Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 81 of 145
Found at i:26971907 original size:12 final size:12
Alignment explanation
Indices: 26971892--26971916 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26971882 ACAAGTCCCT
26971892 AGCGGAGTCGCC
1 AGCGGAGTCGCC
26971904 AGCGGAGTCGCC
1 AGCGGAGTCGCC
26971916 A
1 A
26971917 ATCTGTCGAA
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:0.20, C:0.32, G:0.40, T:0.08
Consensus pattern (12 bp):
AGCGGAGTCGCC
Found at i:26972861 original size:29 final size:28
Alignment explanation
Indices: 26972821--26972898 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 28
26972811 ATAATATATG
*
26972821 TAAATTAAAATATTAAAATAAGTTTAAA
1 TAAATTAAAATATTAAAATAAGTTGAAA
26972849 TAAATTAACAATATTAAAATAAGTTGAAA
1 TAAATTAA-AATATTAAAATAAGTTGAAA
* *
26972878 TGAATTAAAGATGTTAAAATA
1 TAAATTAAA-ATATTAAAATA
26972899 TTTGAAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 9 0.20
29 36 0.80
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (28 bp):
TAAATTAAAATATTAAAATAAGTTGAAA
Found at i:26973239 original size:9 final size:9
Alignment explanation
Indices: 26973216--26973272 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
26973206 TAATATTATC
*
26973216 AATAATAGC
1 AATAATAGT
*
26973225 AGTAATAGT
1 AATAATAGT
26973234 AATAATAGT
1 AATAATAGT
*
26973243 AATAATAAT
1 AATAATAGT
*
26973252 GAA-AGTAGT
1 -AATAATAGT
*
26973261 AATAATAAT
1 AATAATAGT
26973270 AAT
1 AAT
26973273 TATAATAACA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 2 0.05
9 34 0.89
10 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (9 bp):
AATAATAGT
Found at i:26973248 original size:18 final size:18
Alignment explanation
Indices: 26973216--26973272 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
26973206 TAATATTATC
* * *
26973216 AATAATAGCAGTAATAGT
1 AATAATAGTAATAATAAT
26973234 AATAATAGTAATAATAAT
1 AATAATAGTAATAATAAT
*
26973252 GAA-AGTAGTAATAATAAT
1 -AATAATAGTAATAATAAT
26973270 AAT
1 AAT
26973273 TATAATAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 29 0.88
19 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (18 bp):
AATAATAGTAATAATAAT
Found at i:26978952 original size:18 final size:18
Alignment explanation
Indices: 26978915--26978952 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
26978905 TAAATGATGA
26978915 ATTTGAAGTATTAGTTGTT
1 ATTTGAAGTATTA-TTGTT
26978934 ATTTGTAAGTATT-TTGTT
1 ATTTG-AAGTATTATTGTT
26978952 A
1 A
26978953 AGTGATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.55
Consensus pattern (18 bp):
ATTTGAAGTATTATTGTT
Found at i:26980385 original size:20 final size:20
Alignment explanation
Indices: 26980360--26980414 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
26980350 AAGCTTATGC
26980360 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
26980380 TAAGTAAAT-GAAGTGGAAAG
1 TAAGTAAATGGAA-TGGAAAG
26980400 TAAGTAAATGGAATG
1 TAAGTAAATGGAATG
26980415 ATTCATCGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:26980970 original size:26 final size:26
Alignment explanation
Indices: 26980936--26980987 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
26980926 AAATTGTATT
26980936 TTTGTGTGGAAGTTCTAATGATCATA
1 TTTGTGTGGAAGTTCTAATGATCATA
26980962 TTTGTGTGGAAGTTCTAATGATCATA
1 TTTGTGTGGAAGTTCTAATGATCATA
26980988 ATTATGGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (26 bp):
TTTGTGTGGAAGTTCTAATGATCATA
Found at i:26983441 original size:20 final size:20
Alignment explanation
Indices: 26983416--26983487 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
26983406 TATAAGCCAC
*
26983416 TCCATTTACTTACTTACCAT
1 TCCATTTACTTACTTTCCAT
26983436 TCCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
*
26983456 TTCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
26983476 TCCATTTACTTA
1 TCCATTTACTTA
26983488 GCATAACCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (20 bp):
TCCATTTACTTACTTTCCAT
Found at i:26983476 original size:15 final size:16
Alignment explanation
Indices: 26983425--26983457 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
26983415 CTCCATTTAC
26983425 TTACTTACCATTCCAT
1 TTACTTACCATTCCAT
*
26983441 TTACTTA-CTTTCCAT
1 TTACTTACCATTCCAT
26983456 TT
1 TT
26983458 CATTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACTTACCATTCCAT
Found at i:26998837 original size:28 final size:28
Alignment explanation
Indices: 26998783--26998838 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
26998773 CTTTCCCTCC
*
26998783 AAAACTTTTACTCCCTCCCACTTCCCCT
1 AAAACTTTTACTCCCTCCCACTCCCCCT
26998811 AAAACTTTTACTCCCCTCCCA-TCCCCCT
1 AAAACTTTTACT-CCCTCCCACTCCCCCT
26998839 TCTACCCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.21, C:0.48, G:0.00, T:0.30
Consensus pattern (28 bp):
AAAACTTTTACTCCCTCCCACTCCCCCT
Found at i:27009067 original size:23 final size:22
Alignment explanation
Indices: 27009018--27009060 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
27009008 TCGGCTGCCA
*
27009018 TTCTTTTTCCCTAATTTTTCTC
1 TTCTTTTTACCTAATTTTTCTC
*
27009040 TTCTTTTTATCTAATTTTTCT
1 TTCTTTTTACCTAATTTTTCT
27009061 TGTTCTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCTTTTTACCTAATTTTTCTC
Found at i:27009666 original size:31 final size:31
Alignment explanation
Indices: 27009628--27009687 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
27009618 TGTTTGCAAT
*
27009628 TTCTTATCCACTTTTATATGCAATTTCTTAA
1 TTCTTATCCACTTTCATATGCAATTTCTTAA
27009659 TTCTTATCCACTTTCATATGCAATTTCTT
1 TTCTTATCCACTTTCATATGCAATTTCTT
27009688 TTTGCTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.22, G:0.03, T:0.52
Consensus pattern (31 bp):
TTCTTATCCACTTTCATATGCAATTTCTTAA
Found at i:27016818 original size:22 final size:21
Alignment explanation
Indices: 27016790--27016852 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 21
27016780 TCGAAATACT
* *
27016790 AACAGAGGCATCGTAGTGCAA
1 AACAGAGGCACCGAAGTGCAA
*
27016811 ATACAGAGGCACCAAAGTGC-A
1 A-ACAGAGGCACCGAAGTGCAA
27016832 AACAGAGGCACCGAAGTGCAA
1 AACAGAGGCACCGAAGTGCAA
27016853 TATCATTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 17 0.47
21 4 0.11
22 15 0.42
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.10
Consensus pattern (21 bp):
AACAGAGGCACCGAAGTGCAA
Found at i:27018552 original size:14 final size:14
Alignment explanation
Indices: 27018518--27018556 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
27018508 CTTTTTCTGA
*
27018518 ATTTTATTCTCTTTG
1 ATTTTATT-TTTTTG
*
27018533 ATTTTATTTTTTTT
1 ATTTTATTTTTTTG
27018547 ATTTTATTTT
1 ATTTTATTTT
27018557 ACTCATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (14 bp):
ATTTTATTTTTTTG
Found at i:27020976 original size:38 final size:38
Alignment explanation
Indices: 27020956--27021037 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
27020946 TATTTATTTA
27020956 ATTTCTAGAAACCCTAAAAATAGATATAAAAATCTTAT
1 ATTTCTAGAAACCCTAAAAATAGATATAAAAATCTTAT
27020994 ATTTCTAGAAACCCTAAAAATAGATATAAAAATCTTAT
1 ATTTCTAGAAACCCTAAAAATAGATATAAAAATCTTAT
*
27021032 TTTTCT
1 ATTTCT
27021038 TTGTTTGAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.35
Consensus pattern (38 bp):
ATTTCTAGAAACCCTAAAAATAGATATAAAAATCTTAT
Found at i:27025049 original size:21 final size:20
Alignment explanation
Indices: 27025025--27025063 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27025015 TATTAAATAA
27025025 AAAATGATTATCAAACACATT
1 AAAAT-ATTATCAAACACATT
*
27025046 AAAATTTTATCAAACACA
1 AAAATATTATCAAACACA
27025064 CCCTAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAATATTATCAAACACATT
Found at i:27027742 original size:24 final size:24
Alignment explanation
Indices: 27027715--27027762 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
27027705 AGTTTGGTCC
*
27027715 CTCTATTATTATAATCTCGTTAGT
1 CTCTATTATTATAATCCCGTTAGT
27027739 CTCTATTATTATAATCCCGTTAGT
1 CTCTATTATTATAATCCCGTTAGT
27027763 TAATCCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (24 bp):
CTCTATTATTATAATCCCGTTAGT
Found at i:27029020 original size:30 final size:30
Alignment explanation
Indices: 27028978--27029049 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
27028968 TAAAAAAAAG
*
27028978 AAAATTGAAGGGGTTAAATCATAAATATTC
1 AAAATTGAAGGGGTTAAATCAAAAATATTC
* **
27029008 AAAAGTTG-AGGGGTTAAATTAAAAATATAA
1 AAAA-TTGAAGGGGTTAAATCAAAAATATTC
27029038 AAAATTTGAAGG
1 AAAA-TTGAAGG
27029050 ACTAAAGTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 29 0.83
31 6 0.17
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (30 bp):
AAAATTGAAGGGGTTAAATCAAAAATATTC
Found at i:27036676 original size:16 final size:15
Alignment explanation
Indices: 27036655--27036689 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
27036645 TGAATATAAA
*
27036655 TATATAATTATTATTT
1 TATATAATTAAT-TTT
27036671 TATATAATTAATTTT
1 TATATAATTAATTTT
27036686 TATA
1 TATA
27036690 ATATAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATAATTAATTTT
Found at i:27036689 original size:13 final size:14
Alignment explanation
Indices: 27036655--27036696 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
27036645 TGAATATAAA
27036655 TATATAATTATTATTT
1 TATATAATTA--ATTT
27036671 TATATAATTAATTT
1 TATATAATTAATTT
27036685 T-TATAATATAAT
1 TATATAAT-TAAT
27036697 ATACTTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.24
14 9 0.36
16 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATAATTAATTT
Found at i:27037422 original size:18 final size:19
Alignment explanation
Indices: 27037386--27037425 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
27037376 AAATACACAT
*
27037386 ATTTTCAAAAATATAATAA
1 ATTTTAAAAAATATAATAA
*
27037405 ATTTTAAAAAATGT-ATAA
1 ATTTTAAAAAATATAATAA
27037423 ATT
1 ATT
27037426 ACATTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (19 bp):
ATTTTAAAAAATATAATAA
Found at i:27044067 original size:14 final size:15
Alignment explanation
Indices: 27044050--27044090 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
27044040 ATGAAATGAA
27044050 AAAATGAAAAAGT-G
1 AAAATGAAAAAGTGG
*
27044064 AAAATGAGAAA-TGG
1 AAAATGAAAAAGTGG
27044078 AAAATGGAAAAAG
1 AAAAT-GAAAAAG
27044091 AAAAGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.05
14 16 0.73
15 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.12
Consensus pattern (15 bp):
AAAATGAAAAAGTGG
Found at i:27045524 original size:44 final size:44
Alignment explanation
Indices: 27045383--27046238 Score: 850
Period size: 44 Copynumber: 19.4 Consensus size: 44
27045373 GCTAAAAATC
* * *
27045383 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
*** * *** *
27045427 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCAGAGAT
*** *
27045472 AATGGATCTTATCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
*
27045516 AGCAGATCTTGTCTTCATGTATTGATATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
* *
27045560 AGCAGATCTTATATTCATGTATTGACATGAAGTAGATC-GAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGAT
* *
27045604 -G-ATGGATTTTGTCTTCATGTATTGACATGGAGTAGATCAGAGAT
1 AGCA--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
* *
27045648 AGCAGATATTATCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
* * *
27045692 AGCAGATCTTATTTTCATGTATTGACATGAAGTAGATC-GAAGGT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGAT
***
27045736 AATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
* *** * *** * *
27045780 AGCAGATTTTGTCTTCCCATACTGGTGGTGAAGTAGAT-TGAAGGT
1 AGCAGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCAG-AGAT
*** *
27045825 AATGGATCTTGTCTTCATGTATTGACATGGAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
27045869 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
* * *
27045913 AGCATATCTTATCTTCATGTATTAACATGAAGTAGATC-GAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGAT
***
27045957 AATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
* * * *
27046001 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGAT
* * * *
27046045 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGAT
* * * ** *
27046089 AGCAAATCTTGTCTTCCTGTACTGGTAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACA-TGAAGTAGATCAGAGAT
* *** * ** * *
