Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 45 of 172
Found at i:11963870 original size:3 final size:3
Alignment explanation
Indices: 11963856--11963889 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
11963846 ATTGATAAAA
* *
11963856 AAT AAT ACT AAT AAT AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11963890 TTAAACTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11965646 original size:99 final size:99
Alignment explanation
Indices: 11965322--11965682 Score: 406
Period size: 99 Copynumber: 3.6 Consensus size: 99
11965312 GTAAATCTGC
* *
11965322 TTAACTGTGATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCTACTGCA-CTAGC
1 TTAACTGTAATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCATC-A-C
* * * * *
11965386 TGAGAGAGT-GAGATTCGTCGTTGTGACTTTAATCCTT
64 CGAGAG-GTAG-GATTCGCCGCTGTGGCTTTAATCTTT
* * **
11965423 TTAACTGTAATGTC-GGGAAAGCAAGATTCGCCATTGTGGCTTTAATCTGCTT-CACTGCATTGC
1 TTAACTGTAATGTCAGGG-AAGCAAGATTCACCGTTGTGGCTTTAATCTG-TTCCACTGCATCAC
* * ** * *
11965486 CAGGGAAGTAACACTCGCCGCTGTGGCTTTAGTCTTT
64 C-GAGAGGTAGGATTCGCCGCTGTGGCTTTAATCTTT
* * * *
11965523 TTAACCGTAATGTCATGGAGGCAAGGTTCACCGTTGTGGCTTTAATCTGTTCCACTGCATCACCG
1 TTAACTGTAATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCATCACCG
*
11965588 AGAGGTAGGATTCGCCGCTGTGGCTTTAATATTT
66 AGAGGTAGGATTCGCCGCTGTGGCTTTAATCTTT
* * *
11965622 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACGGCATC
1 TTAACTGTAATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCATC
11965683 GCCAAGGAAG
Statistics
Matches: 214, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
99 84 0.39
100 75 0.35
101 53 0.25
102 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (99 bp):
TTAACTGTAATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCATCACCG
AGAGGTAGGATTCGCCGCTGTGGCTTTAATCTTT
Found at i:11965666 original size:50 final size:50
Alignment explanation
Indices: 11965322--11965669 Score: 236
Period size: 50 Copynumber: 7.0 Consensus size: 50
11965312 GTAAATCTGC
** *
11965322 TTAACTGTGATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTT
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT-TT
* * * * ** * * *
11965373 CT-ACTGCACTAG-CTGAGAGAGTGAGATTCGTCGTTGTGACTTTAATCCTT
1 TTAACTGCAAT-GTCAGGGA-AGCAAGATTCGCCGTTGTGGCTTTAATCTTT
* * **
11965423 TTAACTGTAATGTC-GGGAAAGCAAGATTCGCCATTGTGGCTTTAATCTGC
1 TTAACTGCAATGTCAGGG-AAGCAAGATTCGCCGTTGTGGCTTTAATCTTT
* * * * * * * *
11965473 TTCACTGCATTGCCAGGGAAGTAACACTCGCCGCTGTGGCTTTAGTCTTT
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTTT
* * * * * * *
11965523 TTAACCGTAATGTCATGGAGGCAAGGTTCACCGTTGTGGCTTTAATCTGT
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTTT
** ** * * * * * * *
11965573 TCCACTGC-ATCACCGAGAGGTAGGATTCGCCGCTGTGGCTTTAATATTT
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTTT
* *
11965622 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCT
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
11965670 GTTCCACGGC
Statistics
Matches: 211, Mismatches: 79, Indels: 15
0.69 0.26 0.05
Matches are distributed among these distances:
49 35 0.17
50 140 0.66
51 36 0.17
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (50 bp):
TTAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTTT
Found at i:11965694 original size:199 final size:201
Alignment explanation
Indices: 11965322--11965694 Score: 513
Period size: 199 Copynumber: 1.9 Consensus size: 201
11965312 GTAAATCTGC
* * * *
11965322 TTAACTGTGATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCTACTGCACTAGCT
1 TTAACCGTAATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTAGCC
* * * *
11965387 GAGAGAGTGAGATTCGTCGTTGTGACTTTAATCCTTTTAACTGTAATGTCGGGAAAGCAAGATTC
66 GAGAGAGTGAGATTCGCCGCTGTGACTTTAATACTTTTAACTGCAATGTCGGGAAAGCAAGATTC
* * * *
11965452 GCCATTGTGGCTTTAATCTGCTTCACTGCATTGCCAGGGAAGTAACACTCGCCGCTGTGGCTTTA
131 ACCATTGTGGCTTTAATCTGCTTCACGGCATCGCCAAGGAAGTAACACTCGCCGCTGTGGCTTTA
11965517 GTCTTT
196 GTCTTT
* * *
11965523 TTAACCGTAATGTCATGGAGGCAAGGTTCACCGTTGTGGCTTTAATCTGTTCCACTGCA-TCA-C
1 TTAACCGTAATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACT-AGC
* * *
11965586 CGAGAG-GT-AGGATTCGCCGCTGTGGCTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGAT
65 CGAGAGAGTGA-GATTCGCCGCTGTGACTTTAATACTTTTAACTGCAATGTCGGGAAAGCAAGAT
*
11965649 TCACCGTTGTGGCTTTAATCTG-TTCCACGGCATCGCCAAGGAAGTA
129 TCACCATTGTGGCTTTAATCTGCTT-CACGGCATCGCCAAGGAAGTA
11965695 GGATTTGTAA
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
198 3 0.02
199 86 0.57
200 7 0.05
201 54 0.36
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (201 bp):
TTAACCGTAATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTAGCC
GAGAGAGTGAGATTCGCCGCTGTGACTTTAATACTTTTAACTGCAATGTCGGGAAAGCAAGATTC
ACCATTGTGGCTTTAATCTGCTTCACGGCATCGCCAAGGAAGTAACACTCGCCGCTGTGGCTTTA
GTCTTT
Found at i:11965999 original size:142 final size:142
Alignment explanation
Indices: 11965743--11966585 Score: 1391
Period size: 142 Copynumber: 5.9 Consensus size: 142
11965733 GGGAGATAAG
*
11965743 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* *
11965808 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGA
66 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
11965873 TTTCTGGCTTCA
131 TTTCTGGCTTCA
* * *
11965885 ACCTGATGCGATCTACTTTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* *
11965950 TGTAATCTCAGGGAGATAGGATTACTAGCTTCCATCTGCTCCACTGTAATCTCAAGGAGATAAGA
66 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
11966015 TTTCTGGCTTCA
131 TTTCTGGCTTCA
* * *
11966027 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCTGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* * * *
11966092 TGTAATCTCATGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTTAGGGAGATAAGA
66 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
11966157 TTTCTGGCTTCA
131 TTTCTGGCTTCA
* *
11966169 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* ***
11966234 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCTGTTGTAATCTCAGGGAGATAAGA
66 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
* *
11966299 TTACTAGCTTCA
131 TTTCTGGCTTCA
* *
11966311 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCTCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* *
11966376 TATAATCTCAGGGAGATAGGATTACTAGCTTCCATCTGCTCCACTGTAATCTCAGGGAGATAAGA
66 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
11966441 TTTCTGGCTTCA
131 TTTCTGGCTTCA
11966453 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* * * *
11966518 TGTAATCTCATGGAGATAGGATTA-TTGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAG
