTCTTGCTAG
1 TTTTTTACTATTTTCTTGCTAG
61374840 TTT
1 TTT
61374843 CTTGTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTTTTACTATTTTCTTGCTAG
Found at i:61378134 original size:5 final size:5
Alignment explanation
Indices: 61378120--61378161 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
61378110 AATAAAACGC
* *
61378120 AAAAG AAAAT AAAAT -ATAT -AAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
61378162 ATGCAAGAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
4 6 0.18
5 27 0.82
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:61379266 original size:50 final size:50
Alignment explanation
Indices: 61379204--61379373 Score: 162
Period size: 50 Copynumber: 3.4 Consensus size: 50
61379194 GATCTGTAAT
* *
61379204 CTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCTTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCTTAG
* * ** *** *
61379254 CTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCGCCGT-TATGG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCT-TAG
* * * * * *
61379304 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCTTAG
* *
61379354 CTTCAATCTATTCCACTGCA
1 CTTCAATCTGTTCAACTGCA
61379374 CTGCTAAGGA
Statistics
Matches: 90, Mismatches: 28, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
49 1 0.01
50 89 0.99
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCTTAG
Found at i:61382281 original size:25 final size:25
Alignment explanation
Indices: 61382230--61382298 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
61382220 ATGAACAAAT
*
61382230 AGCACTAAAGTGCT-AT-A-CAGAG
1 AGCACTAATGTGCTAATAATCAGAG
61382252 AGCACTAATGTGCTAATAATCAGAG
1 AGCACTAATGTGCTAATAATCAGAG
61382277 AGCACTAATGTGCTAATAATCA
1 AGCACTAATGTGCTAATAATCA
61382299 AATAGCGCGC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
22 13 0.30
23 2 0.05
24 1 0.02
25 27 0.63
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (25 bp):
AGCACTAATGTGCTAATAATCAGAG
Found at i:61384523 original size:17 final size:17
Alignment explanation
Indices: 61384501--61384539 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
61384491 CTTTTGCCAA
*
61384501 TTCTTTTTGTAAAGGCT
1 TTCTTTTTGCAAAGGCT
61384518 TTCTTTTTGCAAAGGCT
1 TTCTTTTTGCAAAGGCT
61384535 TTCTT
1 TTCTT
61384540 CCCTTTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (17 bp):
TTCTTTTTGCAAAGGCT
Found at i:61384614 original size:61 final size:61
Alignment explanation
Indices: 61384519--61384677 Score: 309
Period size: 61 Copynumber: 2.6 Consensus size: 61
61384509 GTAAAGGCTT
61384519 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
1 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
*
61384580 TCTTTTTGCAAAGACTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
1 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
61384641 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAG
1 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAG
61384678 CAAGCATCCT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 96 1.00
ACGTcount: A:0.13, C:0.29, G:0.12, T:0.46
Consensus pattern (61 bp):
TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
Found at i:61400399 original size:22 final size:23
Alignment explanation
Indices: 61400359--61400405 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
61400349 AATTGGGTAA
61400359 AAAAAACCCTAACTATCAAATTG
1 AAAAAACCCTAACTATCAAATTG
* *
61400382 AAAAAACCC-AAGTCTCAAATTG
1 AAAAAACCCTAACTATCAAATTG
61400404 AA
1 AA
61400406 CATTGAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.53, C:0.21, G:0.06, T:0.19
Consensus pattern (23 bp):
AAAAAACCCTAACTATCAAATTG
Found at i:61401258 original size:16 final size:16
Alignment explanation
Indices: 61401234--61401268 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
61401224 CTAAAATTTC
61401234 ATTTGTTTTTAAAATT
1 ATTTGTTTTTAAAATT
* *
61401250 ATTTTTTTTTTAAATT
1 ATTTGTTTTTAAAATT
61401266 ATT
1 ATT
61401269 CTTTACTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
ATTTGTTTTTAAAATT
Found at i:61402845 original size:9 final size:9
Alignment explanation
Indices: 61402827--61402861 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
61402817 TTTTTTTTTT
61402827 AAATTTAAA
1 AAATTTAAA
*
61402836 AAA-TTCAA
1 AAATTTAAA
61402844 AAATTTAAA
1 AAATTTAAA
61402853 AAATTTAAA
1 AAATTTAAA
61402862 TATTAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
AAATTTAAA
Found at i:61402849 original size:17 final size:17
Alignment explanation
Indices: 61402827--61402870 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
61402817 TTTTTTTTTT
61402827 AAATTTAAAAAATTCAA
1 AAATTTAAAAAATTCAA
*
61402844 AAATTTAAAAAATTTAA
1 AAATTTAAAAAATTCAA
*
61402861 ATA-TTAAAAA
1 AAATTTAAAAA