27046134 AACAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCATGTATTGACA-TGAAGTAGATCAG-AGAT
* * *
27046179 AGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATC-GAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGAT
27046223 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
27046239 CCATACTGGT
Statistics
Matches: 681, Mismatches: 113, Indels: 36
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.00
43 5 0.01
44 536 0.79
45 138 0.20
46 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
Found at i:27046034 original size:353 final size:352
Alignment explanation
Indices: 27045386--27046238 Score: 1248
Period size: 353 Copynumber: 2.4 Consensus size: 352
27045376 AAAAATCAGC
*
27045386 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
* * *
27045451 GTGGTGAAGTAGATCAAAGATAATGGATCTTATCTTCATGTATTGACATGAAGTAGATCAGAGAT
66 GTGGTGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
*
27045516 AGCAGATCTTGTCTTCATGTATTGATATGAAGTAGATCAGAGATAGCAGATCTTATATTCATGTA
131 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTATATTCATGTA
* * * *
27045581 TTGACATGAAGTAGATCGAAGATGATGGATTTTGTCTTCATGTATTGACATGGAGTAGATCAGAG
196 TTAACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAG
* * *
27045646 ATAGCAGATATTATCTTCATGTATTGACATGAAGTAGATC-AGAGATAGCAGATCTTATTTTCAT
261 ATAGCAGATATTATCTTCATGTACTGACATGAAGTAGATCGA-AGAAAGCAGATCTTATCTTCAT
* *
27045710 GTATTGACATGAAGTAGATCGAAGGTAATG
325 GTACTGACATGAAGTAGATCGAA-G-AAAG
* * *
27045740 -GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATTTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
* *
27045804 GTGGTGAAGTAGATTGAAGGTAATGGATCTTGTCTTCATGTATTGACATGGAGTAGATCAGAGAT
66 GTGGTGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
* *
27045869 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCATATCTTATCTTCATGTA
131 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTATATTCATGTA
27045934 TTAACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAG
196 TTAACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAG
* * * * *
27045999 ATAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATG
261 ATAGCAGATATTATCTTCATGTACTGACATGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATG
* *
27046064 TACTGGCGTGAAGTAGATCGAAGAAAG
326 TACTGACATGAAGTAGATCGAAGAAAG
* * * * *
27046091 CAAATCTTGTCTTCCTGTACTGGTAGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATAC
1 -AGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATAC
* * * * * *
27046156 TGGTAGCGAAGTAGATCGAA-G-AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATC-G
64 TGGTGGTGAAGTAGATCGAAGGTAATG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAG
27046218 AAGATAGCAGATCTTGTCTTC
127 -AGATAGCAGATCTTGTCTTC
27046239 CCATACTGGT
Statistics
Matches: 448, Mismatches: 44, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
351 3 0.01
352 4 0.01
353 337 0.75
354 104 0.23
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (352 bp):
AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
GTGGTGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTATATTCATGTA
TTAACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAG
ATAGCAGATATTATCTTCATGTACTGACATGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATG
TACTGACATGAAGTAGATCGAAGAAAG
Found at i:27046986 original size:109 final size:109
Alignment explanation
Indices: 27046815--27047025 Score: 314
Period size: 109 Copynumber: 1.9 Consensus size: 109
27046805 AGCATTTGCA
* * *
27046815 CGCAGCCACTGCACATCCTAACAACAGCCCCGCACATGTCGCACACGTTCGCCTCCATGTTGACT
1 CGCAGCCACCGCACATCCTAACAACAGCCCCGCACATGTCGCACACATTCGCCTCCACGTTGACT
* * *
27046880 GGTCGTACCTGCAGCAACAATCAGAAACAAACAGCAAATTTTCC
66 GGCCGTACCTACAGCAACAAGCAGAAACAAACAGCAAATTTTCC
* * * **
27046924 CGCAGCCGCCGCACATCCTAACAGCAGCCCCGTACATGTCGTGCACATTCGCCTCCACGTTGACT
1 CGCAGCCACCGCACATCCTAACAACAGCCCCGCACATGTCGCACACATTCGCCTCCACGTTGACT
*
27046989 GGCCGTACCTACAGGAACAAGCAGAAACAAACAGCAA
66 GGCCGTACCTACAGCAACAAGCAGAAACAAACAGCAA
27047026 CGAAATAATA
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 90 1.00
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.16
Consensus pattern (109 bp):
CGCAGCCACCGCACATCCTAACAACAGCCCCGCACATGTCGCACACATTCGCCTCCACGTTGACT
GGCCGTACCTACAGCAACAAGCAGAAACAAACAGCAAATTTTCC
Found at i:27050615 original size:30 final size:29
Alignment explanation
Indices: 27050581--27050644 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
27050571 TTAATAAAGG
* **
27050581 TAAAATTATACTTTAATTCTCTAAAAATGA
1 TAAAATT-TAATTTAAGCCTCTAAAAATGA
*
27050611 TAAAAATTTAATTTAAGCCTTTAAAAATGA
1 T-AAAATTTAATTTAAGCCTCTAAAAATGA
27050641 TAAA
1 TAAA
27050645 GATATAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 3 0.10
30 20 0.69
31 6 0.21
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (29 bp):
TAAAATTTAATTTAAGCCTCTAAAAATGA
Found at i:27054088 original size:25 final size:25
Alignment explanation
Indices: 27054060--27054193 Score: 180
Period size: 25 Copynumber: 5.4 Consensus size: 25
27054050 ATACAATACA
* *
27054060 CCACAAAGACTTTTTAGATAATTCG
1 CCACAAAGGCTTTTCAGATAATTCG
* * *
27054085 CCACAAAGGCTTTACAGATAACTCA
1 CCACAAAGGCTTTTCAGATAATTCG
27054110 CCACAAAGGCTTTTCAGATAATTCG
1 CCACAAAGGCTTTTCAGATAATTCG
* * *
27054135 CCATAAAGGCTTTACAGATAACTT-A
1 CCACAAAGGCTTTTCAGATAA-TTCG
27054160 CCACAAAGGCTTTTCAGATAATTCG
1 CCACAAAGGCTTTTCAGATAATTCG
27054185 CCACAAAGG
1 CCACAAAGG
27054194 TTTGCCACCA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
24 2 0.02
25 89 0.96
26 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (25 bp):
CCACAAAGGCTTTTCAGATAATTCG
Found at i:27054112 original size:50 final size:50
Alignment explanation
Indices: 27054058--27054193 Score: 236
Period size: 50 Copynumber: 2.7 Consensus size: 50
27054048 TCATACAATA
* *
27054058 CACCACAAAGACTTTTTAGATAATTCGCCACAAAGGCTTTACAGATAACT
1 CACCACAAAGGCTTTTCAGATAATTCGCCACAAAGGCTTTACAGATAACT
*
27054108 CACCACAAAGGCTTTTCAGATAATTCGCCATAAAGGCTTTACAGATAACT
1 CACCACAAAGGCTTTTCAGATAATTCGCCACAAAGGCTTTACAGATAACT
*
27054158 TACCACAAAGGCTTTTCAGATAATTCGCCACAAAGG
1 CACCACAAAGGCTTTTCAGATAATTCGCCACAAAGG
27054194 TTTGCCACCA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (50 bp):
CACCACAAAGGCTTTTCAGATAATTCGCCACAAAGGCTTTACAGATAACT
Found at i:27059930 original size:74 final size:75
Alignment explanation
Indices: 27059852--27060009 Score: 300
Period size: 74 Copynumber: 2.1 Consensus size: 75
27059842 TTATTTGATT
27059852 TTATAATATTAGAAATCACCATACCCCCACAATATAGGTGGAGAAAATAAAAATTTGACATAT-A
1 TTATAATATTAGAAATCACCATACCCCCACAATATAGGTGGAGAAAATAAAAATTTGACATATAA
27059916 ATATTATATA
66 ATATTATATA
27059926 TTATAATATTAGAAATCACCATACCCCCACAATATAGGTGGAGAAAATAAAAATTTGACATATAA
1 TTATAATATTAGAAATCACCATACCCCCACAATATAGGTGGAGAAAATAAAAATTTGACATATAA
27059991 ATATTATATA
66 ATATTATATA
*
27060001 TTAAAATAT
1 TTATAATAT
27060010 ATATATCTAA
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
74 63 0.77
75 19 0.23
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (75 bp):
TTATAATATTAGAAATCACCATACCCCCACAATATAGGTGGAGAAAATAAAAATTTGACATATAA
ATATTATATA
Found at i:27060012 original size:14 final size:16
Alignment explanation
Indices: 27059989--27060020 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27059979 TTTGACATAT
27059989 AAATATTATATAT-TA
1 AAATATTATATATCTA
27060004 AAATA-TATATATCTA
1 AAATATTATATATCTA
27060019 AA
1 AA
27060021 TAATTAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATATTATATATCTA
Found at i:27062935 original size:10 final size:10
Alignment explanation
Indices: 27062922--27062991 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
27062912 AAATTCAAAG
27062922 AAATATATAA
1 AAATATATAA
*
27062932 AAATATGTAA
1 AAATATATAA
** * *
27062942 CTATTTTTAA
1 AAATATATAA
*
27062952 AAATAAATAA
1 AAATATATAA
*
27062962 TAAA-ATTTAA
1 -AAATATATAA
27062972 AAATATATAA
1 AAATATATAA
*
27062982 AAATAAATAA
1 AAATATATAA
27062992 TTTCAAAAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
9 3 0.07
10 38 0.86
11 3 0.07
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (10 bp):
AAATATATAA
Found at i:27062986 original size:26 final size:26
Alignment explanation
Indices: 27062956--27063006 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
27062946 TTTTAAAAAT
*
27062956 AAATAATAAAATTT-AAAAATATATAA
1 AAATAA-AAAATTTCAAAAAAATATAA
*
27062982 AAATAAATAATTTCAAAAAAATATA
1 AAATAAAAAATTTCAAAAAAATATA
27063007 GTAAAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATAAAAAATTTCAAAAAAATATAA
Found at i:27063593 original size:20 final size:20
Alignment explanation
Indices: 27063570--27063639 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
27063560 NAATTATTAT
27063570 TATATTTTTAAAAATATTTA
1 TATATTTTTAAAAATATTTA
**
27063590 TATATTTTTAAATTTATTATTA
1 TATATTTTTAAAAATA-T-TTA
*
27063612 TATAATTTT-AAAATATTTA
1 TATATTTTTAAAAATATTTA
*
27063631 TGTATTTTT
1 TATATTTTT
27063640 TTAAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
19 10 0.24
20 15 0.37
21 5 0.12
22 11 0.27
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (20 bp):
TATATTTTTAAAAATATTTA
Found at i:27063631 original size:22 final size:21
Alignment explanation
Indices: 27063566--27063650 Score: 72
Period size: 21 Copynumber: 4.1 Consensus size: 21
27063556 NNNNNAATTA
27063566 TTATTATAT-TTTTAAAAATAT
1 TTATTATATATTTT-AAAATAT
*
27063587 TTA-TATAT-TTTT-AAATTT
1 TTATTATATATTTTAAAATAT
27063605 ATTATTATATAATTTTAAAATAT
1 -TTATTATAT-ATTTTAAAATAT
* *
27063628 TTATGTAT-TTTTTTAAAAAAT
1 TTAT-TATATATTTTAAAATAT
27063649 TT
1 TT
27063651 TAGAATTAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
18 5 0.09
19 3 0.06
20 14 0.26
21 15 0.28
22 9 0.17
23 8 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (21 bp):
TTATTATATATTTTAAAATAT
Found at i:27063644 original size:43 final size:40
Alignment explanation
Indices: 27063563--27063639 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
27063553 NNNNNNNNAA
27063563 TTATTATTATATTTTTAAAAATATTTATATATTTTTAAAT
1 TTATTATTATATTTTTAAAAATATTTATATATTTTTAAAT
*
27063603 TTATTATTATATAATTTT-AAAATATTTATGTATTTTT
1 TTATTATTATAT--TTTTAAAAATATTTATATATTTTT
27063640 TTAAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
40 12 0.35
41 18 0.53
42 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (40 bp):
TTATTATTATATTTTTAAAAATATTTATATATTTTTAAAT
Found at i:27064343 original size:104 final size:104
Alignment explanation
Indices: 27064163--27064692 Score: 1060
Period size: 104 Copynumber: 5.1 Consensus size: 104
27064153 AAACCGAAAA
27064163 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
1 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
27064228 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
66 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
27064267 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
1 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
27064332 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
66 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
27064371 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
1 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
27064436 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
66 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
27064475 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
1 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
27064540 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
66 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
27064579 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
1 AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
27064644 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
66 TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
27064683 AATTCGGTTA
1 AATTCGGTTA
27064693 TAGTAATTTC
Statistics
Matches: 426, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 426 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (104 bp):
AATTCGGTTAACCGACCTTATTAACCGAAAAAATTTCGGTTAGGTTAAATTTTTTTTTAAAAAAA
TCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTT
Found at i:27064721 original size:12 final size:12
Alignment explanation