66 TGTAATCTCAGGGAGATAGGATTACTAG-CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAG
11966582 ATTT
130 ATTT
11966586 GCTTATTCAG
Statistics
Matches: 657, Mismatches: 43, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
141 2 0.00
142 655 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (142 bp):
ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
TTTCTGGCTTCA
Found at i:11966600 original size:44 final size:43
Alignment explanation
Indices: 11966547--11966646 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 43
11966537 GATTATTGAC
* *
11966547 TTCAATCTGCTCCACTGCAACCTC-AGGGAGATAAGATTTGCTTA
1 TTCAGTCTGCTCCACTGCAACCTCAAGGG-GATAAGACTTG-TTA
* ** * *
11966591 TTCAGTCTGCCCCACTGTGACTTCAAGGGGATAAGACTTGTTT
1 TTCAGTCTGCTCCACTGCAACCTCAAGGGGATAAGACTTGTTA
11966634 TCTCAGTCTGCTC
1 T-TCAGTCTGCTC
11966647 TGCCACTGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
43 3 0.07
44 39 0.85
45 4 0.09
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (43 bp):
TTCAGTCTGCTCCACTGCAACCTCAAGGGGATAAGACTTGTTA
Found at i:11968079 original size:7 final size:7
Alignment explanation
Indices: 11968067--11968114 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
11968057 TTAGCCTCTC
11968067 CATTTTT
1 CATTTTT
11968074 CATTTTT
1 CATTTTT
11968081 CATTTTT
1 CATTTTT
11968088 CATTTTT
1 CATTTTT
*
11968095 CA-TTCT
1 CATTTTT
*
11968101 CCTTTTT
1 CATTTTT
11968108 CATTTTT
1 CATTTTT
11968115 TTGACTCAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
6 4 0.11
7 32 0.89
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:11968091 original size:21 final size:20
Alignment explanation
Indices: 11968067--11968114 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
11968057 TTAGCCTCTC
*
11968067 CATTTTTCATTTTTCATTTTT
1 CATTTTTCA-TTCTCATTTTT
*
11968088 CATTTTTCATTCTCCTTTTT
1 CATTTTTCATTCTCATTTTT
11968108 CATTTTT
1 CATTTTT
11968115 TTGACTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:11968959 original size:8 final size:7
Alignment explanation
Indices: 11968936--11968970 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
11968926 TGGCCTCTCC
11968936 TTTTCTT
1 TTTTCTT
11968943 TTTTCTT
1 TTTTCTT
11968950 TTTTCTTT
1 TTTTC-TT
11968958 TTTTCTCT
1 TTTTCT-T
11968966 TTTTC
1 TTTTC
11968971 ATATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTCTT
Found at i:11968961 original size:15 final size:15
Alignment explanation
Indices: 11968931--11968970 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11968921 CGCCTTGGCC
*
11968931 TCTCCTTTTCTTTTT
1 TCTCTTTTTCTTTTT
11968946 TCT-TTTTTCTTTTTT
1 TCTCTTTTTC-TTTTT
11968961 TCTCTTTTTC
1 TCTCTTTTTC
11968971 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 11 0.50
16 6 0.27
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (15 bp):
TCTCTTTTTCTTTTT
Found at i:11968977 original size:17 final size:15
Alignment explanation
Indices: 11968936--11968983 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
11968926 TGGCCTCTCC
11968936 TTTTCT-TTTTTCTT
1 TTTTCTATTTTTCTT
*
11968950 TTTTCTTTTTTTCTCT
1 TTTTCTATTTTTCT-T
*
11968966 TTTTCATATTTTTATT
1 TTTTC-TATTTTTCTT
11968982 TT
1 TT
11968984 GACTTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 9 0.31
17 7 0.24
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTATTTTTCTT
Found at i:11969044 original size:18 final size:17
Alignment explanation
Indices: 11969023--11969078 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
11969013 ATTTTTTCTT
11969023 TTTTGTTTTTGTTTTTGA
1 TTTT-TTTTTGTTTTTGA
*
11969041 TTTTTATTTTGATTTTGA
1 TTTTT-TTTTGTTTTTGA
*
11969059 TTTTTTTTATTTTTTTGA
1 TTTTTTTT-TGTTTTTGA
11969077 TT
1 TT
11969079 GAATCTGACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 4 0.12
18 29 0.88
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTGA
Found at i:11969061 original size:12 final size:12
Alignment explanation
Indices: 11969023--11969062 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
11969013 ATTTTTTCTT
* *
11969023 TTTTGTTTTTGT
1 TTTTGATTTTGA
*
11969035 TTTTGATTTTTA
1 TTTTGATTTTGA
11969047 TTTTGATTTTGA
1 TTTTGATTTTGA
11969059 TTTT
1 TTTT
11969063 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (12 bp):
TTTTGATTTTGA
Found at i:11969074 original size:12 final size:12
Alignment explanation
Indices: 11969016--11969078 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
11969006 GACTTTGATT
11969016 TTTTCTTTTTTG-
1 TTTT-TTTTTTGA
11969028 TTTTTGTTTTTGA
1 TTTTT-TTTTTGA
*
11969041 TTTTTATTTTGA
1 TTTTTTTTTTGA
11969053 TTTTGATTTTTT--
1 TTTT--TTTTTTGA
*
11969065 TTATTTTTTTGA
1 TTTTTTTTTTGA
11969077 TT
1 TT
11969079 GAATCTGACC
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 6 0.14
11 1 0.02
12 25 0.60
13 5 0.12
14 5 0.12
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTTGA
Found at i:11973326 original size:3 final size:3
Alignment explanation
Indices: 11973318--11973358 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
11973308 ATTGATAAAA
* *
11973318 AAT AAT AAT ACT AAT AAT AAT AGT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11973359 ACTAAATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11992209 original size:50 final size:50
Alignment explanation
Indices: 11992155--11992309 Score: 113
Period size: 50 Copynumber: 3.1 Consensus size: 50
11992145 GAATAAATAG
11992155 AAAATTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTC
1 AAAATTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTC
* ***** * * * * *
11992205 AAAATTTAGGTTGAAATGAAATTAGCTATTAATTAACTAG---T-ATTACCTTC
1 AAAATTGACAAACAACT-AAATCA--TAAT-ATTAACTCGTTATAATTAACTTC
***
11992255 -CGGTTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTC
1 AAAATTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTC
11992304 AAAATT
1 AAAATT
11992310 CAGGTTGAAA
Statistics
Matches: 68, Mismatches: 28, Indels: 18
0.60 0.25 0.16
Matches are distributed among these distances:
45 8 0.12
46 3 0.04
48 6 0.09
49 14 0.21
50 20 0.29
51 6 0.09
53 3 0.04
54 8 0.12
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (50 bp):
AAAATTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTC
Found at i:11992268 original size:99 final size:99
Alignment explanation
Indices: 11992159--11992356 Score: 387
Period size: 99 Copynumber: 2.0 Consensus size: 99
11992149 AAATAGAAAA
*
11992159 TTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTCAAAATTTAGGTTGAAATGA
1 TTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTCAAAATTCAGGTTGAAATGA
11992224 AATTAGCTATTAATTAACTAGTATTACCTTCCGG