61402871 GTATAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTTAAAAAATTCAA
Found at i:61402877 original size:16 final size:15
Alignment explanation
Indices: 61402826--61402877 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
61402816 CTTTTTTTTT
61402826 TAAATTTAAAAAATTCA
1 TAAATTTAAAAAA-T-A
* *
61402843 AAAATTTAAAAAATT
1 TAAATTTAAAAAATA
*
61402858 TAAATATTAAAAAGTA
1 TAAAT-TTAAAAAATA
61402874 TAAA
1 TAAA
61402878 AAGTACCCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 4 0.14
16 13 0.45
17 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
TAAATTTAAAAAATA
Found at i:61403463 original size:18 final size:19
Alignment explanation
Indices: 61403440--61403481 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
61403430 AGATTTCAAG
*
61403440 TTATTCGAATTAA-TCGAA
1 TTATTCGAATCAACTCGAA
*
61403458 TTATTCGAGTCAACTCGAA
1 TTATTCGAATCAACTCGAA
61403477 TTATT
1 TTATT
61403482 TTTTCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (19 bp):
TTATTCGAATCAACTCGAA
Found at i:61409516 original size:51 final size:47
Alignment explanation
Indices: 61409371--61409528 Score: 151
Period size: 51 Copynumber: 3.2 Consensus size: 47
61409361 AAAGGTGGGA
* * *
61409371 CCAAGATGAAAGCCTACAAAGGGCGCTTTGAGTAAAAAAAAA-G-G-G
1 CCAAGGTGAAACCCTACAAAGGG-GCCTTGAGTAAAAAAAAAGGAGAG
* *
61409416 CCAAGGTGAAACCCTACAAATGGGCTCTTTGAGTCAAAAAAAAGAGAGAG
1 CCAAGGTGAAACCCTACAAAGGGGC-C-TTGAGTAAAAAAAAAG-GAGAG
*
61409466 ACCAGGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAAATGGAGAGG
1 -CCAAGGTGAAACCCTACAAAGGG-GCCTTGAGT-AAAAAAAAA-GGAGA-G
*
61409518 CTAAGGTGAAA
1 CCAAGGTGAAA
61409529 ACCCGCAAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
44 2 0.02
45 20 0.22
46 14 0.15
48 1 0.01
49 1 0.01
50 7 0.08
51 43 0.47
52 4 0.04
ACGTcount: A:0.44, C:0.16, G:0.27, T:0.14
Consensus pattern (47 bp):
CCAAGGTGAAACCCTACAAAGGGGCCTTGAGTAAAAAAAAAGGAGAG
Found at i:61410300 original size:13 final size:13
Alignment explanation
Indices: 61410282--61410313 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61410272 TTTCCAGCAA
61410282 TTATGAATTTATT
1 TTATGAATTTATT
61410295 TTATGAATTTATT
1 TTATGAATTTATT
*
61410308 TGATGA
1 TTATGA
61410314 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:61410522 original size:50 final size:50
Alignment explanation
Indices: 61410408--61410649 Score: 286
Period size: 50 Copynumber: 4.7 Consensus size: 50
61410398 ATTTGGGTAA
* * *
61410408 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* *
61410464 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
61410514 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
61410564 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
61410614 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
61410650 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 92 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:61410600 original size:100 final size:103
Alignment explanation
Indices: 61410408--61410657 Score: 353
Period size: 100 Copynumber: 2.4 Consensus size: 103
61410398 ATTTGGGTAA
61410408 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATAAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATAAGAGGTCCC
* * *
61410473 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * * *
61410514 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATAAGAGGTCCCCTA
*
61410576 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* *
61410614 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
61410658 GTTATTATCA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.31
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATAAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:61413232 original size:100 final size:100
Alignment explanation
Indices: 61413059--61413509 Score: 785
Period size: 100 Copynumber: 4.5 Consensus size: 100
61413049 ACCATAGATT
* *
61413059 TTACTTCCTTAGCAGTACAGTGGAACGGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
*
61413124 TGCAATTAAAAAGATTGAAGCCATAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
*
61413159 TTACTTCCTTAGCAGTGCAGTGGAACGGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
61413224 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
61413259 TTACTTCCTTAGCAGTGCAGTGGACCAGATTGAAGCTACGACGGCGAATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
61413324 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * * *
61413359 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGATGACGGATTTGGTGTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
61413424 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * *
61413459 TTACTTCCTTAACAGTGCAGTGGAAAAGATTGAAGCCACGACGGCGGATCT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCT
61413510 TACTTCCTTA
Statistics