Indices: 27064704--27064728 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27064694 AGTAATTTCG
27064704 GGTCGGTTAACC
1 GGTCGGTTAACC
27064716 GGTCGGTTAACC
1 GGTCGGTTAACC
27064728 G
1 G
27064729 AATGAACACC
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:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:27066799 original size:130 final size:131
Alignment explanation
Indices: 27066618--27066882 Score: 523
Period size: 130 Copynumber: 2.0 Consensus size: 131
27066608 CCACCCGCCA
27066618 ACCCCTTCCCCTACTAAGCCCCCAACTCACCCACCTGTTTACCCCCCGCCCAAAGCACCCAAGAT
1 ACCCCTTCCCCTACTAAGCCCCCAACTCACCCACCTGTTTACCCCCCGCCCAAAGCACCCAAGAT
27066683 TGCTCCAGTTTATCCACCACCCAAGTCACCAAGCAAGCCGCCAACTTACGCTCCTCCA-CCAAGT
66 TGCTCCAGTTTATCCACCACCCAAGTCACCAAGCAAGCCGCCAACTTACGCTCCTCCACCCAAGT
27066747 C
131 C
27066748 ACCCCTTCCCCTACTAAGCCCCCAACTCACCCACCTGTTTACCCCCCGCCCAAAGCACCCAAGAT
1 ACCCCTTCCCCTACTAAGCCCCCAACTCACCCACCTGTTTACCCCCCGCCCAAAGCACCCAAGAT
27066813 TGCTCCAGTTTATCCACCACCCAAGTCACCAAGCAAGCCGCCAACTTACGCTCCTCCACCCAAGT
66 TGCTCCAGTTTATCCACCACCCAAGTCACCAAGCAAGCCGCCAACTTACGCTCCTCCACCCAAGT
27066878 C
131 C
27066879 ACCC
1 ACCC
27066883 AGCAAGCCGC
Statistics
Matches: 134, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 123 0.92
131 11 0.08
ACGTcount: A:0.25, C:0.48, G:0.10, T:0.17
Consensus pattern (131 bp):
ACCCCTTCCCCTACTAAGCCCCCAACTCACCCACCTGTTTACCCCCCGCCCAAAGCACCCAAGAT
TGCTCCAGTTTATCCACCACCCAAGTCACCAAGCAAGCCGCCAACTTACGCTCCTCCACCCAAGT
C
Found at i:27066872 original size:39 final size:39
Alignment explanation
Indices: 27066829--27066922 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 39
27066819 AGTTTATCCA
27066829 CCACCCAAGTCACCAAGCAAGCCGCCAACTTACGCTCCT
1 CCACCCAAGTCACCAAGCAAGCCGCCAACTTACGCTCCT
*
27066868 CCACCCAAGTCACCCAGCAAGCCGCCAACTTACGCTCCT
1 CCACCCAAGTCACCAAGCAAGCCGCCAACTTACGCTCCT
*
27066907 CCGA-CCAAGCCACCAA
1 CC-ACCCAAGTCACCAA
27066923 CTTACGCCCC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
39 50 0.98
40 1 0.02
ACGTcount: A:0.29, C:0.48, G:0.13, T:0.11
Consensus pattern (39 bp):
CCACCCAAGTCACCAAGCAAGCCGCCAACTTACGCTCCT
Found at i:27066923 original size:27 final size:27
Alignment explanation
Indices: 27066885--27066948 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
27066875 AGTCACCCAG
* *
27066885 CAAGCCGCCAACTTACGCTCCTCCGA-C
1 CAAGCCACCAACTTACGCCCCTCC-ACC
27066912 CAAGCCACCAACTTACGCCCCTCCACC
1 CAAGCCACCAACTTACGCCCCTCCACC
27066939 CAAGCCACCA
1 CAAGCCACCA
27066949 GTTTATCCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.27, C:0.52, G:0.11, T:0.11
Consensus pattern (27 bp):
CAAGCCACCAACTTACGCCCCTCCACC
Found at i:27069400 original size:11 final size:11
Alignment explanation
Indices: 27069384--27069411 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27069374 ATTTTGTTTT
27069384 AAATTTCCACC
1 AAATTTCCACC
27069395 AAATTTCCACC
1 AAATTTCCACC
27069406 AAATTT
1 AAATTT
27069412 AAATTAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTTCCACC
Found at i:27071980 original size:29 final size:29
Alignment explanation
Indices: 27071905--27072079 Score: 151
Period size: 30 Copynumber: 6.0 Consensus size: 29
27071895 TTTGATTTAT
* *
27071905 GTTTAGGGTTTTTGAGTTTGGGGATTTAGG
1 GTTTAGGGTTTTTGAATTTGGGGATTT-TG
* * *
27071935 GTTTTA-AGTTGTCGAATTTGGGGATTTTG
1 G-TTTAGGGTTTTTGAATTTGGGGATTTTG
* *
27071964 GTTTATGGTTGTTGAATTTGGGGATTTTTG
1 GTTTAGGGTTTTTGAATTTGGGGA-TTTTG
*
27071994 G-TTAGCGG-TTTT-AATTTTGGGGATTTTT
1 GTTTAG-GGTTTTTGAA-TTTGGGGATTTTG
* * *
27072022 GTTTAGGGTTTTTTAATATTGTGGATTTTT
1 GTTTAGGGTTTTTGAAT-TTGGGGATTTTG
* *
27072052 GTTTAGGGTTTTTAAATTTTGGGATTTT
1 GTTTAGGGTTTTTGAATTTGGGGATTTT
27072080 TTTGTTTTCG
Statistics
Matches: 122, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
28 13 0.11
29 50 0.41
30 55 0.45
31 4 0.03
ACGTcount: A:0.15, C:0.01, G:0.30, T:0.53
Consensus pattern (29 bp):
GTTTAGGGTTTTTGAATTTGGGGATTTTG
Found at i:27071995 original size:30 final size:30
Alignment explanation
Indices: 27071905--27072080 Score: 159
Period size: 29 Copynumber: 6.0 Consensus size: 30
27071895 TTTGATTTAT
* **
27071905 GTTTAGGGTTTTTGAGTTTGGGGATTTAGG
1 GTTTAGGGTTTTTGAATTTGGGGATTTTTG
* * *
27071935 GTTTTA-AGTTGTCGAATTTGGGGA-TTTTG
1 G-TTTAGGGTTTTTGAATTTGGGGATTTTTG
* *
27071964 GTTTATGGTTGTTGAATTTGGGGATTTTTG
1 GTTTAGGGTTTTTGAATTTGGGGATTTTTG
27071994 G-TTAGCGG-TTTT-AATTTTGGGGATTTTT-
1 GTTTAG-GGTTTTTGAA-TTTGGGGATTTTTG
* *
27072022 GTTTAGGGTTTTTTAATATTGTGGATTTTT-
1 GTTTAGGGTTTTTGAAT-TTGGGGATTTTTG
* *
27072052 GTTTAGGGTTTTTAAATTTTGGGATTTTT
1 GTTTAGGGTTTTTGAATTTGGGGATTTTT
27072081 TTGTTTTCGA
Statistics
Matches: 123, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
28 9 0.07
29 58 0.47
30 52 0.42
31 4 0.03
ACGTcount: A:0.15, C:0.01, G:0.30, T:0.53
Consensus pattern (30 bp):
GTTTAGGGTTTTTGAATTTGGGGATTTTTG
Found at i:27072022 original size:59 final size:60
Alignment explanation
Indices: 27071951--27072080 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 60
27071941 AGTTGTCGAA
* *
27071951 TTTGGGGATTTTGGTTTATGGTTGTTGAAT-TTGGGGATTTTTGGTTAGCGG-TTTT-AAT
1 TTTGGGGATTTTTGTTTAGGGTTGTTGAATATTGGGGATTTTTGGTTAG-GGTTTTTAAAT
* * * *
27072009 TTTGGGGATTTTTGTTTAGGGTTTTTTAATATTGTGGATTTTTGTTTAGGGTTTTTAAAT
1 TTTGGGGATTTTTGTTTAGGGTTGTTGAATATTGGGGATTTTTGGTTAGGGTTTTTAAAT
27072069 TTT-GGGATTTTT
1 TTTGGGGATTTTT
27072081 TTGTTTTCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
58 28 0.44
59 29 0.46
60 6 0.10
ACGTcount: A:0.15, C:0.01, G:0.28, T:0.56
Consensus pattern (60 bp):
TTTGGGGATTTTTGTTTAGGGTTGTTGAATATTGGGGATTTTTGGTTAGGGTTTTTAAAT
Found at i:27073121 original size:48 final size:48
Alignment explanation
Indices: 27073025--27073121 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
27073015 GGGTGTTGAA
** * * *
27073025 GGTTTAAATGGGGAGGGTGTTAAGGTTGTTGGTAGTAAAGGTGATGAG
1 GGTTTAAATAAGGAGGGTGTTAAGGTTGTTGGCAATAAAAGTGATGAG
* *
27073073 GGTTTAAATAAGGAGGGTGTTGAGGTTGTTGGCAATAAAAGTGGTGAG
1 GGTTTAAATAAGGAGGGTGTTAAGGTTGTTGGCAATAAAAGTGATGAG
27073121 G
1 G
27073122 TTGAGGGTGG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.27, C:0.01, G:0.42, T:0.30
Consensus pattern (48 bp):
GGTTTAAATAAGGAGGGTGTTAAGGTTGTTGGCAATAAAAGTGATGAG
Found at i:27073158 original size:81 final size:81
Alignment explanation
Indices: 27073073--27073222 Score: 239
Period size: 81 Copynumber: 1.9 Consensus size: 81
27073063 AGGTGATGAG
*
27073073 GGTTTAAATAAGG-AGGGTGTTGAGGTTGTTGGCAATAAAAGTGGTGAGGTTGAGGGTGGTGAAG
1 GGTTTAAAT-AGGTAGGGTGTGGAGGTTGTTGGCAATAAAAGTGGTGAGGTTGAGGGTGGTGAAG
27073137 ATGGTGAGAGTGTTGAA
65 ATGGTGAGAGTGTTGAA
* * * *
27073154 GGTTTAAATAGGTAGGGTGTGGAGGTTGTTGGCAGTTAAGGTGGTGAGGTTGAGGGTGGTGAAGG
1 GGTTTAAATAGGTAGGGTGTGGAGGTTGTTGGCAATAAAAGTGGTGAGGTTGAGGGTGGTGAAGA
27073219 TGGT
66 TGGT
27073223 AAGGGTATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 3 0.05
81 60 0.95
ACGTcount: A:0.23, C:0.01, G:0.46, T:0.29
Consensus pattern (81 bp):
GGTTTAAATAGGTAGGGTGTGGAGGTTGTTGGCAATAAAAGTGGTGAGGTTGAGGGTGGTGAAGA
TGGTGAGAGTGTTGAA
Found at i:27075870 original size:158 final size:157
Alignment explanation
Indices: 27075614--27075925 Score: 453
Period size: 158 Copynumber: 2.0 Consensus size: 157
27075604 GGTGAGGGTC
* * * *
27075614 ACAACAGAAGATCATGCATTCAACCTAACACAACTGGATCACAAGTATATCGTAAACACTTTTTC
1 ACAACAAAAGATCATGCAATCAACCTAACACAACTAGATCACAAGTATATCATAAACACTTTTTC
* * * **
27075679 ACTGTCAAGTTCCAACATATTTAAATCTAATTTGGGGTTTTGTATTTTTTTCTCAATCTGATATG
66 ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGGGTTGTG-ATTTTTTTCTCAATCTGATACA
*
27075744 AGTATAAGAACTAGAAGCCAAAAAAAGA
130 AGTACAAGAACTAGAAGCCAAAAAAAGA
* *
27075772 ACAACAAAATATCATGCAATCAACCTAACACAACTAGATCACAAGTATATCATAAACACTTTTTT
1 ACAACAAAAGATCATGCAATCAACCTAACACAACTAGATCACAAGTATATCATAAACACTTTTTC
* * ** * *
27075837 ACTATCAAGTTCCAAAATATTTAAATTTAATTTGGGGTTGTGATTTTTTTGTCTGTTTGGTACAA
66 ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGGGTTGTGATTTTTTTCTCAATCTGATACAA
27075902 GTACAAGAACTAGAAGCCAAAAAA
131 GTACAAGAACTAGAAGCCAAAAAA
27075926 GGAGGGTATA
Statistics
Matches: 136, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
157 39 0.29
158 97 0.71
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (157 bp):
ACAACAAAAGATCATGCAATCAACCTAACACAACTAGATCACAAGTATATCATAAACACTTTTTC
ACTATCAAGTTCCAAAATATTTAAATCTAATTTGGGGTTGTGATTTTTTTCTCAATCTGATACAA
GTACAAGAACTAGAAGCCAAAAAAAGA
Found at i:27081970 original size:5 final size:5
Alignment explanation
Indices: 27081960--27082488 Score: 1017
Period size: 5 Copynumber: 106.2 Consensus size: 5
27081950 CTTCATCACC
27081960 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
27082010 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
27082060 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
27082110 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
27082160 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
27082210 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
27082260 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
27082310 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
27082360 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
*
27082410 TCATA TCATA TCATA TC-TA TCATA TCATA TCATA TCATA TCATA TCTTA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
* *
27082459 TCTTA TCTTA TCATA TCATA TCATA -CATA T
1 TCATA TCATA TCATA TCATA TCATA TCATA T
27082489 TAGAAGCAAA
Statistics
Matches: 520, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
4 8 0.02
5 512 0.98
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (5 bp):
TCATA
Found at i:27084173 original size:41 final size:42
Alignment explanation
Indices: 27084118--27084203 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 42
27084108 TTAATTTAAA
*
27084118 CAGATTCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
*
27084160 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
27084201 CAG
1 CAG
27084204 TTCTAGCCTG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
41 38 0.90
42 4 0.10
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (42 bp):
CAGATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:27090167 original size:25 final size:25
Alignment explanation
Indices: 27090139--27090187 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
27090129 TATAGTCTAT
* *
27090139 CTATAGTAGTCTCAATATATACTAC
1 CTATAGCAGTCTCAAGATATACTAC
* *
27090164 CTATAGCAGTTTCAGGATATACTA
1 CTATAGCAGTCTCAAGATATACTA
27090188 TCAAACACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (25 bp):
CTATAGCAGTCTCAAGATATACTAC
Found at i:27090553 original size:18 final size:18
Alignment explanation
Indices: 27090532--27090569 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
27090522 ATCCAAAACA
*
27090532 TTATTC-ATTTACAAATTG
1 TTATTCAATTT-CAAAATG
27090550 TTATTCAATTTCAAAATG
1 TTATTCAATTTCAAAATG
27090568 TT
1 TT
27090570 TTCTTATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (18 bp):
TTATTCAATTTCAAAATG
Found at i:27095788 original size:51 final size:51
Alignment explanation
Indices: 27095711--27096004 Score: 278
Period size: 51 Copynumber: 5.8 Consensus size: 51
27095701 TATCGATGAA
* * * *
27095711 CACGTGTGTAATATTGTGTGAAGGCTACTACGTGTATCGATAAATAGTGGG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAGTGGT
* * * * * * * *
27095762 CACGTTTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATAGTGGT
* *
27095813 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGAG-GGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-AGTGGT
* * * *
27095864 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CCA-AAA-AGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAG---TGGT
* * * * *
27095915 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-GTGGT
27095965 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
27096005 ATGATAAAAG
Statistics
Matches: 193, Mismatches: 39, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
47 2 0.01
49 3 0.02
50 42 0.22
51 140 0.73
52 6 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAGTGGT
Found at i:27095887 original size:102 final size:101
Alignment explanation
Indices: 27095711--27095992 Score: 379
Period size: 102 Copynumber: 2.8 Consensus size: 101