66 AATTAGCTATTAATTAACTAGTATTACCTTCCGG
11992258 TTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTCAAAATTCAGGTTGAAATGA
1 TTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTCAAAATTCAGGTTGAAATGA
11992323 AATTAGCTATTAATTAACTAGTATTACCTTCCGG
66 AATTAGCTATTAATTAACTAGTATTACCTTCCGG
11992357 CCTCTACTAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (99 bp):
TTGACAAACAACTAAATCATAATATTAACTCGTTATAATTAACTTCAAAATTCAGGTTGAAATGA
AATTAGCTATTAATTAACTAGTATTACCTTCCGG
Found at i:11998510 original size:10 final size:9
Alignment explanation
Indices: 11998496--11998534 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
11998486 AGTTTAATAC
11998496 TTAATTAAT
1 TTAATTAAT
*
11998505 CTTAATTAGT
1 -TTAATTAAT
11998515 TTAATTAAAT
1 TTAATT-AAT
11998525 TTAATTAAT
1 TTAATTAAT
11998534 T
1 T
11998535 AACACTAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 10 0.38
10 16 0.62
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (9 bp):
TTAATTAAT
Found at i:11999214 original size:25 final size:25
Alignment explanation
Indices: 11999185--11999238 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
11999175 ATTCTGTTAA
11999185 AATCATAACAACTTTACCGTAAAAG
1 AATCATAACAACTTTACCGTAAAAG
** *
11999210 AATCATAATGACTTTACTGTAAAAG
1 AATCATAACAACTTTACCGTAAAAG
11999235 AATC
1 AATC
11999239 CATGAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (25 bp):
AATCATAACAACTTTACCGTAAAAG
Found at i:12000275 original size:25 final size:25
Alignment explanation
Indices: 12000221--12000275 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
12000211 AAACATTAAA
*
12000221 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
12000246 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
12000270 TATTAA
1 T-TTAA
12000276 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:12006184 original size:28 final size:28
Alignment explanation
Indices: 12006134--12006189 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
12006124 GTATTAGTAC
* * *
12006134 AGTGTGAGCTTTAGCCCATTACAGTAAT
1 AGTGTGAGCCTTAGCCCAATACAATAAT
* *
12006162 AGTGTGGGCCTTAGCCTAATACAATAAT
1 AGTGTGAGCCTTAGCCCAATACAATAAT
12006190 CAGTACAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (28 bp):
AGTGTGAGCCTTAGCCCAATACAATAAT
Found at i:12006577 original size:27 final size:27
Alignment explanation
Indices: 12006547--12006799 Score: 253
Period size: 27 Copynumber: 9.4 Consensus size: 27
12006537 AGGAGTATAA
* *
12006547 CAGTCATTTTACCCTAT-GGGGGGATTT
1 CAGTCATTTTACCCT-TCAGGGGTATTT
* *
12006574 CAGTCATTTTATCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
* *
12006601 C-GATCATTTTACCCTTCAAGGGAATTT
1 CAG-TCATTTTACCCTTCAGGGGTATTT
* * ** * *
12006628 CGGTCATTTTACCCTTTAAAGATGTGTT
1 CAGTCATTTTACCCTTCAGGGGTAT-TT
*
12006656 -GGTCATTTTACCCTTCAGGGGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
12006682 CAGTCATTTTACCCTTCAGGGGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
*
12006709 CAGTCATTTTAACCTTCAGGGGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
* * *
12006736 CGGTTATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
* * **
12006763 CGGTCATTTTACCATTTGGGGGTATTT
1 CAGTCATTTTACCCTTCAGGGGTATTT
12006790 C-GATCATTTT
1 CAG-TCATTTT
12006800 GCCCACGAAT
Statistics
Matches: 195, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.03
27 187 0.96
28 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCAGGGGTATTT
Found at i:12010216 original size:46 final size:46
Alignment explanation
Indices: 12010149--12010239 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
12010139 GAATTCCTTT
12010149 CCAGACTCTAGCTGTATTAAGATAGGGCCCTCAGTCAGAACATTCA
1 CCAGACTCTAGCTGTATTAAGATAGGGCCCTCAGTCAGAACATTCA
*
12010195 CCAGACTCTGGCTGTATTAAGATAGGGCCCTCAGTCAGAACATTC
1 CCAGACTCTAGCTGTATTAAGATAGGGCCCTCAGTCAGAACATTC
12010240 TTCAATTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
CCAGACTCTAGCTGTATTAAGATAGGGCCCTCAGTCAGAACATTCA
Found at i:12012702 original size:28 final size:28
Alignment explanation
Indices: 12012671--12012800 Score: 215
Period size: 28 Copynumber: 4.6 Consensus size: 28
12012661 TAGTATTAGT
*
12012671 ACAGTGTGGGCCTTAGCCCATTACAGTA
1 ACAGTGTGGGCCTTAGCCAATTACAGTA
12012699 ACAGTGTGGGCCTTAGCCAATTACAGTA
1 ACAGTGTGGGCCTTAGCCAATTACAGTA
*
12012727 ACAGTGTGGGCCTTAGCCAATTATAGTA
1 ACAGTGTGGGCCTTAGCCAATTACAGTA
* *
12012755 ACATTGTGGGCCATAGCCAATTACAGTA
1 ACAGTGTGGGCCTTAGCCAATTACAGTA
*
12012783 ACAGTGTGGGTCTTAGCC
1 ACAGTGTGGGCCTTAGCC
12012801 CAAAACAATA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 94 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCAATTACAGTA
Found at i:12012967 original size:26 final size:25
Alignment explanation
Indices: 12012922--12012971 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
12012912 ACACTAATAT
*
12012922 CGCAGCAAGCTGCTAGTAACAGTAA
1 CGCAGCAAGCCGCTAGTAACAGTAA
12012947 CGCAGCAAGACCGCTAGTAACAGTA
1 CGCAGCAAG-CCGCTAGTAACAGTA
12012972 TATGTGGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (25 bp):
CGCAGCAAGCCGCTAGTAACAGTAA
Found at i:12013177 original size:27 final size:27
Alignment explanation
Indices: 12013147--12013288 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
12013137 AGTATAACAG
*
12013147 TCATTTTACCCTAT-GGGGGGATTTCGA
1 TCATTTTACCCT-TCGGGGGTATTTCGA
* * * *
12013174 TCATTTTACCCTTCGAGTGTATTTTGG
1 TCATTTTACCCTTCGGGGGTATTTCGA
*
12013201 TCATTTTACCCTTCGGGGGTATTTCAA
1 TCATTTTACCCTTCGGGGGTATTTCGA
* *
12013228 TCATTTTACCCTTTGGGGGTATTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGA
*
12013255 TCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCTTCGGGGGTATTTCGA
12013282 TCATTTT
1 TCATTTT
12013289 GCCCACGAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 97 0.99
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCGGGGGTATTTCGA
Found at i:12013209 original size:54 final size:54
Alignment explanation
Indices: 12013146--12013288 Score: 207
Period size: 54 Copynumber: 2.6 Consensus size: 54
12013136 AAGTATAACA
* * *
12013146 GTCATTTTACCCTAT-GGGGGGATTTCGATCATTTTACCCTTCGAGTGTATTTTG
1 GTCATTTTACCCT-TCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
12013200 GTCATTTTACCCTTCGGGGGTATTTCAATCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
*
12013254 GTCATTTTACCCTTCAGGGGTATTTCGATCATTTT
1 GTCATTTTACCCTTCGGGGGTATTTCGATCATTTT
12013289 GCCCACGAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 79 0.99
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
Found at i:12027393 original size:5 final size:6
Alignment explanation
Indices: 12027367--12027392 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12027357 TTTTTTATAA