Matches: 334, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 334 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (100 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
Found at i:61413689 original size:150 final size:150
Alignment explanation
Indices: 61413086--61413709 Score: 597
Period size: 150 Copynumber: 4.2 Consensus size: 150
61413076 CAGTGGAACG
*
61413086 GATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCATAAC
1 GATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAAC
* ** * * **
61413151 GGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACGGATTGAAGCTACGACGGCGGATCTGGTTTC
66 GGCGGATCTTACTTCCTTAACAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTGACTT-
* * *
61413216 CCTGA-TATTGCAATTAAAAA
130 CCTGAGCAGTGCAATGAAAAA
* * *** * * * * ** ** * *
61413236 GATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAGTGGACCAGATTGAAGCTACGA
1 GATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-TATTGCAATTAAAAAGATTGAAGCCACAA
* *** * * * * * ** *
61413300 CGGCGAATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTT
65 CGGCGGATCTTACTTCCTTAACAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTGACTT
* * * *
61413365 CCTTAGCAGTGCAGTGGAACA
130 CCTGAGCAGTGCAATGAAAAA
* * * *
61413386 GATTGAAGCTACGATGACGGATTTGGTGTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAAC
1 GATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAAC
* *
61413451 GGCGGATCTTACTTCCTTAACAGTGCAGTGGAAAAGATTGAAGCCACGACGGCGGATCTTACTTC
66 GGCGGATCTTACTTCCTTAACAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTGACTTC
* * * *
61413516 CTTAGCAGTGCAGTGGAACA
131 CTGAGCAGTGCAATGAAAAA
* * *
61413536 GATTGAAGCTACGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTAAAGCCACAAT
1 GATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAAC
* * * **
61413601 GGCGGATCTTACTTCCTTAACAGTGCAGTGGAACAGATTGAAGCTACAACGGTGGATCTGGTTTC
66 GGCGGATCTTACTTCCTTAACAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTGACTT-
* * *
61413666 CCTGA-TATTGCAATTAAAAA
130 CCTGAGCAGTGCAATGAAAAA
* * * *
61413686 GATTGATGCCACAACGACGGATCT
1 GATTGAAGCTACGACGGCGGATCT
61413710 TACTTCCCTG
Statistics
Matches: 371, Mismatches: 99, Indels: 8
0.78 0.21 0.02
Matches are distributed among these distances:
149 8 0.02
150 355 0.96
151 8 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (150 bp):
GATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAAC
GGCGGATCTTACTTCCTTAACAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTGACTTC
CTGAGCAGTGCAATGAAAAA
Found at i:61413753 original size:50 final size:50
Alignment explanation
Indices: 61413071--61413793 Score: 468
Period size: 50 Copynumber: 14.5 Consensus size: 50
61413061 ACTTCCTTAG
* ** * * ***
61413071 CAGTACAGTGGAACGGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* * * ** * *
61413121 TATTGCAATTAAAAAGATTGAAGCCATAACGGCGGATCTTACTT-CCTTA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
** * * ***
61413170 GCAGTGCAGTGGAACGGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA
1 -CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* * * ** *
61413221 TATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
** * * * ***
61413270 GCAGTGCAGTGGACCAGATTGAAGCTACGACGGCGAATCTGGTTTCCCTGA
1 -CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* * * ** *
61413321 TATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* * * * * **
61413370 GCAGTGCAGTGGAACAGATTGAAGCTACGATGACGGAT-TTGGTGTCCCTGA
1 -CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACT-TCCCTGA
* * * ** * *
61413421 TATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* *
61413471 CAGTGCAGTGGAAAAGATTGAAGCCACGACGGCGGATCTTACTT-CCTTA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* * * * ***
61413520 GCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGA
1 -CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* * * ** * * * *
61413571 TATTGCAATTAAAAAGATTAAAGCCACAATGGCGGATCTTACTTCCTTAA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* * * ***
61413621 CAGTGCAGTGGAACAGATTGAAGCTACAACGGTGGATCTGGTTTCCCTGA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* * * ** * *
61413671 TATTGCAATTAAAAAGATTGATGCCACAACGACGGATCTTACTTCCCTGA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
* * * * * * * * *
61413721 CGGTGCGGTGGAATAGATTGAAGCTACGACGACAGATC-TAGTTTCCCCGA
1 CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTGA
* *
61413771 CATTGCAGTGGAATAGATTGAAG
1 CAGTGCAGTGGAAAAGATTGAAG
61413794 ATTACAGATC
Statistics
Matches: 489, Mismatches: 173, Indels: 22
0.71 0.25 0.03
Matches are distributed among these distances:
49 20 0.04
50 450 0.92
51 19 0.04
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (50 bp):
CAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA
Done.