27095701 TATCGATGAA
* * * * *
27095711 CACGTGTGTAATATTGTGTGAAGGCTACTACGTGTATCGATAAATAGTGGGCACGTTTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAG-GGTCACGTGTGTAGTAC
* *
27095776 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
65 TAAGTGAAGGCTACAATGTGTACCAAAAAGCTTTGGT
*
27095813 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGAGGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAAT-AGGGTCACGTGTGTAGTAC
*
27095878 TAAGTGAAGGCTACTATGTGTACCAAAAAGCTTTGGT
65 TAAGTGAAGGCTACAATGTGTACCAAAAAGCTTTGGT
* * * * *
27095915 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA--GGGTCACGTGTGTAGTA
*
27095978 CTATGTGAAGGCTAC
64 CTAAGTGAAGGCTAC
27095993 TACGTGTATC
Statistics
Matches: 161, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
99 1 0.01
101 32 0.20
102 126 0.78
103 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAGGGTCACGTGTGTAGTACT
AAGTGAAGGCTACAATGTGTACCAAAAAGCTTTGGT
Found at i:27102180 original size:11 final size:13
Alignment explanation
Indices: 27102164--27102196 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27102154 ATTTCACGGA
27102164 AAAATTTCG-T-G
1 AAAATTTCGTTCG
27102175 AAAATTTCGTTCG
1 AAAATTTCGTTCG
27102188 AAAATTTCG
1 AAAATTTCG
27102197 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:27103105 original size:102 final size:102
Alignment explanation
Indices: 27102929--27103271 Score: 453
Period size: 102 Copynumber: 3.4 Consensus size: 102
27102919 GTATCAATGA
* *
27102929 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
*
27102994 AAGTGAAGGCTACAATGTGTA-CTAAGAAGCTTTGGTC
66 AAGTGAAGGCTACTATGTGTACCTAA-AAGCTTTGGTC
* * * * * *
27103031 ACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGAGGGTCACATCTGTAGTTCT
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
* *
27103096 AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTT
66 AAGTGAAGGCTACTATGTGTACCTAAAAGCTTTGGTC
* * * *
27103133 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTAC
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTAC
* * *
27103196 TATGTGAAGGCTACTATGTGAACCGTAAAA-C-TTGATC
65 TAAGTGAAGGCTACTATGTGTACC-TAAAAGCTTTGGTC
*
27103233 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
27103272 ATGATAAAAG
Statistics
Matches: 211, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
100 40 0.19
101 40 0.19
102 128 0.61
103 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (102 bp):
ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGTACCTAAAAGCTTTGGTC
Found at i:27103195 original size:50 final size:50
Alignment explanation
Indices: 27102929--27103261 Score: 350
Period size: 51 Copynumber: 6.6 Consensus size: 50
27102919 GTATCAATGA
* * * * *
27102929 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGTC
1 ACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAA-ACTTGGTC
* * * *
27102980 ACATGTGTAGTACTAAGTGAAGGCTACAATGTGTA-C-TAAGAAGCTTTGGTC
1 ACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAA-AA-C-TTGGTC
* * ****
27103031 ACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGAGGGTC
1 ACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAAACTTGGTC
* * * * * *
27103082 ACATCTGTAGTTCTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGTT
1 ACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAA-C-TTGGTC
* *
27103133 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATC
1 ACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGGTC
*
27103183 ACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGATC
1 ACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGGTC
27103233 ACGTGTGTAGTACTATGTGAAGGCTACTA
1 ACGTGTGTAGTACTATGTGAAGGCTACTA
27103262 CGTGTATCGA
Statistics
Matches: 236, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
48 4 0.02
49 4 0.02
50 83 0.35
51 136 0.58
52 5 0.02
53 1 0.00
54 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
ACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGGTC
Found at i:27107534 original size:28 final size:28
Alignment explanation
Indices: 27107494--27107547 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
27107484 ATATATCTGG
27107494 ATATTCGCACACAAGTGGCACAAATTTA
1 ATATTCGCACACAAGTGGCACAAATTTA
*
27107522 ATATTCGCACACAAGTGGCATAAATT
1 ATATTCGCACACAAGTGGCACAAATT
27107548 CTCACATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATTCGCACACAAGTGGCACAAATTTA
Found at i:27114790 original size:75 final size:75
Alignment explanation
Indices: 27114612--27114884 Score: 359
Period size: 75 Copynumber: 3.6 Consensus size: 75
27114602 TGGATTCAGC
* * * * * * *
27114612 ACTTAGTAACCCCCAGTGATTCGGGGAATCAGCACTTAGCATCCCCTTTCACATTGAAAAATACG
1 ACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTCAGATT-TAAAATACG
* * * **
27114677 GTAGAATCAGT
65 ATGGGATCACA
* * *
27114688 ACTTAGCAACCACTAGTGAATCGGGGAATCAACACTTAGCAACCCCTTTCAGATTTAAAATACGA
1 ACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTCAGATTTAAAATACGA
27114753 TGGGATCACA
66 TGGGATCACA
* *
27114763 ACTTAGCAACCACCAATTATTCGGGGAATCAGCACTTAGCAACCCCTTTCAGATTTAAAATACGA
1 ACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTCAGATTTAAAATACGA
27114828 TGGGATCACA
66 TGGGATCACA
* *
27114838 ACTT-GCAACCACCAATGATTCAGGAAATCAACACTTAGCAACCCCTT
1 ACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTT
27114885 GGGGGAATCA
Statistics
Matches: 175, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
74 39 0.22
75 88 0.50
76 48 0.27
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (75 bp):
ACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTCAGATTTAAAATACGA
TGGGATCACA
Found at i:27123465 original size:138 final size:137
Alignment explanation
Indices: 27123163--27123721 Score: 751
Period size: 138 Copynumber: 4.1 Consensus size: 137
27123153 TAGAAAAATG
* * * *
27123163 AATTATATTCTTTCTAAAAGAATATTAATTTCCATATCTTTTATATTTTAATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* ** *
27123228 TATAACTATTTATATTAATAAATTTGGTAATATATATA-ATTAATATTTTGTATGAATCAAATTC
66 TATAACTGTTTATATTAATAAATTCAGTAAAATATATACATTAATATTTTGTATGAATCAAATTC
*
27123292 GTATATT
131 ATATATT
* * * * * *
27123299 AATTATATTATTTCCAAAAGAAAATTAATTTTCACGTATTTTATATTTTGGCCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* ** * **
27123364 TAGAACTGTTTATATTAATAAATTTGGTAAAATATTTACCATTAATATTTTAAATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCAGTAAAATATATA-CATTAATATTTTGTATGAATCAAATT
27123429 CATATATT
130 CATATATT
* * * * *
27123437 AATTGTATTTTTTCTAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * ** *
27123502 TACAGCTGTTTATATTTATAAATTCAGTCAAATATATTTTTATTAATACTTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAATTCAGT-AAA-ATATATACATTAATATTTTGTATGAATCAAAT
27123567 TCATATATT
129 TCATATATT
* *
27123576 AATTATATTCTTTCCGAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
27123641 TATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCAGTAAAATATATAC-ATTAATATTTTGTATGAATCAAATT
27123706 CATATATT
130 CATATATT
27123714 AATTATAT
1 AATTATAT
27123722 CTACGATTAA
Statistics
Matches: 366, Mismatches: 52, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
136 89 0.24
137 5 0.01
138 151 0.41
139 115 0.31
140 6 0.02
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCAGTAAAATATATACATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:27123664 original size:277 final size:274
Alignment explanation
Indices: 27123163--27123721 Score: 796
Period size: 277 Copynumber: 2.0 Consensus size: 274
27123153 TAGAAAAATG
27123163 AATTATATTCTTTCTAAAAGAATATTAATTTCCATATCTTTTATATTTTAATCGAAATTAATTAA
1 AATTATATTCTTTCTAAAAGAATATTAATTTCCATATCTTTTATATTTTAATCGAAATTAATTAA
* ** * *
27123228 TATAACTATTTATATTAATAAATTTGGTAATATATATAATTAATATTTTGTATGAATCAAATTCG
66 TACAACTATTTATATTAATAAATTCAGTAATATATATAATTAATACTTTGTATGAATCAAATTCA
* *
27123293 TATATTAATTATATTATTTCCAAAAGAAAATTAATTTTCACGTATTTTATATTTTGGCCGAAATT
131 TATATTAATTATATTATTTCCAAAAGAAAATTAATTTCCACGTATTTTATATTTTGACCGAAATT
** * *
27123358 AATTAATAGAACTGTTTATATTAATAAATTTGGTAAAATATTTACCATTAATATTTTAAATGAAT
196 AATTAATAGAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTAAATGAAT
27123423 CAAATTCATATATT
261 CAAATTCATATATT
* * * * *
27123437 AATTGTATTTTTTCTAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-CTGAAATTAATTT
1 AATTATATTCTTTCTAAAAGAATATTAATTTCCATATCTTTTATATTTTAATC-GAAATTAATTA
* * * * *
27123501 ATACAGCTGTTTATATTTATAAATTCAGTCAAATATATTTTTATTAATACTTTGTATGAATCAAA
65 ATACAACTATTTATATTAATAAATTCAGT--AATATA-TATAATTAATACTTTGTATGAATCAAA
* * * * * *
27123566 TTCATATATTAATTATATTCTTTCCGAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGA
127 TTCATATATTAATTATATTATTTCCAAAAGAAAATTAATTTCCACGTATTTTATATTTTGACCGA
* * **
27123631 AATTAATTAATATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAT
192 AATTAATTAATAGAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTAAAT
27123696 GAATCAAATTCATATATT
257 GAATCAAATTCATATATT
27123714 AATTATAT
1 AATTATAT
27123722 CTACGATTAA
Statistics
Matches: 249, Mismatches: 32, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
273 1 0.00
274 80 0.32
276 6 0.02
277 162 0.65
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (274 bp):
AATTATATTCTTTCTAAAAGAATATTAATTTCCATATCTTTTATATTTTAATCGAAATTAATTAA
TACAACTATTTATATTAATAAATTCAGTAATATATATAATTAATACTTTGTATGAATCAAATTCA
TATATTAATTATATTATTTCCAAAAGAAAATTAATTTCCACGTATTTTATATTTTGACCGAAATT
AATTAATAGAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTAAATGAAT
CAAATTCATATATT
Found at i:27133682 original size:23 final size:23
Alignment explanation
Indices: 27133656--27133702 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
27133646 CTGATATTAA
27133656 GCATGTATGATATATGCATTTTG
1 GCATGTATGATATATGCATTTTG
* * *
27133679 GCATTTGTTATATATGCATTTTG
1 GCATGTATGATATATGCATTTTG
27133702 G
1 G
27133703 ATGAGATTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.47
Consensus pattern (23 bp):
GCATGTATGATATATGCATTTTG
Found at i:27133715 original size:23 final size:23
Alignment explanation
Indices: 27133665--27133716 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
27133655 AGCATGTATG
**
27133665 ATATATGCATTTTGGCATTTGTT
1 ATATATGCATTTTGGCATGAGTT
27133688 ATATATGCATTTTGG-ATGAGATT
1 ATATATGCATTTTGGCATGAG-TT
*
27133711 GTATAT
1 ATATAT
27133717 ATGGAGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.27, C:0.06, G:0.19, T:0.48
Consensus pattern (23 bp):
ATATATGCATTTTGGCATGAGTT
Found at i:27141590 original size:38 final size:38
Alignment explanation
Indices: 27141539--27141757 Score: 287
Period size: 38 Copynumber: 5.8 Consensus size: 38
27141529 ACATTAGCAA
* * *
27141539 TAAGCCTACTAGGCACTAAGCCTGAATAACACCAACAC
1 TAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACAC
* * *
27141577 TAAGCCTACTAGGCACAAAGTCTGAATAACACCGACGC
1 TAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACAC
*
27141615 TAAGCCTGCTAGGCACAAAGCCTGAACAACACCGACAC
1 TAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACAC
* * *
27141653 TAAGCCTGCTAGGAACAAAGCCTGAACAACACCGGCAC
1 TAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACAC
* *
27141691 TATGCCTGCTAGGCACAAAGCCTGAACT-ACACCGGCAC
1 TAAGCCTGCTAGGCACAAAGCCTGAA-TAACACCGACAC
** *
27141729 TGTGCCTGCTAGGCACAAAGCCTAAATAA
1 TAAGCCTGCTAGGCACAAAGCCTGAATAA
27141758 GGGTATAACT
Statistics
Matches: 164, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
37 1 0.01
38 163 0.99
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.15
Consensus pattern (38 bp):
TAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACAC
Found at i:27148840 original size:38 final size:38
Alignment explanation
Indices: 27148794--27148910 Score: 162
Period size: 38 Copynumber: 3.1 Consensus size: 38
27148784 AACTTTAATT
* * * *
27148794 ACACCGGCAATAAGCCTACTAGGCACTAAGCCTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTAAATA
* *
27148832 ACATCGGCACTAAGTCTGCTAGGCACAAAGCCTAAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTAAATA
* *
27148870 ACACCGACACTAAGCCTGCTAGGCACAAAACCTAAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTAAATA
27148908 ACA
1 ACA
27148911 GTGTAACTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 69 1.00
ACGTcount: A:0.39, C:0.29, G:0.16, T:0.15