12027367 TTTAAT TTTAAT TTTAAT TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TT
12027393 ATATGTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:12036522 original size:19 final size:19
Alignment explanation
Indices: 12036498--12036597 Score: 56
Period size: 20 Copynumber: 5.0 Consensus size: 19
12036488 TGAACCAAAA
12036498 TTGGTACATCTCATGTTTT
1 TTGGTACATCTCATGTTTT
* *
12036517 TTGGTATATCCTCATATTTTT
1 TTGGTACAT-CTCAT-GTTTT
* * **
12036538 TTTGTATCCTGACATGTTTT
1 TTGGTA-CATCTCATGTTTT
* * *
12036558 TCGGTACACTCTCTTATTTT
1 TTGGTACA-TCTCATGTTTT
* *
12036578 CTGGTATCCTCTCATGTTTT
1 TTGGTA-CATCTCATGTTTT
12036598 CTAATAATAT
Statistics
Matches: 56, Mismatches: 20, Indels: 9
0.66 0.24 0.11
Matches are distributed among these distances:
19 9 0.16
20 33 0.59
21 13 0.23
22 1 0.02
ACGTcount: A:0.15, C:0.19, G:0.13, T:0.53
Consensus pattern (19 bp):
TTGGTACATCTCATGTTTT
Found at i:12037097 original size:20 final size:20
Alignment explanation
Indices: 12037017--12037097 Score: 53
Period size: 20 Copynumber: 4.1 Consensus size: 20
12037007 ACGAACAAAA
*
12037017 TTTGGTA-CATCTCATCTTT
1 TTTGGTATCTTCTCATCTTT
* * *
12037036 TTCGGTAT-TTCTTAATGTTT
1 TTTGGTATCTTC-TCATCTTT
* *
12037056 TTTGGTAGTC-CCTCA-CAATT
1 TTTGGTA-TCTTCTCATC-TTT
12037076 TTTGGTATCTTCTCATCTTT
1 TTTGGTATCTTCTCATCTTT
12037096 TT
1 TT
12037098 CAATAATGCC
Statistics
Matches: 44, Mismatches: 11, Indels: 13
0.65 0.16 0.19
Matches are distributed among these distances:
19 10 0.23
20 31 0.70
21 3 0.07
ACGTcount: A:0.15, C:0.19, G:0.12, T:0.54
Consensus pattern (20 bp):
TTTGGTATCTTCTCATCTTT
Found at i:12037264 original size:20 final size:21
Alignment explanation
Indices: 12037194--12037265 Score: 51
Period size: 20 Copynumber: 3.5 Consensus size: 21
12037184 ATAGATCACC
*
12037194 TTTTTTGGTATTTTGC-CATCT
1 TTTTTTGGTATTTT-CTCATCA
* **
12037215 TTTATTTGGTAGTCCCTCA-CA
1 TTT-TTTGGTATTTTCTCATCA
* *
12037236 ATTTATGGTATTTTCTCATC-
1 TTTTTTGGTATTTTCTCATCA
12037256 TTTTTTGGTA
1 TTTTTTGGTA
12037266 ATCCTTCATG
Statistics
Matches: 37, Mismatches: 11, Indels: 7
0.67 0.20 0.13
Matches are distributed among these distances:
20 19 0.51
21 8 0.22
22 10 0.27
ACGTcount: A:0.15, C:0.15, G:0.14, T:0.56
Consensus pattern (21 bp):
TTTTTTGGTATTTTCTCATCA
Found at i:12037321 original size:20 final size:19
Alignment explanation
Indices: 12037298--12037367 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 19
12037288 AAGCTTTTAG
12037298 ATTTTTTGGTGTATCCTCAT
1 ATTTTTTGGT-TATCCTCAT
*
12037318 ATTTCTTGG-TATGCCCTCAT
1 ATTTTTTGGTTAT--CCTCAT
* * *
12037338 GTTTTCTGGTAATCCGTCAT
1 ATTTTTTGGTTATCC-TCAT
*
12037358 ATGTTTTGGT
1 ATTTTTTGGT
12037368 ATCTCTTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 3 0.08
19 2 0.05
20 31 0.82
21 2 0.05
ACGTcount: A:0.14, C:0.17, G:0.19, T:0.50
Consensus pattern (19 bp):
ATTTTTTGGTTATCCTCAT
Found at i:12037423 original size:40 final size:39
Alignment explanation
Indices: 12037195--12037423 Score: 99
Period size: 40 Copynumber: 5.6 Consensus size: 39
12037185 TAGATCACCT
* *
12037195 TTTTTGGTATTTTGC-CATCTTTTATTTGGTAGTCCCTCACAA
1 TTTTTGGTATCTT-CTCATC-TTT-TTTGGTAGTCCCTCA-TA
* * * * *
12037237 TTTATGGTATTTTCTCATCTTTTTTGGTAATCCTTCATGTT
1 TTTTTGGTATCTTCTCATCTTTTTTGGTAGTCCCTCA--TA
* * ** *
12037278 TTTTTGGTAAAAGCTT-TTAGATTTTTTGGT-GTATCCTCATA
1 TTTTTGGT---ATCTTCTCATCTTTTTTGGTAGT-CCCTCATA
* * * * *
12037319 TTTCTTGGTATGC-CCTCATGTTTTCTGGTAATCCGTCATA
1 TTT-TTGGTAT-CTTCTCATCTTTTTTGGTAGTCCCTCATA
** * *
12037359 TGTTTTGGTATC-TCTTTTTGTTTTTTGGTAGTCCCTCACAA
1 T-TTTTGGTATCTTC-TCATCTTTTTTGGTAGTCCCTCA-TA
12037400 TTTTTGGTATCTTCTCATCTTTTT
1 TTTTTGGTATCTTCTCATCTTTTT
12037424 CTATAATCCC
Statistics
Matches: 138, Mismatches: 35, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
39 3 0.02
40 73 0.53
41 22 0.16
42 22 0.16
43 15 0.11
44 3 0.02
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (39 bp):
TTTTTGGTATCTTCTCATCTTTTTTGGTAGTCCCTCATA
Found at i:12037558 original size:20 final size:20
Alignment explanation
Indices: 12037533--12037572 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
12037523 ATAATTTTTG
12037533 GTTTTTTGGTTTGCGCTCAT
1 GTTTTTTGGTTTGCGCTCAT
*
12037553 GTTTTTTGGTTTGCTCTCAT
1 GTTTTTTGGTTTGCGCTCAT
12037573 ATTTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.15, G:0.23, T:0.57
Consensus pattern (20 bp):
GTTTTTTGGTTTGCGCTCAT
Found at i:12037810 original size:20 final size:20
Alignment explanation
Indices: 12037785--12037828 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
12037775 GGTATTTTTT
*
12037785 TCATGTTTATTGGTAGTCTC
1 TCATGTTTATTGGTAGTCCC
*
12037805 TCATGTTTTTTGGTAGTCCC
1 TCATGTTTATTGGTAGTCCC
12037825 TCAT
1 TCAT
12037829 ATTTTTTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (20 bp):
TCATGTTTATTGGTAGTCCC
Found at i:12037833 original size:20 final size:20
Alignment explanation
Indices: 12037794--12037836 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
12037784 TTCATGTTTA
* *
12037794 TTGGTAGTCTCTCATGTTTT
1 TTGGTAGTCCCTCATATTTT
12037814 TTGGTAGTCCCTCATATTTT
1 TTGGTAGTCCCTCATATTTT
12037834 TTG
1 TTG
12037837 TCTTATCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.16, G:0.19, T:0.53
Consensus pattern (20 bp):
TTGGTAGTCCCTCATATTTT
Found at i:12042308 original size:9 final size:9
Alignment explanation
Indices: 12042294--12042324 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
12042284 AAATTTCGAG
12042294 TCGAGTTAT
1 TCGAGTTAT
*
12042303 TCGAGTTAA
1 TCGAGTTAT
12042312 TCGAGTTAT
1 TCGAGTTAT
12042321 TCGA
1 TCGA
12042325 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:12042404 original size:9 final size:9
Alignment explanation
Indices: 12042377--12042413 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
12042367 TGAGTTTTCG
12042377 AATTCGAAT
1 AATTCGAAT
* *
12042386 AACTCAAAT
1 AATTCGAAT
12042395 AATTCGAAT
1 AATTCGAAT
12042404 AATTCGAAT
1 AATTCGAAT
12042413 A
1 A
12042414 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:12042487 original size:29 final size:28
Alignment explanation
Indices: 12042464--12042519 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
12042454 ACCTTTTTAC
12042464 TTTT-CCCCAAAACTTTTACTCCTTCCA
1 TTTTCCCCCAAAACTTTTACTCCTTCCA
12042491 TTTTCCCCCCAAAACTTTTACTCCCTTCC
1 TTTT-CCCCCAAAACTTTTACT-CCTTCC
12042520 CCTCCCCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 4 0.15
29 16 0.62
30 6 0.23
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (28 bp):
TTTTCCCCCAAAACTTTTACTCCTTCCA