Consensus pattern (38 bp):
ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTAAATA
Found at i:27153167 original size:3 final size:3
Alignment explanation
Indices: 27153159--27153195 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
27153149 TCACCCTTTT
27153159 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27153196 GCTTAGCCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27156981 original size:24 final size:25
Alignment explanation
Indices: 27156929--27156985 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
27156919 CATATACTCC
* **
27156929 AAACAAAAAGAGTAAAAAAAAAATC
1 AAACAAATAGAGTAAAAAAAAAAGA
*
27156954 AAACAAATAGAG-AAACAAAAAAGA
1 AAACAAATAGAGTAAAAAAAAAAGA
27156978 AAACAAAT
1 AAACAAAT
27156986 CAAACAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.75, C:0.09, G:0.09, T:0.07
Consensus pattern (25 bp):
AAACAAATAGAGTAAAAAAAAAAGA
Found at i:27157884 original size:18 final size:18
Alignment explanation
Indices: 27157863--27157928 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
27157853 TTATAAAGAT
27157863 TTTTAATTTTAAAAATTA
1 TTTTAATTTTAAAAATTA
*
27157881 TTTTAAATTTAAAAATTA
1 TTTTAATTTTAAAAATTA
* *
27157899 TTTTGACTTTTTGAAAATTA
1 TTTT-A-ATTTTAAAAATTA
27157919 TTTT-ATTTTA
1 TTTTAATTTTA
27157929 TTGTAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 4 0.10
18 21 0.52
19 1 0.03
20 14 0.35
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAATTTTAAAAATTA
Found at i:27158612 original size:32 final size:32
Alignment explanation
Indices: 27158546--27158612 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
27158536 TTAGGTTTTG
** *
27158546 ATTTCTAAATTTATTGCATTTCATTTGAATAT
1 ATTTCTAAATTTATTGCATTAAATTTGAAAAT
27158578 ATTTCTAAATTTATTTGCA-TAAATATT-AAAAT
1 ATTTCTAAATTTA-TTGCATTAAAT-TTGAAAAT
27158610 ATT
1 ATT
27158613 GTAATTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.51
Consensus pattern (32 bp):
ATTTCTAAATTTATTGCATTAAATTTGAAAAT
Found at i:27160970 original size:8 final size:9
Alignment explanation
Indices: 27160932--27161000 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
27160922 ACTTGTGACA
27160932 AAAAATTAT
1 AAAAATTAT
27160941 AAAAA--AT
1 AAAAATTAT
**
27160948 AAAAACCAAT
1 AAAAA-TTAT
27160958 AAAAATTAT
1 AAAAATTAT
27160967 AAAAATTATT
1 AAAAATTA-T
**
27160977 AAACTTTAAT
1 AAAAATT-AT
*
27160987 AAAAAATAT
1 AAAAATTAT
27160996 AAAAA
1 AAAAA
27161001 AAATTTAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
7 7 0.15
9 22 0.46
10 18 0.38
11 1 0.02
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAATTAT
Found at i:27161009 original size:30 final size:29
Alignment explanation
Indices: 27160955--27161014 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
27160945 AATAAAAACC
* **
27160955 AATAAAAATTATAAAAATTATTAAACTTT
1 AATAAAAAATATAAAAAAAATTAAACTTT
*
27160984 AATAAAAAATATAAAAAAAATTTAAATTTT
1 AATAAAAAATATAAAAAAAA-TTAAACTTT
27161014 A
1 A
27161015 CCAAAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (29 bp):
AATAAAAAATATAAAAAAAATTAAACTTT
Found at i:27163355 original size:44 final size:44
Alignment explanation
Indices: 27163296--27163379 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
27163286 AGGAACTAAT
27163296 GCTTCAATCTACTCCAATGCAACTTCAGGGAGATAAGATTGTCG
1 GCTTCAATCTACTCCAATGCAACTTCAGGGAGATAAGATTGTCG
* * *
27163340 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 GCTTCAATCTACTCCAATGCAACTTCAGGGAGATAAGATT
27163380 TGCCATCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
GCTTCAATCTACTCCAATGCAACTTCAGGGAGATAAGATTGTCG
Found at i:27163432 original size:44 final size:45
Alignment explanation
Indices: 27163346--27163433 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 45
27163336 GTCGGCTTTA
* * * * *
27163346 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCG
1 ATCTGCTCCACTACAACTTCAGAGAGATAAGATCTACAATCTTCG
**
27163391 ATCTGCTCCACTACTGCTT-AGAGAGATAAGATCTACAATCTTC
1 ATCTGCTCCACTACAACTTCAGAGAGATAAGATCTACAATCTTC
27163434 AATTTTCTCC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 20 0.56
45 16 0.44
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCACTACAACTTCAGAGAGATAAGATCTACAATCTTCG
Found at i:27178389 original size:29 final size:28
Alignment explanation
Indices: 27178333--27178415 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 28
27178323 ATGATAAATA
* *
27178333 AATAAAAATATAACTATCTTTTCTATTTTT
1 AATAAAAAT-TAAATAT-TTTTATATTTTT
27178363 AATAAAAATTAAATATTTCTTATATTTTT
1 AATAAAAATTAAATATTT-TTATATTTTT
* * *
27178392 TATTAAAATTTAATAATTTTTATA
1 AATAAAAATTAAAT-ATTTTTATA
27178416 ACTTTTATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.04
29 31 0.67
30 13 0.28
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
AATAAAAATTAAATATTTTTATATTTTT
Found at i:27178421 original size:29 final size:29
Alignment explanation
Indices: 27178367--27178424 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
27178357 ATTTTTAATA
**
27178367 AAAATTAAATATTTCTTATATTTTTTATT
1 AAAATTAAATATTTCTTATAACTTTTATT
*
27178396 AAAATTTAATAATTT-TTATAACTTTTATT
1 AAAATTAAAT-ATTTCTTATAACTTTTATT
27178425 TATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
AAAATTAAATATTTCTTATAACTTTTATT
Found at i:27178436 original size:15 final size:15
Alignment explanation
Indices: 27178418--27178447 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
27178408 TTTTTATAAC
27178418 TTTTATTTATTTTTAT
1 TTTTA-TTATTTTTAT
27178434 TTTTATTATTTTTA
1 TTTTATTATTTTTA
27178448 CCACATGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTATTATTTTTAT
Found at i:27184884 original size:16 final size:17
Alignment explanation
Indices: 27184850--27184884 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27184840 TCTCGAGAAT
*
27184850 GTATTCACACTTGAAAA
1 GTATTCACACATGAAAA
27184867 GTATTCACACAT-AAAA
1 GTATTCACACATGAAAA
27184883 GT
1 GT
27184885 GGATGTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (17 bp):
GTATTCACACATGAAAA
Found at i:27186108 original size:21 final size:22
Alignment explanation
Indices: 27186084--27186125 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
27186074 TTTAAACTTC
*
27186084 TATATTAAATC-CTTAATTTAG
1 TATAATAAATCACTTAATTTAG
27186105 TATAATAAATCAACTTAATTT
1 TATAATAAATC-ACTTAATTT
27186126 TATTTTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (22 bp):
TATAATAAATCACTTAATTTAG
Found at i:27190334 original size:19 final size:19
Alignment explanation
Indices: 27190310--27190349 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27190300 CTAAAACCAT
*
27190310 TTCA-TTGCATTTAGGTTAA
1 TTCATTTGCA-TTAAGTTAA
27190329 TTCATTTGCATTAAGTTAA
1 TTCATTTGCATTAAGTTAA
27190348 TT
1 TT
27190350 AAATTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (19 bp):
TTCATTTGCATTAAGTTAA
Found at i:27192152 original size:41 final size:41
Alignment explanation
Indices: 27192094--27192198 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
27192084 CCCAATTCAA
* * **
27192094 TTCACCGGCAATTAGCCTGCTAGACTTATCGTCCGAATTAT
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCCGAATTAT
27192135 TTCACCGGCACA-AAGCCTGCTAGACATAAAGTCCGAATTAT
1 TTCACCGGCA-ATAAGCCTGCTAGACATAAAGTCCGAATTAT
** *
27192176 TTCACCGGCCTTAAGCCTTCTAG
1 TTCACCGGCAATAAGCCTGCTAG
27192199 GTTTTAAACC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 54 0.98
42 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (41 bp):
TTCACCGGCAATAAGCCTGCTAGACATAAAGTCCGAATTAT
Found at i:27200104 original size:50 final size:49
Alignment explanation
Indices: 27200030--27200173 Score: 162
Period size: 50 Copynumber: 2.9 Consensus size: 49
27200020 TTCTGTACTA
* * **
27200030 CCAATGCCATATCCTAAATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATATCCCAACT-TGGTCTTACATGGGACCTCTCATATCGGTG
* ** *
27200080 CCCATGCCATATCCCAGACTTGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATATCCCA-ACTTGGTCTTACATGGGACCTCTCATATCGGTG
* * *
27200130 CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATA
1 CCAATGCCATATCCC-AACTTGGTCTTACATGGGACCTCTCATA
27200174 ATCTCAATGA
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
50 74 0.96
51 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
CCAATGCCATATCCCAACTTGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:27203177 original size:26 final size:26
Alignment explanation
Indices: 27203138--27203207 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
27203128 TATTCAATAA
** *
27203138 TGCTCACACAAGCTGTGAAATGGGCC
1 TGCTCACATGAGCTATGAAATGGGCC
*
27203164 TGCTCACATGAGCTATGAAATGGGTC
1 TGCTCACATGAGCTATGAAATGGGCC
27203190 TGCTCACATGAGCTATGA
1 TGCTCACATGAGCTATGA
27203208 GTCGAAATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (26 bp):
TGCTCACATGAGCTATGAAATGGGCC
Found at i:27204001 original size:14 final size:14
Alignment explanation
Indices: 27203984--27204011 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27203974 TACCAAGCAT
27203984 CAAAAGGAGTTGGC
1 CAAAAGGAGTTGGC
27203998 CAAAAGGAGTTGGC
1 CAAAAGGAGTTGGC
27204012 TGAATATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.36, T:0.14
Consensus pattern (14 bp):
CAAAAGGAGTTGGC
Found at i:27207765 original size:24 final size:24
Alignment explanation
Indices: 27207736--27207786 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
27207726 TATCTCTATC
27207736 CATTATAAAA-AAAATATTAATTAT
1 CATTATAAAACAAAATA-TAATTAT
*
27207760 CATTATAAAACTTAAATATAATTAT
1 CATTATAAAAC-AAAATATAATTAT
27207785 CA
1 CA
27207787 ACTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 10 0.42
25 9 0.38
26 5 0.21
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (24 bp):
CATTATAAAACAAAATATAATTAT
Found at i:27209035 original size:126 final size:126
Alignment explanation
Indices: 27208810--27209060 Score: 288
Period size: 126 Copynumber: 2.0 Consensus size: 126
27208800 ACCAAATGTT
* * * * * * *
27208810 GGCATAGTGTTGGATAAAACTGACTATTATTTAAGCGTTGTTTTAGGCTTGCATATCCCGACCTT
1 GGCATACTGTTGGACAAAACTGACTATTATTTAAGCATTGTCTTAGGCATCCATATCCCAACCTT
* * * ** * *
27208875 TATATAAAGAATTGGCGAAAGAGTATGCCGGCAAGTCTATCTGAACATTTAGGAAAGTGTC
66 TATACAAAGAATTGGCCAAAGAGTATACCGGCAAGTCTATCCCAACACTTAAGAAAGTGTC
* * * *
27208936 GGCATACTGTTGGACACAGCTGACTCTTATTTAAGCATTGTCTTAGGCATCCATATCCTAA-CTC
1 GGCATACTGTTGGACAAAACTGACTATTATTTAAGCATTGTCTTAGGCATCCATATCCCAACCT-
* * * *
27209000 TTATACAAAGAGTTGGCCAAGGTGTATATCGGCAAGTCTATCCCAACACTTAAGAAAGTGT
65 TTATACAAAGAATTGGCCAAAGAGTATACCGGCAAGTCTATCCCAACACTTAAGAAAGTGT
27209061 TGGCCCAAAA
Statistics
Matches: 102, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
125 2 0.02
126 100 0.98
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (126 bp):
GGCATACTGTTGGACAAAACTGACTATTATTTAAGCATTGTCTTAGGCATCCATATCCCAACCTT
TATACAAAGAATTGGCCAAAGAGTATACCGGCAAGTCTATCCCAACACTTAAGAAAGTGTC
Found at i:27209188 original size:140 final size:138
Alignment explanation
Indices: 27208958--27209344 Score: 470
Period size: 140 Copynumber: 2.8 Consensus size: 138
27208948 GACACAGCTG
* * *
27208958 ACTCTTATTTAAGCATTGTCTTAGGCATCCATATCCTAACTCTTATACAAAGAGTTGGCCAAGGT
1 ACTCTTATTTAAGCATTGTCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAG-
* * * *
27209023 GTATATCGGCAAGTCTATCCCAACACTTAAGAAAGTGTTGGCCCAAAAGTGTCGACATAGAGTTA
65 ATATATCGGCAAGTTTA-CCCAACACTTAAGAAAGTGTTGGCCCAAAAGTGTCAACACAGAGTTA
*
27209088 GACAAAGCCA
129 GAAAAAGCCA
* * *
27209098 ACTCTTATTTAAGCTTTGCCTTAGGCATGCATATCCCAACTCTTATACAAAGGGTTGGCCAAAGC
1 ACTCTTATTTAAGCATTGTCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAG-
* ** * * * * * *
27209163 ATATGTTAGCAAGTTTACCCGAACACTTAGGCAAGTGTCGACCCAAAAGTGTCAACACAGTGTTG
65 ATATATCGGCAAGTTTACCC-AACACTTAAGAAAGTGTTGGCCCAAAAGTGTCAACACAGAGTTA
*
27209228 GAAAAAGTCA
129 GAAAAAGCCA
* * * *
27209238 AATTTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGTCAAAGA
1 ACTCTTATTTAAGCATTGTCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGA
*
27209303 GTATATCGGCAAGTCTATA-CCAACACTTATGAAAGTGTTGGC
66 -TATATCGGCAAGT-T-TACCCAACACTTAAGAAAGTGTTGGC
27209345 GTAATGTTGG
Statistics
Matches: 208, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
139 4 0.02
140 199 0.96
141 3 0.01
142 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (138 bp):
ACTCTTATTTAAGCATTGTCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGA
TATATCGGCAAGTTTACCCAACACTTAAGAAAGTGTTGGCCCAAAAGTGTCAACACAGAGTTAGA
AAAAGCCA
Found at i:27209471 original size:49 final size:49
Alignment explanation
Indices: 27209395--27209506 Score: 172
Period size: 49 Copynumber: 2.3 Consensus size: 49
27209385 TAGGCATGCA
* *
27209395 TATCCCAACTCTTATACAAAAATTTGGCCAAAGTATATGTCAAGAAGTC
1 TATCCCAACTCTTATACAAAAATTTGGCCAAAGCATATGTCAACAAGTC
*
27209444 TATCCCAACTCTTATACAAAGAA-TTGGCCAAAGCATATGTCGACAAGTC
1 TATCCCAACTCTTATACAAA-AATTTGGCCAAAGCATATGTCAACAAGTC
*
27209493 TATCCCAACACTTA
1 TATCCCAACTCTTA
27209507 GGAAAGTTTC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
49 56 0.97
50 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.27
Consensus pattern (49 bp):
TATCCCAACTCTTATACAAAAATTTGGCCAAAGCATATGTCAACAAGTC
Found at i:27211359 original size:15 final size:15
Alignment explanation
Indices: 27211336--27211373 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
27211326 TTTATTTTAC
27211336 TTATATTTCTTATTAT
1 TTAT-TTTCTTATTAT
*
27211352 TTGTTTTCTTATTAT
1 TTATTTTCTTATTAT
27211367 TTATTTT
1 TTATTTT
27211374 AGTACTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (15 bp):
TTATTTTCTTATTAT
Found at i:27212217 original size:18 final size:17
Alignment explanation
Indices: 27212187--27212231 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
27212177 ATATGTTTTA
*
27212187 TTTA-TTTTCTTTTTCAT
1 TTTATTTTTATTTTTC-T
27212204 TTTATTTTTATTTTTCT
1 TTTATTTTTATTTTTCT
27212221 TCTTATTTTTA
1 T-TTATTTTTA
27212232 GTTGTTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTTATTTTTCT
Found at i:27214687 original size:50 final size:50
Alignment explanation
Indices: 27214620--27214812 Score: 163
Period size: 50 Copynumber: 3.7 Consensus size: 50
27214610 TTTTCTGTAC
* * * * **
27214620 TGCCAATGCCATATCCCAAATATGGTCTTACATGGAAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGAACCTCTCATATCGG
* * ** * *
27214670 TGCCCATGCCATGTCCCAGACATGGTTTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGAACCTCTCATATCGG
* *
27214720 TGCCAACGCCATGTCCCAGACATGGTCTTACACGGG-ACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGGAACCTCTCAT-A--TC---GG
* *
27214776 TGCCAATGCCATCTCCCGGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGGA
27214813 TCTCATTCCC
Statistics
Matches: 112, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
50 74 0.66
51 3 0.03
53 2 0.02
56 33 0.29
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGAACCTCTCATATCGG
Found at i:27219937 original size:51 final size:51
Alignment explanation
Indices: 27219877--27220104 Score: 255
Period size: 51 Copynumber: 4.5 Consensus size: 51
27219867 ACACCTATAT
*
27219877 CCTGCACATAGTTCTACACACGTGATCGAAACTATCCGGTACGCATAGTAG
1 CCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCATAGTAG
* * * * * * *
27219928 CCTGCACATAGTACTACACATGTGA-CCACTACCATCCGATACACGTAGTAG
1 CCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTACGCATAGTAG
*
27219979 CCTGCACATAGTTCTACACACGTGATCGAAACTATCCGGTACGCATAGTAG
1 CCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCATAGTAG
* * ** * * *
27220030 CCTGCACATAGTACTACACATGCGA-CCTATC-ATTCCGGTACACGTAGTAG
1 CCTGCACATAGTACTACACACGTGATCGAAACTA-TCCGGTACGCATAGTAG
* *
27220080 CTTGCACATAGTACTACACATGTGA
1 CCTGCACATAGTACTACACACGTGA
27220105 CCATCATTTT
Statistics
Matches: 148, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 43 0.29
51 102 0.69
52 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (51 bp):
CCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCATAGTAG
Found at i:27224913 original size:26 final size:26
Alignment explanation
Indices: 27224883--27224963 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
27224873 ATGTTCGGTT
27224883 CACATAGTAGTCTGCACATAGTACTA
1 CACATAGTAGTCTGCACATAGTACTA
* *
27224909 CACAT-GTGACCGT-TAC-CATCCG-A-TA
1 CACATAGT-A--GTCTGCACAT-AGTACTA
*
27224934 CACATAGTAGCCTGCACATAGTACTA
1 CACATAGTAGTCTGCACATAGTACTA
27224960 CACA
1 CACA
27224964 CGTGAGCGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
23 1 0.02
24 3 0.07
25 14 0.34
26 18 0.44
27 3 0.07
28 2 0.05
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (26 bp):
CACATAGTAGTCTGCACATAGTACTA
Found at i:27224939 original size:51 final size:50
Alignment explanation
Indices: 27224878--27225071 Score: 219
Period size: 51 Copynumber: 3.8 Consensus size: 50
27224868 CAATGATGTT
* * *
27224878 CGGTTCACATAGTAGTCTGCACATAGTACTACACATGTGACCGTTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCG-TACCATC
* * * *
27224929 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGAGCGAAACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCG-TACCATC
* * * * *
27224980 CGGTACGCATAGTAGCATGCACATAGTACTACACATGTGACC-TATCATTT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCGTACCA-TC
* * *
27225030 CGGTACTCGTAGTCGCCTGCACATAGTACTACACACGTGACC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC
27225072 ATCCTTTTCA
Statistics
Matches: 120, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
49 2 0.02
50 38 0.32
51 80 0.67
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCGTACCATC
Found at i:27231020 original size:12 final size:12
Alignment explanation
Indices: 27231003--27231027 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27230993 CATATCCTTT
27231003 TATATTTATATA
1 TATATTTATATA
27231015 TATATTTATATA
1 TATATTTATATA
27231027 T
1 T
27231028 TATGTTTACA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTTATATA
Found at i:27233684 original size:21 final size:22
Alignment explanation
Indices: 27233659--27233699 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
27233649 AGGAAAAAGG
*
27233659 AAAAATAAAAGAAC-AATGGCA
1 AAAAAAAAAAGAACGAATGGCA
27233680 AAAAAAAAAAGAACGAATGG
1 AAAAAAAAAAGAACGAATGG
27233700 AAGATGACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.68, C:0.07, G:0.17, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAAGAACGAATGGCA
Found at i:27241683 original size:24 final size:23
Alignment explanation
Indices: 27241638--27241683 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
27241628 TAAAATATTT
*
27241638 AAACAAATAATTACATATAAAAA
1 AAACAAATAATTACATAAAAAAA
**
27241661 AAACAAAATAATTTGATAAAAAA
1 AAAC-AAATAATTACATAAAAAA
27241684 TTATATATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.22
Consensus pattern (23 bp):
AAACAAATAATTACATAAAAAAA
Found at i:27242502 original size:287 final size:291
Alignment explanation
Indices: 27242025--27242589 Score: 775
Period size: 288 Copynumber: 1.9 Consensus size: 291
27242015 TAAATACAAC
*
27242025 AGAATAAAATATTTAAACAAATTTTTATAAAAGAAATGAGCAAATTGAAATAAGGATCAAATCTA
1 AGAATAAAATATTT--A-AAATTTTTATAAAAGAAATGAGCAAATTGAAATAAGGATCAAATCGA
* * *
27242090 ATTTAAAACCAAATTAAAAAGAAAATATGTAAATAAAATGAAACTGAAGGGCCAAAATGCGGCGC
63 ATTTAAAACCAAATTAAAAAGAAAATATGTAAATAAAATAAAACTGAAGGGCCAAAATGCAGCAC
* *
27242155 ACGAATAACATAGAGGACTTAATGAAAAATATTCCCTCCTCCTCCAAAACGCAACGCTGCAATCT
128 ACGAATAACATAGAGGACTTAATGAAAAACATTCCCTCATCCTCCAAAACGCAACGCTGCAATCT
* * *
27242220 GAGTTAAAATGAAACAAAAAAAAACTG-TGGAG-AAAAATTAAAATTAAAAAAA-CAAATTGAAT
193 GAGTCAAAATAAAACAAAAAAAAACTGCAGG-GTAAAAATTAAAA-TAAAAAAATCAAATTGAAT
27242282 CA-GTTATAGAAGTGAGGGGAATGTATTAAAAATAAT
256 -ATGTTATAGAAGTGAGGGGAATGTATTAAAAATAAT
* * *
27242318 AGAATAAAATATTT-AAATTTTTTTAAAA-AAATGAGTAAATTGAAATAAGGATTAAATCGAATT
1 AGAATAAAATATTTAAAATTTTTATAAAAGAAATGAGCAAATTGAAATAAGGATCAAATCGAATT
* * *
27242381 TGAAACCAAATTAAAAGGAAAATATGTAAATAAAATAAAACTG-AGGGCCAAAATGCAGCACGCG
66 TAAAACCAAATTAAAAAGAAAATATGTAAATAAAATAAAACTGAAGGGCCAAAATGCAGCACACG
* * * ** * ** *
27242445 AATAACATGGGGGACTTAGTGGGAAACATTCCCTTATCCTCCAAAACGCGGCGCTGCAATCTGGG
131 AATAACATAGAGGACTTAATGAAAAACATTCCCTCATCCTCCAAAACGCAACGCTGCAATCTGAG
* * * *
27242510 TCAAAATAAAATAAAAAACAACTGCAGGGTCAAAATTAAAATAAAAAAATCAAATTGTATATGTT
196 TCAAAATAAAACAAAAAAAAACTGCAGGGTAAAAATTAAAATAAAAAAATCAAATTGAATATGTT
27242575 ATAGAAGTGAGGGGA
261 ATAGAAGTGAGGGGA
27242590 CTAAAACCAT
Statistics
Matches: 240, Mismatches: 28, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
287 102 0.43
288 111 0.46
289 13 0.05
293 14 0.06
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (291 bp):
AGAATAAAATATTTAAAATTTTTATAAAAGAAATGAGCAAATTGAAATAAGGATCAAATCGAATT
TAAAACCAAATTAAAAAGAAAATATGTAAATAAAATAAAACTGAAGGGCCAAAATGCAGCACACG
AATAACATAGAGGACTTAATGAAAAACATTCCCTCATCCTCCAAAACGCAACGCTGCAATCTGAG
TCAAAATAAAACAAAAAAAAACTGCAGGGTAAAAATTAAAATAAAAAAATCAAATTGAATATGTT
ATAGAAGTGAGGGGAATGTATTAAAAATAAT
Found at i:27252766 original size:50 final size:50
Alignment explanation
Indices: 27252669--27252767 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
27252659 CATTGAGGTT
* * * *
27252669 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCGAC
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGAC
* * *
27252719 ATGAGATGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGA
27252768 TATAAGAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGAC
Found at i:27253505 original size:15 final size:15
Alignment explanation
Indices: 27253485--27253516 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27253475 ATGAAAGAGT
27253485 AAAAATTTGCAATGA
1 AAAAATTTGCAATGA
27253500 AAAAATTTGCAATGA
1 AAAAATTTGCAATGA
27253515 AA
1 AA
27253517 TAGCTTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (15 bp):
AAAAATTTGCAATGA
Found at i:27265545 original size:40 final size:41
Alignment explanation
Indices: 27265239--27265599 Score: 327
Period size: 41 Copynumber: 8.9 Consensus size: 41
27265229 TTTGTACCTT
* *
27265239 TCGGGGCTTTAGTGGCGTTTT-TAAGAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTCCAAG-AAGCGCCGCTAATGC
** * * * *
27265280 TTAGGTCTTTAGCGGCATTTT-GATA-AAGTGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTCCA-AGAAGCGCCGCTAATGC
* ** * **
27265320 TCAGATCTTTAGTGGCGTTTTTGATA-AAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTCCA-AGAAGCGCCGCTAATGC
* ** * *
27265361 TCAGATCTTTAGCGGTGTTTTTCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGC
* * ** *
27265402 TTGGGGATTTAGCGATGTTTTTCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGC
* **
27265443 TTGGGGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGC
* * * *
27265484 TCGGGGCTTTAGCGACATTTTCCAAGAAGAGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGC
* *
27265525 -CCGGGCTTTAGCGGCCTTTTCCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGC
* ** *
27265565 TCGGGGATTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGC
27265600 CAAAGCATTT
Statistics
Matches: 273, Mismatches: 43, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
40 67 0.25
41 205 0.75
42 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGC
Found at i:27265752 original size:26 final size:26
Alignment explanation
Indices: 27265695--27265753 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
27265685 TAAAATGGAT
*
27265695 AAATTTGAAATAATGAAACATAGAAA
1 AAATTTGAAATAATAAAACATAGAAA
*
27265721 TAATTTGAAATAA-AAAACATAGAAA
1 AAATTTGAAATAATAAAACATAGAAA
27265746 AATATTTG
1 AA-ATTTG
27265754 TTAAANNNNN
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.27
Consensus pattern (26 bp):
AAATTTGAAATAATAAAACATAGAAA
Found at i:27266118 original size:21 final size:21
Alignment explanation
Indices: 27266065--27266118 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
27266055 TGTGATTTAA
* *
27266065 GATTTATGGGTTAGGGGTTAGG
1 GATTTA-GGGTTAAGAGTTAGG
27266087 GA-TTAGAGGTTAAGAGTTAGG
1 GATTTAG-GGTTAAGAGTTAGG
27266108 GATTTAGGGTT
1 GATTTAGGGTT
27266119 GATGGATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.75
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (21 bp):
GATTTAGGGTTAAGAGTTAGG
Found at i:27266251 original size:87 final size:89
Alignment explanation
Indices: 27266122--27266299 Score: 270
Period size: 87 Copynumber: 2.0 Consensus size: 89
27266112 TAGGGTTGAT
* *
27266122 GGATTCAGTGTCAAGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAA
1 GGATTCAGGGTCAAGTTAGGGTTTAGGATTTAGATTAATTAGTATATTTTAATTTATATATTAAA
*
27266187 TAATGTTTAGGGGTT-GGGGTTAG
66 TAAGGTTTAGGGGTTAGGGGTTAG
** * *
27266210 GGATTCAGGGTCGGGTTAGGG-TTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAA
1 GGATTCAGGGTCAAGTTAGGGTTTAGGATTTAGATTAATTAGTATATTTTAATTTATATATTAAA
*
27266274 TAAGGTTTAGGGGTTAGTGGTTAG
66 TAAGGTTTAGGGGTTAGGGGTTAG
27266298 GG
1 GG
27266300 GTTTGGGGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 54 0.67
88 27 0.33
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (89 bp):
GGATTCAGGGTCAAGTTAGGGTTTAGGATTTAGATTAATTAGTATATTTTAATTTATATATTAAA
TAAGGTTTAGGGGTTAGGGGTTAG
Found at i:27266316 original size:21 final size:22
Alignment explanation
Indices: 27266277--27266317 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27266267 TATTAAATAA
*
27266277 GGTTTAGGGGTTAGTGGTTAGG
1 GGTTTAGGGGTTAGGGGTTAGG
*
27266299 GGTTT-GGGGTTTGGGGTTA
1 GGTTTAGGGGTTAGGGGTTA
27266318 AGAGTTAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.10, C:0.00, G:0.51, T:0.39
Consensus pattern (22 bp):
GGTTTAGGGGTTAGGGGTTAGG
Found at i:27267114 original size:22 final size:23
Alignment explanation
Indices: 27267089--27267142 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 23
27267079 CCTCCCCCAG
27267089 AAATCCCCAACATTCCCCCC-TA
1 AAATCCCCAACATTCCCCCCTTA
* *
27267111 AAAT-CCCTA-ATTCCCCCCTTG
1 AAATCCCCAACATTCCCCCCTTA
27267132 AAATCCCCAAC
1 AAATCCCCAAC
27267143 TTTACAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 9 0.35
21 9 0.35
22 8 0.31
ACGTcount: A:0.31, C:0.46, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATCCCCAACATTCCCCCCTTA
Found at i:27270299 original size:24 final size:25
Alignment explanation
Indices: 27270267--27270320 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
27270257 ATTTAAATTT
27270267 ATTAATTTTT-TATTTAGCTTTAAA
1 ATTAATTTTTATATTTAGCTTTAAA
27270291 ATTAATTTTTATATTTAGCTTTAAA
1 ATTAATTTTTATATTTAGCTTTAAA
*
27270316 GTTAA
1 ATTAA
27270321 AATTTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (25 bp):
ATTAATTTTTATATTTAGCTTTAAA
Found at i:27270579 original size:43 final size:43
Alignment explanation
Indices: 27270500--27270817 Score: 359
Period size: 43 Copynumber: 7.4 Consensus size: 43
27270490 GCTAAAAGTC
* * *
27270500 ATCTTATAGTGGCGTTTGTGGTATAAGCGTCACTAAAGGTCATG
1 ATCTT-TAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* ** * * *
27270544 TTCTTTAGTAGCGTTTGTGGTACAAGTGCCTCTAAAGGTCATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* *
27270587 ATCTTTAGCGGCGTTTGTGGTAGAAGCGTCGCTAAAGGTCATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
*
27270630 ATCTTTAGCGGCGTTTGTTGTAGAAGCGCCACTAAAGGTCATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* * *
27270673 ATCTTTAGCGGTGTTTGTGGTAGAAGCGCCACTAACGGTCTTG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* * * * ** *
27270716 TTCTTTAGCAGCGTTTGTGATAGAAGCACTGCTAAAGATCATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
* * * * *
27270759 ATCTATAGCAGCGTTTGTGGGATAAGCGCCGCTAAAGGTCATG
1 ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
*
27270802 A-CTTTTAGTGGCGTTT
1 ATC-TTTAGCGGCGTTT
27270818 ATTTTAAAAA
Statistics
Matches: 232, Mismatches: 41, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
42 1 0.00
43 227 0.98
44 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
ATCTTTAGCGGCGTTTGTGGTAGAAGCGCCACTAAAGGTCATG
Found at i:27272781 original size:27 final size:27
Alignment explanation
Indices: 27272751--27272842 Score: 107
Period size: 26 Copynumber: 3.5 Consensus size: 27
27272741 GCGGATACTC
27272751 CACAGCTCGTGTGAGCAGGCCCTTTTT
1 CACAGCTCGTGTGAGCAGGCCCTTTTT
* * *
27272778 CACAGCTTGTGTGAGCA-GACCTGTTT
1 CACAGCTCGTGTGAGCAGGCCCTTTTT
* * * *
27272804 CATAACTCGTGTGAGCAGACCCATTTT
1 CACAGCTCGTGTGAGCAGGCCCTTTTT
27272831 -ACAGCTCGTGTG
1 CACAGCTCGTGTG
27272843 CTCAACCATG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
26 31 0.60
27 21 0.40
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (27 bp):
CACAGCTCGTGTGAGCAGGCCCTTTTT
Found at i:27273278 original size:17 final size:18
Alignment explanation
Indices: 27273251--27273284 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27273241 AATTGGGATG
*
27273251 TATTATGATGTTATAAAA
1 TATTATGATGTGATAAAA
27273269 TATT-TGATGTGATAAA
1 TATTATGATGTGATAAA
27273285 TGATGTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (18 bp):
TATTATGATGTGATAAAA
Found at i:27282339 original size:2 final size:2
Alignment explanation
Indices: 27282334--27282359 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27282324 ACACACACAC
27282334 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
27282360 CATGACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27283499 original size:51 final size:51
Alignment explanation
Indices: 27283444--27283624 Score: 208
Period size: 51 Copynumber: 3.6 Consensus size: 51
27283434 TAGTAGTTTG
* *
27283444 CACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTA
1 CACATAGTACTACACATGTGACCATCACTATCAGGTACACGTAGTAGCCTA
* * * *
27283495 CACATAGTACTACACATGTGATCGA--AGCTATCAGGTACGCATAGTAGCCTG
1 CACATAGTACTACACATGTGA-CCATCA-CTATCAGGTACACGTAGTAGCCTA
* * *
27283546 CACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGGCTA
1 CACATAGTACTACACATGTGACC-ATCACTATCAGGTACACGTAGTAGCCTA
* *
27283596 CACATAGTACTACACACGTGACCAACACT
1 CACATAGTACTACACATGTGACCATCACT
27283625 TTCACTTTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
49 3 0.03
50 40 0.37
51 62 0.57
52 2 0.02
53 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (51 bp):
CACATAGTACTACACATGTGACCATCACTATCAGGTACACGTAGTAGCCTA
Found at i:27283601 original size:101 final size:102
Alignment explanation
Indices: 27283432--27283616 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
27283422 TACCGGTTCA
** *
27283432 CATAGTAGTTTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
*
27283497 CATAGTACTACACATGTGATCGAAGCTATCAGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCAGGTACG
* * *
27283534 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGGCTAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
27283597 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
27283617 CCAACACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCAGGTACG
Found at i:27283639 original size:101 final size:102
Alignment explanation
Indices: 27283427--27283640 Score: 263
Period size: 101 Copynumber: 2.1 Consensus size: 102
27283417 AATGATACCG
** *
27283427 GTTCACATAGTAGTTTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
* * * *
27283492 CTACACATAGTACTACACATGTGATCGAAGCTATCAG
66 CTACACATAGTACTACACACGTGATCCAAACTATCAC
* * * *
27283529 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAG
* *
27283592 GCTACACATAGTACTACACACGTGA-CCAACACTTTCAC
65 CCTACACATAGTACTACACACGTGATCCAA-ACTATCAC
*
27283630 TTTCACATAGT
1 GTTCACATAGT
27283641 GTCCTACACA
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
100 3 0.03
101 51 0.54
102 36 0.38
103 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
CTACACATAGTACTACACACGTGATCCAAACTATCAC
Found at i:27287769 original size:59 final size:59
Alignment explanation
Indices: 27287691--27287817 Score: 146
Period size: 59 Copynumber: 2.2 Consensus size: 59
27287681 ACGTCAGAAT
* * * * * *
27287691 TAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGACAGGATTAAATTCTGAAA
1 TAAAATTATGAAATAAAATCAAAATAAATTCTATTAAACGACAGGAATAAATTCCGAAA
* * * * *
27287750 TAAAATTATGTAATTAAATCAAAATAAATTCTATTAAATGGCGGGAATAAATTCCGAAA
1 TAAAATTATGAAATAAAATCAAAATAAATTCTATTAAACGACAGGAATAAATTCCGAAA
*
27287809 CAAAATTAT
1 TAAAATTAT
27287818 TTGATTAAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (59 bp):
TAAAATTATGAAATAAAATCAAAATAAATTCTATTAAACGACAGGAATAAATTCCGAAA
Found at i:27287918 original size:474 final size:469
Alignment explanation
Indices: 27286148--27288456 Score: 3463
Period size: 471 Copynumber: 4.9 Consensus size: 469
27286138 ATGCACCAGG
* * * *
27286148 TAGACATGCATTCTGATATTGTCTTTTTAATTCACCGTTGAT-AATTTTTTTTTAATTCAAAATT
1 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCACAATT
*
27286212 TCAAGCCACAATTAGGCAAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAAT
66 TCAAGCCACAATTAGGAAAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAAT
* * * * *
27286277 TAAAATTCTGAAACAAAATCAAAATCAATTTTTTTTAAATGACATGATTAAA-TCTCAAAACAAA
131 TAAAATTCTGAAATAAAATCAAAATCAA-TTTTGTTAAACGACAGGATTAAATTCTGAAAA-AAA
** * *
27286341 TTATGTAATTAAATCAAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTT
194 TTATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATCCCGAAACAGAATTATTT
* * *
27286406 GATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTCTTAAATGGGGGGAATAAAT
259 GATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGGGAATAAAT
* *
27286471 CCCGAAATAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATATCTGCTAAGG
324 CCCGAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGG
* * *
27286536 AAAAATAATTTTGTGTTGGGCTGAAATATGAGGTGGTGCACTCGGCACGCTTAAATACCAATTCT
389 AAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACCAAGTCT
27286601 TCCAAAGAACCAATCC
454 TCCAAAGAACCAATCC
27286617 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCACAATT
1 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCACAATT
* * **
27286682 TCAAGCCACAATTAGGCACAAAAAAAACACAGAAAATTTCCCTTTGATTTTGTTAAACTTCAGAA
66 TCAAGCCACAATTAGG-AAAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAA
* * **
27286747 TTAAAATTCTAAAATAAAAACAAAATCAATTTTGTTAAACGGTAGGATTAAATTCTGAAACAAAA
130 TTAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGACAGGATTAAATTCTGAAA-AAAA
* * * * * *
27286812 TTATGTAATTAAATCAAACTAAATTCTATTAAATGGGGGGAATAAATCTCGAAACAAAATTATTT
194 TTATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATCCCGAAACAGAATTATTT
* * *
27286877 GATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGGGGATTAAT
259 GATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGGGAATAAAT
* *
27286942 CCCGAAACAGATTTTATTTAATTTAAGATAAATGTTCTTATATAAATAGATTATGCCTGCTAAGG
324 CCCGAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGG
*
27287007 AAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACTAAGTCT
389 AAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACCAAGTCT
* * **
27287072 TTCAAATAACCAATTT
454 TCCAAAGAACCAATCC
* * * * *
27287088 TAAACATGCATTCTCAGATTATCTTTTTAATTCACTATTGATAAATTTCTTTTTTAATTCAAAAT
1 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTC-TTTTTAATTCACAAT
* *
27287153 TTCAAGCCACAATTAGG-CAAAAAAAAATCAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAA
65 TTCAAGCCACAATTAGGAAAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAA
* * * * * * *
27287217 TTAAAATTCTGAAACAAAATCAAAATCAATTTTGTTAAATGACATGTTTAAATCCCGAAACAAAT
130 TTAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGACAGGATTAAATTCTGAAAAAAAT
* ** * *
27287282 TATGTAATTAAATCAAAATAAATTTTGTTAAACGGTTGGAATAAATCCCAAAACAGAATCATTTG
195 TATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATCCCGAAACAGAATTATTTG
* *
27287347 ATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCTGGAATAAATC
260 ATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGGGAATAAATC
* ** *
27287412 CAGAATTAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGGTAAGGA
325 CCGAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGGA
* *
27287477 AAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCGGCACGCTTAAATACCAATTCTT
390 AAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACCAAGTCTT
*
27287542 CCAAAGAACTAATCC
455 CCAAAGAACCAATCC
27287557 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCACAATT
1 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCACAATT
* * *
27287622 TCAAGCCACAATTAGGAAAAAAGAAAAAGAAAAAGAAAATTTTCCTTTGATTTTGTTAAACGTCA
66 TCAAGCCACAATTAGG--AAAA-AAAAA-AAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCA
27287687 GAATTAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGACAGGATTAAATTCTGAAATA
127 GAATTAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGACAGGATTAAATTCTGAAA-A
* * * *
27287752 AAATTATGTAATTAAATCAAAATAAATTCTATTAAATGGCGGGAATAAATTCCGAAACAAAATTA
191 AAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATCCCGAAACAGAATTA
*
27287817 TTTGATTAAGTTTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGGGAATA
256 TTTGATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGGGAATA
*
27287882 AATCCCGAAACAGATTTTATTTAATTTAATATAAATGTCCTTATATAAATAGATTATGTCTGCTA
321 AATCCCGAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTA
*
27287947 AAGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACCAAG
386 AGGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACCAAG
* *
27288012 TCTTTCAAAGAACCAATAC
451 TCTTCCAAAGAACCAATCC
* * *
27288031 TAGACATGCATTCTTATATTGTCTTTTTAATTCACCGTTGATAAATTTCTTTTTAATTCCCAATT
1 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCACAATT
* *
27288096 TCAAGCCACAATTAGGCAAAAAAGAAAAGAAAAGAAAAGAAAATTTCCCTTTGATTTTGTAAAAC
66 TCAAGCCACAATTAGG-----AA-AAAA-AAAA-AACAGAAAATTTCCCTTTGATTTTGTTAAAC
* * * *
27288161 GACAGAATTAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGGCAGGATTAAATCCCGA
123 GGCAGAATTAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGACAGGATTAAATTCTGA
* * *
27288226 AACAAAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGACGAGAATAAATCCCGAAATAGA
188 AA-AAAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATCCCGAAACAGA
* *
27288291 ATTATTTGATTAAGTCTTTGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGAG
252 ATTATTTGATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGGG
* * * * *
27288356 AATAAATTCCGAAACATATTTTATTTAATTTATGATATATGTCCTTATATAAATTGATTATGTCT
317 AATAAATCCCGAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCT
* *
27288421 GCTAAGGAAAAATAATTTCATGTTGGGCTAAAATAT
382 GCTAAGGAAAAATAATTTCGTGTTGGGCTGAAATAT
27288457 TTATATTTAT
Statistics
Matches: 1662, Mismatches: 161, Indels: 25
0.90 0.09 0.01
Matches are distributed among these distances:
468 31 0.02
469 337 0.20
470 147 0.09
471 374 0.23
472 37 0.02
473 89 0.05
474 334 0.20
477 7 0.00
478 306 0.18
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (469 bp):
TAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTTTTAATTCACAATT
TCAAGCCACAATTAGGAAAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAAT
TAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGACAGGATTAAATTCTGAAAAAAATT
ATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATCCCGAAACAGAATTATTTGA
TTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCC
CGAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGGAA
AAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTTAAATACCAAGTCTTC
CAAAGAACCAATCC
Found at i:27288058 original size:943 final size:939
Alignment explanation
Indices: 27286148--27288456 Score: 3759
Period size: 940 Copynumber: 2.4 Consensus size: 939
27286138 ATGCACCAGG
*
27286148 TAGACATGCATTCTGATATTGTCTTTTTAATTCACCGTTGAT-AATTT-TTTTTTAATTCAAAAT
1 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCGTTGATAAATTTCTTTTTTAATTCAAAAT
27286211 TTCAAGCCACAATTAGGCAAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAA
66 TTCAAGCCACAATTAGGCAAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAA
* * *
27286276 TTAAAATTCTGAAACAAAATCAAAATCAATTTTTTTTAAATGACATGATTAAATCTCAAAACAAA
131 TTAAAATTCTGAAACAAAATCAAAATCAA-TTTTGTTAAATGACATGATTAAATCCCGAAACAAA
27286341 TTATGTAATTAAATCAAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTT
195 TTATGTAATTAAATCAAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTT
* * *
27286406 GATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTCTTAAATGGGGGGAATAAAT
260 GATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAA-CGGCGGAATAAAT
*
27286471 CCCGAAATAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATATCTGCTAAGG
324 -CCGAAATAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGG
*
27286536 AAAAATAATTTTGTGTTGGGCTGAAATATGAGGTGGTGCACTCGGCACGCTTAAATACCAATTCT
388 AAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCGGCACGCTTAAATACCAATTCT
27286601 TCCAAAGAACCAATCCTAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTC
453 TCCAAAGAACCAATCCTAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTC
* * * *
27286666 TTTTTAATTCACAATTTCAAGCCACAATTAGGCACAAAAAAAACACAGAAAATTTCCCTTTGATT
518 TTTTTAATTCACAATTTCAAGCCACAATTAGGAAAAAAAAAAAAAAAGAAAATTTCCCTTTGATT
* **
27286731 TTGTTAAACTTCAGAATTAAAATTCTAAAATAAAAACAAAATCAATTTTGTTAAACGGTAGGATT
583 TTGTTAAACGTCAGAATTAAAATTCTAAAATAAAAACAAAATCAATTTTGTTAAACGACAGGATT
* *
27286796 AAATTCTGAAACAAAATTATGTAATTAAATCAAACTAAATTCTATTAAATGGGGGGAATAAATCT
648 AAATTCTGAAACAAAATTATGTAATTAAATCAAAATAAATTCTATTAAATGGCGGGAATAAATCT
27286861 CGAAACAAAATTATTTGATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTA
713 CGAAACAAAATTATTTGATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTA
* * *
27286926 AACGGCGGGGATTAATCCCGAAACAGATTTTATTTAATTTAAGATAAATGTTCTTATATAAATAG
778 AACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAG
*
27286991 ATTATGCCTGCTAAGGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACG
843 ATTATGCCTGCTAAAGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACG
* * **
27287056 CTTAAATACTAAGTCTTTCAAATAACCAATTT
908 CTTAAATACCAAGTCTTTCAAAGAACCAATAC
* * * **
27287088 TAAACATGCATTCTCAGATTATCTTTTTAATTCACTATTGATAAATTTCTTTTTTAATTCAAAAT
1 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCGTTGATAAATTTCTTTTTTAATTCAAAAT
*
27287153 TTCAAGCCACAATTAGGC-AAAAAAAAATCAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAA
66 TTCAAGCCACAATTAGGCAAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAA
*
27287217 TTAAAATTCTGAAACAAAATCAAAATCAATTTTGTTAAATGACATGTTTAAATCCCGAAACAAAT
131 TTAAAATTCTGAAACAAAATCAAAATCAATTTTGTTAAATGACATGATTAAATCCCGAAACAAAT
* *
27287282 TATGTAATTAAATCAAAATAAATTTTGTTAAACGGTTGGAATAAATCCCAAAACAGAATCATTTG
196 TATGTAATTAAATCAAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTTG
*
27287347 ATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCTGGAATAAATC
261 ATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGC-GGAATAAATC
* *
27287412 CAGAATTAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGGTAAGGA
325 C-GAAATAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGGA
27287477 AAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCGGCACGCTTAAATACCAATTCTT
389 AAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCGGCACGCTTAAATACCAATTCTT
*
27287542 CCAAAGAACTAATCCTAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCT
454 CCAAAGAACCAATCCTAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCT
*
27287607 TTTTAATTCACAATTTCAAGCCACAATTAGGAAAAAAGAAAAAGAAAAAGAAAATTTTCCTTTGA
519 TTTTAATTCACAATTTCAAGCCACAATTAGG-AAAAA-AAAAA-AAAAAGAAAATTTCCCTTTGA
* *
27287672 TTTTGTTAAACGTCAGAATTAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGACAGGA
581 TTTTGTTAAACGTCAGAATTAAAATTCTAAAATAAAAACAAAATCAATTTTGTTAAACGACAGGA
*
27287737 TTAAATTCTGAAATAAAATTATGTAATTAAATCAAAATAAATTCTATTAAATGGCGGGAATAAAT
646 TTAAATTCTGAAACAAAATTATGTAATTAAATCAAAATAAATTCTATTAAATGGCGGGAATAAAT
* *
27287802 -TCCGAAACAAAATTATTTGATTAAGTTTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTG
711 CT-CGAAACAAAATTATTTGATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTG
*
27287866 TTAAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATATAAATGTCCTTATATAAA
775 TTAAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAA
*
27287931 TAGATTATGTCTGCTAAAGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGC
840 TAGATTATGCCTGCTAAAGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGC
27287996 ACGCTTAAATACCAAGTCTTTCAAAGAACCAATAC
905 ACGCTTAAATACCAAGTCTTTCAAAGAACCAATAC
* **
27288031 TAGACATGCATTCTTATATTGTCTTTTTAATTCACCGTTGATAAATTTC-TTTTTAATTCCCAAT
1 TAGACATGCATTCTCATATTGTCTTTTTAATTCACCGTTGATAAATTTCTTTTTTAATTCAAAAT
* *
27288095 TTCAAGCCACAATTAGGCAAAAAAGAAAAGAAAAGAAAAGAAAATTTCCCTTTGATTTTGTAAAA
66 TTCAAGCCACAATTAGGC-----A-AAAA-AAAA-AACAGAAAATTTCCCTTTGATTTTGTTAAA
* * * * *
27288160 CGACAGAATTAAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGGCAGGATTAAATCCCG
123 CGGCAGAATTAAAATTCTGAAACAAAATCAAAATCAATTTTGTTAAATGACATGATTAAATCCCG
* *
27288225 AAACAAAATTATGTAATTAAATCAAAATAAATTCTGTTAAAC-G-ACGAGAATAAATCCCGAAAT
188 AAAC-AAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGGTA-G-GAATAAATCCCAAAAC
* *
27288288 AGAATTATTTGATTAAGTCTTTGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGC
250 AGAATCATTTGATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGC
* * * * *
27288353 GAGAATAAATTCCGAAACATATTTTATTTAATTTATGATATATGTCCTTATATAAATTGATTATG
315 G-GAATAAA-TCCGAAATAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATG
* *
27288418 TCTGCTAAGGAAAAATAATTTCATGTTGGGCTAAAATAT
378 TCTGCTAAGGAAAAATAATTTCGTGTTGGGCTGAAATAT
27288457 TTATATTTAT
Statistics
Matches: 1267, Mismatches: 80, Indels: 32
0.92 0.06 0.02
Matches are distributed among these distances:
939 4 0.00
940 407 0.32
941 82 0.06
942 71 0.06
943 398 0.31
949 4 0.00
950 4 0.00
951 93 0.07
952 201 0.16
953 3 0.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (939 bp):
TAGACATGCATTCTCATATTGTCTTTTTAATTCACCGTTGATAAATTTCTTTTTTAATTCAAAAT
TTCAAGCCACAATTAGGCAAAAAAAAAAACAGAAAATTTCCCTTTGATTTTGTTAAACGGCAGAA
TTAAAATTCTGAAACAAAATCAAAATCAATTTTGTTAAATGACATGATTAAATCCCGAAACAAAT
TATGTAATTAAATCAAAATAAATTCTGTTAAACGGTAGGAATAAATCCCAAAACAGAATCATTTG
ATTAAGTCTTCGTTTAGAAACAAATCAATATTGAATAAAATCTTGTTAAACGGCGGAATAAATCC
GAAATAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATTATGTCTGCTAAGGAAA
AATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCGGCACGCTTAAATACCAATTCTTCC
AAAGAACCAATCCTAGACATGCATTCTCATATTGTCTTTTTAATTCACCATTGATAAATTTCTTT
TTAATTCACAATTTCAAGCCACAATTAGGAAAAAAAAAAAAAAAGAAAATTTCCCTTTGATTTTG
TTAAACGTCAGAATTAAAATTCTAAAATAAAAACAAAATCAATTTTGTTAAACGACAGGATTAAA
TTCTGAAACAAAATTATGTAATTAAATCAAAATAAATTCTATTAAATGGCGGGAATAAATCTCGA
AACAAAATTATTTGATTAAGTCTTCGTTTAGAAACAAATCAATATCGAATAAAATCTTGTTAAAC
GGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTAAGATAAATGTCCTTATATAAATAGATT
ATGCCTGCTAAAGAAAAATAATTTCGTGTTGGGCTGAAATATGAGGTGGTGCACTCAGCACGCTT
AAATACCAAGTCTTTCAAAGAACCAATAC
Found at i:27288303 original size:59 final size:59
Alignment explanation
Indices: 27288170--27288295 Score: 155
Period size: 59 Copynumber: 2.1 Consensus size: 59
27288160 CGACAGAATT
* * * * * * *
27288170 AAAATTCTGAAATAAAATCAAAATCAATTTTGTTAAACGGCAGGATTAAATCCCGAAAC
1 AAAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGACAGGAATAAATCCCGAAAC
*
27288229 AAAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGAC-GAGAATAAATCCCGAAAT
1 AAAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGACAG-GAATAAATCCCGAAAC
*
27288288 AGAATTAT
1 AAAATTAT
27288296 TTGATTAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 1 0.02
59 56 0.98
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (59 bp):
AAAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGACAGGAATAAATCCCGAAAC
Found at i:27290382 original size:12 final size:11
Alignment explanation
Indices: 27290364--27290390 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27290354 TCTTTACCTC
27290364 CTTTTTTTTTT
1 CTTTTTTTTTT
27290375 CTTTTTTTTTT
1 CTTTTTTTTTT
27290386 CTTTT
1 CTTTT
27290391 CCTTTTCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:27303512 original size:5 final size:5
Alignment explanation
Indices: 27303504--27303530 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
27303494 AGTTAAGTTA
27303504 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
27303531 AATAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:27303944 original size:27 final size:27
Alignment explanation
Indices: 27303914--27303967 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
27303904 AAAATTAGGG
*
27303914 ATTTGTGATGAAATTAGAAAGTTAAAT
1 ATTTATGATGAAATTAGAAAGTTAAAT
* *
27303941 ATTTATGGTGAAATTAGAGAGTTAAAT
1 ATTTATGATGAAATTAGAAAGTTAAAT
27303968 TAGTTTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (27 bp):
ATTTATGATGAAATTAGAAAGTTAAAT
Found at i:27308268 original size:34 final size:35
Alignment explanation
Indices: 27308198--27308268 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
27308188 AAAAAAATCT
27308198 AAAGTTAAAATATATTATTATAATAATATTATTTA
1 AAAGTTAAAATATATTATTATAATAATATTATTTA
* *
27308233 AAAGTTAAATTATA-TATTAT-ATTATATTATATTA
1 AAAGTTAAAATATATTATTATAATAATATTAT-TTA
27308267 AA
1 AA
27308269 TAAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 9 0.27
34 11 0.33
35 13 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (35 bp):
AAAGTTAAAATATATTATTATAATAATATTATTTA
Done.