Found at i:12042674 original size:30 final size:31
Alignment explanation
Indices: 12042640--12042699 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
12042630 AAAACTTTTA
*
12042640 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
12042670 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
12042700 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:12048580 original size:17 final size:17
Alignment explanation
Indices: 12048558--12048590 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12048548 AGGTAAACTC
12048558 CATTTCATTTATCTAAA
1 CATTTCATTTATCTAAA
12048575 CATTTCATTTATCTAA
1 CATTTCATTTATCTAA
12048591 CTCAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (17 bp):
CATTTCATTTATCTAAA
Found at i:12049485 original size:77 final size:77
Alignment explanation
Indices: 12049404--12049593 Score: 199
Period size: 77 Copynumber: 2.5 Consensus size: 77
12049394 ATAGAATTAT
* * *
12049404 ATTGGACGCCATCTAGATGGTTTATTCTACCATCCAGATAG-TATTACAAGATAA-ATTTATTTA
1 ATTGGACGTCATCTAGATGGTTGATTCTACCATCCAGA-AGACATTACAAGA-AACATTTATTTA
* *
12049467 CCT-AACCAAAATAA
64 -ATAAACCAAAACAA
* * * * *
12049481 ATTGGAAC-TCATCTAGGTGGCTGATTCTGCCATCTAGACGACATTACAAGAAACATTTATTTAA
1 ATTGG-ACGTCATCTAGATGGTTGATTCTACCATCCAGAAGACATTACAAGAAACATTTATTTAA
*
12049545 TAAACCAAAACAT
65 TAAACCAAAACAA
* *
12049558 ATTGGAAGTCATCTAGATGGTTGATTCTTCCATCCA
1 ATTGGACGTCATCTAGATGGTTGATTCTACCATCCA
12049594 AATGGCATAA
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
76 5 0.05
77 85 0.92
78 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (77 bp):
ATTGGACGTCATCTAGATGGTTGATTCTACCATCCAGAAGACATTACAAGAAACATTTATTTAAT
AAACCAAAACAA
Found at i:12055027 original size:74 final size:75
Alignment explanation
Indices: 12054870--12055030 Score: 188
Period size: 74 Copynumber: 2.2 Consensus size: 75
12054860 GTCATGAGAT
* **
12054870 TATATGAATATGGAATGAGCCATGCTTTATGATATTAAGTAAAAAATAGTATGATATAATTGCTA
1 TATATGAATATGGAATGAGACATGCTTTATGATATTAAGTAAAAAATAGTATGATATAATTGAAA
* *
12054935 CATGATATGA
66 AAAGATATGA
* *
12054945 TATATGAATATGGAATGA-ACATGCTTTATGATATT-AG-ACATATATGAGTGATGATA-AATTG
1 TATATGAATATGGAATGAGACATGCTTTATGATATTAAGTA-AAAAAT-AGT-ATGATATAATTG
12055006 AAAAAAGATTATGA
63 AAAAAAGA-TATGA
12055020 TAT-TGAATATG
1 TATATGAATATG
12055031 AATTGATATG
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
72 1 0.01
73 6 0.08
74 36 0.48
75 32 0.43
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (75 bp):
TATATGAATATGGAATGAGACATGCTTTATGATATTAAGTAAAAAATAGTATGATATAATTGAAA
AAAGATATGA
Found at i:12059433 original size:16 final size:17
Alignment explanation
Indices: 12059408--12059440 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12059398 GGAAGGCAAG
*
12059408 AGATTGAAATT-ATTGA
1 AGATTAAAATTGATTGA
12059424 AGATTAAAATTGATTGA
1 AGATTAAAATTGATTGA
12059441 TTTCAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36
Consensus pattern (17 bp):
AGATTAAAATTGATTGA
Found at i:12070772 original size:27 final size:28
Alignment explanation
Indices: 12070749--12070814 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
12070739 GGCGCCTGTC
*
12070749 TAGT-AGGCGCCAATGGAGGAGCC-TCA
1 TAGTGAGGCGCCAATGAAGGAGCCTTCA
*
12070775 TGGTGAGGCGCCAATGAAGGAGCC-TCA
1 TAGTGAGGCGCCAATGAAGGAGCCTTCA
* *
12070802 TGGAGAGGCGCCA
1 TAGTGAGGCGCCA
12070815 GTGGTGCCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.26, C:0.23, G:0.38, T:0.14
Consensus pattern (28 bp):
TAGTGAGGCGCCAATGAAGGAGCCTTCA
Found at i:12071184 original size:21 final size:21
Alignment explanation
Indices: 12071141--12071478 Score: 133
Period size: 27 Copynumber: 15.0 Consensus size: 21
12071131 TAGATTAGAA
*
12071141 TTTTGTA-GAATATTTTAACTT
1 TTTTGTATGAATATTATAA-TT
12071162 TTTTGTATGAATATTAT-ATT
1 TTTTGTATGAATATTATAATT
*
12071182 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTATAATT
* *
12071200 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTATAATT
*
12071221 ATTT-TAT--A-ATTA-AATT
1 TTTTGTATGAATATTATAATT
**
12071237 TGTATT-TATAGTTTTGGATTAGTAATT
1 T-T-TTGTAT-G-AAT--ATTA-TAATT
*
12071264 TTTTGTATGAATATTGTAATATTGT
1 TTTTGTATGAATA-T-T-ATAAT-T
12071289 AATTTTGTATGAATATTATAATTT
1 --TTTTGTATGAATATTATAA-TT
*
12071313 TTTTGTATGAATATTGTAATATTATAG
1 TTTTGTATGAATA-T-T-ATA--AT-T
12071340 TTTTGTATGAATATTGCA-AATT
1 TTTTGTATGAATATT--ATAATT
*
12071362 TTTTGTATGAATATTGTAATTTTGT
1 TTTTGTATGAATATTATAA---T-T
*
12071387 AATTTTGTATGAATATTATATTT
1 --TTTTGTATGAATATTATAATT
*
12071410 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATA-T-T-ATA--AT-T
**
12071437 TTTTGTATGAATATTGCAATTT
1 TTTTGTATGAATATTATAA-TT
*
12071459 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
12071479 ATTGTAATTT
Statistics
Matches: 248, Mismatches: 24, Indels: 90
0.69 0.07 0.25
Matches are distributed among these distances:
16 4 0.02
17 4 0.02
18 9 0.04
19 25 0.10
20 10 0.04
21 26 0.10
22 57 0.23
23 7 0.03
24 16 0.06
25 18 0.07
26 10 0.04
27 62 0.25
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTATAATT
Found at i:12071215 original size:19 final size:19
Alignment explanation
Indices: 12071164--12071219 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
12071154 TTTAACTTTT
* * *
12071164 TTGTATGAATATTATATTT
1 TTGTATGAATATTGTAATG
*
12071183 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
12071202 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
12071220 TATTTTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:12071315 original size:49 final size:49
Alignment explanation
Indices: 12071258--12071558 Score: 416
Period size: 49 Copynumber: 6.2 Consensus size: 49
12071248 TTTTGGATTA
12071258 GTAA-TTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATT
1 GTAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATT
* * *
12071306 ATAATTTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATT
1 GTAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATT
* * *
12071355 GCAAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATT
1 GTAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATT
* *
12071404 AT-ATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATT
1 GTAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATT
*
12071452 GCAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATT
1 GTAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATT
* ** *
12071501 GTAA--TGTGGGGAT--ATATTGTAATATTGTAATTTTTTGTATGAATATT
1 GTAATTTTTTTGTATGAATATTGTAATATTGTAA--TTTTGTATGAATATT
*
12071548 GTAATTATTTT
1 GTAATTTTTTT
12071559 ATAATTAATT
Statistics
Matches: 221, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
45 17 0.08
47 24 0.11
48 46 0.21
49 134 0.61
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (49 bp):
GTAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATT
Found at i:12071441 original size:97 final size:98
Alignment explanation
Indices: 12071260--12071505 Score: 449
Period size: 97 Copynumber: 2.5 Consensus size: 98
12071250 TTGGATTAGT
12071260 AATTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
1 AATTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
*
12071325 ATTGTAATATTATAGTTTTGTATGAATATTGCA
66 ATTGTAATATTATAATTTTGTATGAATATTGCA
*
12071358 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAAT
1 AATTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
12071422 ATTGTAATATTATAATTTTGTATGAATATTGCA
66 ATTGTAATATTATAATTTTGTATGAATATTGCA
* *
12071455 ATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAAT
1 AATTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTATAAT
12071506 GTGGGGATAT
Statistics
Matches: 142, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
97 93 0.65
98 49 0.35
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (98 bp):
AATTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
ATTGTAATATTATAATTTTGTATGAATATTGCA
Found at i:12071451 original size:19 final size:19
Alignment explanation
Indices: 12071427--12071484 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
12071417 TGAATATTGT
12071427 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
12071446 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
* *
12071468 AATATTGTAATATTGTA
1 AATATTATAATTTTGTA
12071485 ATTTTGTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.43
22 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:12071625 original size:60 final size:60
Alignment explanation
Indices: 12071546--12071667 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
12071536 TGTATGAATA
* * * * * *
12071546 TTGTAATTATTTTATAATTAATTTGTTAGTAATTT-GAGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTAAAAATTAATTTATTAGTAATTTAG-GATTAAGCTATAAATTGTTGTGT
*
12071606 TTGTAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
12071666 TT
1 TT
12071668 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 53 0.98
61 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:12071746 original size:38 final size:38
Alignment explanation
Indices: 12071701--12071782 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
12071691 CATATAAAGT
12071701 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
12071739 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
12071777 TTATAA
1 TTATAA
12071783 CTGACTTTTT
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:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:12071860 original size:15 final size:15
Alignment explanation
Indices: 12071819--12071860 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
12071809 GTTAACTCAT
*
12071819 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
12071834 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
12071850 TTAAATTTTAT
1 TTAAATTTTAT
12071861 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:12075186 original size:27 final size:27
Alignment explanation
Indices: 12075101--12075182 Score: 137
Period size: 27 Copynumber: 3.0 Consensus size: 27
12075091 TTCAGTATGA
12075101 CACCACCATTGGCGCCTCCCAGATAGG
1 CACCACCATTGGCGCCTCCCAGATAGG
*
12075128 CACCACCATTGGCGCCTCCCAAATAGG
1 CACCACCATTGGCGCCTCCCAGATAGG
* *
12075155 CGCCACCATTGGCGCCTTCCAGATAGG
1 CACCACCATTGGCGCCTCCCAGATAGG
12075182 C
1 C
12075183 GCCAATACTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.22, C:0.40, G:0.22, T:0.16
Consensus pattern (27 bp):
CACCACCATTGGCGCCTCCCAGATAGG
Found at i:12078471 original size:60 final size:62
Alignment explanation
Indices: 12078405--12078520 Score: 182
Period size: 60 Copynumber: 1.9 Consensus size: 62
12078395 ATCACCTTAA
* * * *
12078405 TATTAAATTAATATAATATTTATATCT-TGATAAATATTATATTAA-TTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTATATATAAGATAAATATTAAATTAATTTTAATATTAAATCT
12078465 TATTAAATTAATAGAATATTTATATATAAGATAAATATTAAATTAATTTTAATATT
1 TATTAAATTAATAGAATATTTATATATAAGATAAATATTAAATTAATTTTAATATT
12078521 TAGATAGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 25 0.50
61 16 0.32
62 9 0.18
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (62 bp):
TATTAAATTAATAGAATATTTATATATAAGATAAATATTAAATTAATTTTAATATTAAATCT
Found at i:12079016 original size:19 final size:19
Alignment explanation
Indices: 12078992--12079034 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12078982 AAAACATCAT
12078992 ATTAATTTTAA-TTAATTTG
1 ATTAA-TTTAATTTAATTTG
*
12079011 ATTAATTTAATTTTATTTG
1 ATTAATTTAATTTAATTTG
12079030 ATTAA
1 ATTAA
12079035 AATTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTAATTTAATTTAATTTG
Found at i:12081086 original size:25 final size:25
Alignment explanation
Indices: 12081050--12081138 Score: 160
Period size: 25 Copynumber: 3.6 Consensus size: 25
12081040 CAGACATACC
*
12081050 ACAGCTCATATGAGCTTCTCGATTT
1 ACAGCTCGTATGAGCTTCTCGATTT
*
12081075 ACAGCTCGTATGAGCTTCCCGATTT
1 ACAGCTCGTATGAGCTTCTCGATTT
12081100 ACAGCTCGTATGAGCTTCTCGATTT
1 ACAGCTCGTATGAGCTTCTCGATTT
12081125 ACAGCTCGTATGAG
1 ACAGCTCGTATGAG
12081139 TTTCCCAATT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (25 bp):
ACAGCTCGTATGAGCTTCTCGATTT
Found at i:12081158 original size:50 final size:50
Alignment explanation
Indices: 12081049--12081189 Score: 160
Period size: 50 Copynumber: 2.8 Consensus size: 50
12081039 GCAGACATAC
* * *
12081049 CACAGCTCATATGAGCTTCTCGATTTACAGCTCGTATGAGCTTCCCGATT
1 CACAACTCGTATGAGCTTCTCGATTTACAGCTCGTATGAGCTTCCCAATT
* * *
12081099 TACAGCTCGTATGAGCTTCTCGATTTACAGCTCGTATGAGTTTCCCAATT
1 CACAACTCGTATGAGCTTCTCGATTTACAGCTCGTATGAGCTTCCCAATT
* * * *
12081149 CGCAACTCGTGA-GAGCATACT-GATTCATAGCTCGTATGAGC
1 CACAACTCGT-ATGAGC-TTCTCGATTTACAGCTCGTATGAGC
12081190 ATACATGAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
50 74 0.95
51 4 0.05
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (50 bp):
CACAACTCGTATGAGCTTCTCGATTTACAGCTCGTATGAGCTTCCCAATT
Found at i:12091138 original size:24 final size:24
Alignment explanation
Indices: 12091099--12091151 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
12091089 AAGAAATTTG
*
12091099 AAAATAATAATAG-AAATGAGGAAA
1 AAAATAATAATAGAAAATG-GAAAA
* *
12091123 AAAATAATATTTGAAAATGGAAAA
1 AAAATAATAATAGAAAATGGAAAA
12091147 AAAAT
1 AAAAT
12091152 GAAAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (24 bp):
AAAATAATAATAGAAAATGGAAAA
Found at i:12093750 original size:25 final size:25
Alignment explanation
Indices: 12093714--12093775 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
12093704 TTTATTTTCT
*
12093714 TTTCATAGTTTTTAT-ATTTTATATACA
1 TTTCATA-TTTTTATAATATT-TATA-A
12093741 TTT-ATATTTTTATAATATTTATAA
1 TTTCATATTTTTATAATATTTATAA
12093765 TTTCATATTTT
1 TTTCATATTTT
12093776 ATAGTCTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.12
25 18 0.56
26 7 0.22
27 3 0.09
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTCATATTTTTATAATATTTATAA
Found at i:12093767 original size:18 final size:18
Alignment explanation
Indices: 12093724--12093763 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
12093714 TTTCATAGTT
12093724 TTTATA-TTTTATATACA
1 TTTATATTTTTATATACA
*
12093741 TTTATATTTTTATA-ATA
1 TTTATATTTTTATATACA
12093758 TTTATA
1 TTTATA
12093764 ATTTCATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATATTTTTATATACA
Found at i:12095248 original size:16 final size:16
Alignment explanation
Indices: 12095227--12095260 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12095217 TGTGTTTTAC
12095227 TTTGATTGCATGACAT
1 TTTGATTGCATGACAT
*
12095243 TTTGATTGCATGGCAT
1 TTTGATTGCATGACAT
12095259 TT
1 TT
12095261 CATTATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTGATTGCATGACAT
Found at i:12097679 original size:100 final size:99
Alignment explanation
Indices: 12097553--12097861 Score: 397
Period size: 100 Copynumber: 3.1 Consensus size: 99
12097543 ACAGTGGAAT
* ** **
12097553 AGATTGAAGCCGCAACGGTGAATCTTACTTCCTTGGCAGTGCAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCAAATCTTACTTCC-TGGTGGTGCAGTGGAACAGATTGAAGCTACGA
*
12097618 CGGCGGATCTGGTTTCCCCGACATTGCAATTAAAA
65 CGGCGGATCTGGTTTCCCTGACATTGCAATTAAAA
* *
12097653 AGATTGAAGCCATAACGGCAAATCTTACTTTCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCAAATCTTAC-TTCCTGGTGGTGCAGTGGAACAGATTGAAGCTACGA
* * *
12097718 TGGTGGATCTGGTTTCCCTAACATTGCAATTAAAA
65 CGGCGGATCTGGTTTCCCTGACATTGCAATTAAAA
* *
12097753 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGTGGTGCAGTGGAACAAATTGAAG-TCACG
1 AGATTGAAGCCACAACGGCAAATCTTACTT-CCTGGTGGTGCAGTGGAACAGATTGAAGCT-ACG
* * * * *
12097817 ACGACGAATCTTGTTTCCATGACATTGCAGTTAAACA
64 ACGGCGGATCTGGTTTCCCTGACATTGCAATTAAA-A
12097854 A-ATTGAAG
1 AGATTGAAG
12097862 AAAATAATCC
Statistics
Matches: 182, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
99 3 0.02
100 173 0.95
101 6 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (99 bp):
AGATTGAAGCCACAACGGCAAATCTTACTTCCTGGTGGTGCAGTGGAACAGATTGAAGCTACGAC
GGCGGATCTGGTTTCCCTGACATTGCAATTAAAA
Found at i:12097777 original size:50 final size:50
Alignment explanation
Indices: 12097603--12097777 Score: 127
Period size: 50 Copynumber: 3.5 Consensus size: 50
12097593 GCAGTGGAAC
* * * *
12097603 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCAGATCTGGTTTCCCTGACATTGCAATTAAAA
* * ** **** * * ** *
12097653 AGATTGAAGCCATAACGGCAAATCTTACTTT-CCTGGTGGTGTAGTGGAAC
1 AGATTGAAGCCACAACGGCAGATC-TGGTTTCCCTGACATTGCAATTAAAA
* * * ** *
12097703 AGATTGAAGCTACGATGGTGGATCTGGTTTCCCTAACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCAGATCTGGTTTCCCTGACATTGCAATTAAAA
12097753 AGATTGAAGCCACAACGGCAGATCT
1 AGATTGAAGCCACAACGGCAGATCT
12097778 TACTTCCCTG
Statistics
Matches: 82, Mismatches: 41, Indels: 4
0.65 0.32 0.03
Matches are distributed among these distances:
49 4 0.05
50 74 0.90
51 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCAGATCTGGTTTCCCTGACATTGCAATTAAAA
Found at i:12098139 original size:44 final size:44
Alignment explanation
Indices: 12097857--12098369 Score: 261
Period size: 44 Copynumber: 11.9 Consensus size: 44
12097847 TTAAACAAAT
** * * * *
12097857 TGAAGAAAATAATCCTATCTCCCTAAAGTTACAGTGGAGTAGA-
1 TGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * * *
12097900 T-TA-AAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCGGA-
1 TGAAGAAACCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * * * * *
12097942 T-CACATA-CAGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGAC
1 TGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * ** *
12097984 TGAAGAAACCAATCCTATTTCCCTGAAGTTGCAGTGGAGTGGAT
1 TGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * * *
12098028 TGAAGATACCAAGTCTTATCTCTCTGAGGTTGCAG-AGAGCATA-
1 TGAAGAAACCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
12098071 T--AGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 TGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
12098113 AGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-
1 TGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
** * * * *
12098156 TTTA-AACCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-
1 TGAAGAAAC-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * * * * *
12098199 T--CGCATCAAATCTTATCTCCCTGAAATTGCAGAGAAGCAGAC
1 TGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
12098241 TGAA-AAAGCAAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGAT
1 TGAAGAAA-CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
** ** *
12098285 TGAAGATGGCGTATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGA-AACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * * * *
12098330 TAAAGCCAA-TAATCCTATTTCCCTGAAGTTGCAGTAGAGC
1 TGAAG-AAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGC
12098370 GGATTAAAAT
Statistics
Matches: 351, Mismatches: 98, Indels: 41
0.72 0.20 0.08
Matches are distributed among these distances:
40 41 0.12
41 45 0.13
42 37 0.11
43 17 0.05
44 156 0.44
45 55 0.16
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
TGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
Found at i:12098229 original size:128 final size:128
Alignment explanation
Indices: 12097857--12098277 Score: 487
Period size: 128 Copynumber: 3.3 Consensus size: 128
12097847 TTAAACAAAT
** * *
12097857 TGAAGAAAATAATCCTATCTCCCTAAAGTTACAGTGGAGTAGA-TTAAA--ATCAGATCTTATCT
1 TGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTTAAACCA-CAGATCTTATCT
* * * * *
12097919 CTCTGAAGTTGCAGTAGAGCGGATCACAT-ACAGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGA
65 CTCTGAAGTTGCAG-AGAGCAGATCGCATCA-AGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGA
12097983 C
128 C
* * *
12097984 TGAAGAAACCAATCCTATTTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATACCA-AG-TCTTAT
1 TGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATT-TA-A-ACCACAGATCTTAT
* * * * *
12098047 CTCTCTGAGGTTGCAGAGAGCATATAGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
63 CTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGA
12098112 C
128 C
* *
12098113 AGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTTAAACCACAGATCTTATCTC
1 TGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTTAAACCACAGATCTTATCTC
* * * *
12098178 TCTGAAGTTGCAGAGAGTAGATCGCATCAAATCTTATCTCCCTGAAATTGCAGAGAAGCAGAC
66 TCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGAC
* * * *
12098241 TGAA-AAAGCAAATCTTATCCCCCTGAAGTTGCAGTGG
1 TGAAGAAA-CCAATCCTATCTCCCTGAAGTTACAGTGG
12098278 GGCAGATTGA
Statistics
Matches: 249, Mismatches: 35, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
126 4 0.02
127 43 0.17
128 93 0.37
129 83 0.33
130 22 0.09
131 3 0.01
133 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (128 bp):
TGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTTAAACCACAGATCTTATCTC
TCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGAC
Found at i:12098304 original size:257 final size:256
Alignment explanation
Indices: 12097858--12098319 Score: 601
Period size: 257 Copynumber: 1.8 Consensus size: 256
12097848 TAAACAAATT
* *
12097858 GAAGAAAATAATCCTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAATCAGATCTTATCTCTCT
1 GAAGAAAACAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAATCAGATCTTATCTCTCT
* * ** * * *
12097923 GAAGTTGCAGTAGAGCGGATCACATACAGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGACTGAA
66 GAAGTTGCAGTAGAGCAGATCACATACAATCTTATCTCCCTGAAATTGCAGAGAAGCAGACTGAA
* ** ** *
12097988 GAAACCAATCCTATTTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATACCAAGTCTTATCTCTCT
131 GAAACAAATCCTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAGTCTTATCTCCCT
*
12098053 GAGGTTGCAGAGAGCATATAGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
196 GAAGTTGCAGAGAGCATATAGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* * *
12098114 GAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTTAAACCA-CAGATCTTATCTC
1 GAAGAAAACAATCCTATCTCCCTAAAGTTACAGTGGAGCAGA-TTAAA--ATCAGATCTTATCTC
* *
12098178 TCTGAAGTTGCAG-AGAGTAGATCGCAT-CAAATCTTATCTCCCTGAAATTGCAGAGAAGCAGAC
63 TCTGAAGTTGCAGTAGAGCAGATCACATAC-AATCTTATCTCCCTGAAATTGCAGAGAAGCAGAC
* * * **
12098241 TGAA-AAAGCAAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGATGGCGTA-TCTTAT
127 TGAAGAAA-CAAATCCTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCAAGTCTTAT
12098304 CTCCCTGAAGTTGCAG
190 CTCCCTGAAGTTGCAG
12098320 TGGAGCAGAT
Statistics
Matches: 174, Mismatches: 26, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
256 41 0.24
257 104 0.60
258 28 0.16
259 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (256 bp):
GAAGAAAACAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAATCAGATCTTATCTCTCT
GAAGTTGCAGTAGAGCAGATCACATACAATCTTATCTCCCTGAAATTGCAGAGAAGCAGACTGAA
GAAACAAATCCTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAGTCTTATCTCCCT
GAAGTTGCAGAGAGCATATAGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
Found at i:12098316 original size:45 final size:44
Alignment explanation
Indices: 12098081--12098414 Score: 224
Period size: 44 Copynumber: 7.7 Consensus size: 44
12098071 TAGCATCTAG
** *
12098081 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAA-CCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAAGCAAA
* * * * * *
12098125 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTTAAACCA-CAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-AAGCAAA
* * * * * *
12098169 TCTTATCTCTCTGAAGTTGCAG-AGAGTAGATCG---CATCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAGCAAA
* * * *
12098209 TCTTATCTCCCTGAAATTGCAGAGAAGCAGACTGAAAAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAGCAAA
* * ** **
12098253 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGATGGCGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AAAGCAAA
12098298 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---AAAGCCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAG-C-A-AA
* * * * * *
12098342 TCCTATTTCCCTGAAGTTGCAGTAGAGCGGATT--AAAATCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAGCAAA
* * *
12098384 TCTTATCTCTCTGAGGTTGCAG-AGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
12098415 CGCATCATAC
Statistics
Matches: 225, Mismatches: 54, Indels: 25
0.74 0.18 0.08
Matches are distributed among these distances:
39 2 0.01
40 23 0.10
41 16 0.07
42 20 0.09
43 8 0.04
44 118 0.52
45 38 0.17
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAGCAAA
Found at i:12099713 original size:3 final size:3
Alignment explanation
Indices: 12099707--12099803 Score: 85
Period size: 3 Copynumber: 32.7 Consensus size: 3
12099697 TTAGGTTTTT
* * * *
12099707 TTA TTA -TA TTA TTA ATA CTGT- TTA TTA GTA TAA TTA TTA CTA -TA
1 TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* *
12099751 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTGT TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
12099796 TTA TTA TT
1 TTA TTA TT
12099804 GTATTTATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
2 7 0.09
3 67 0.86
4 3 0.04
5 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:12099938 original size:17 final size:18
Alignment explanation
Indices: 12099918--12099966 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
12099908 TTTCATAGTT
12099918 TTTATATTTTATAT-ACA
1 TTTATATTTTATATAACA
*
12099935 TTTATATTTT-TATAATA
1 TTTATATTTTATATAACA
12099952 TTTATATTTTCATAT
1 TTTATATTTT-ATAT
12099967 TTTATAGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 3 0.11
17 22 0.79
19 3 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTTTATATAACA
Found at i:12099966 original size:25 final size:24
Alignment explanation
Indices: 12099889--12099969 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 24
12099879 GTATATATTT
* *
12099889 TATTTTTATTTTATTT-TCTTTTCA
1 TATTTTTA-TATATTTATATTTTCA
12099913 TAGTTTTTATAT-TTTATATACATTT-A
1 TA-TTTTTATATATTTATAT---TTTCA
12099939 TATTTTTATAATATTTATATTTTCA
1 TATTTTTAT-ATATTTATATTTTCA
12099964 TATTTT
1 TATTTT
12099970 ATAGTCTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
23 3 0.06
24 9 0.19
25 20 0.43
26 5 0.11
27 10 0.21
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (24 bp):
TATTTTTATATATTTATATTTTCA
Found at i:12100005 original size:26 final size:24
Alignment explanation
Indices: 12099907--12100008 Score: 64
Period size: 25 Copynumber: 4.0 Consensus size: 24
12099897 TTTTATTTTC
* *
12099907 TTTTCATAGTTTTTATATTTTATATA
1 TTTTCATA--TTTTATAATATATATA
* *
12099933 CATTT-ATATTTTTATAATATTTATA
1 -TTTTCATA-TTTTATAATATATATA
* * *
12099958 TTTTCATATTTTATAGTCTATATG
1 TTTTCATATTTTATAATATATATA
12099982 TTTATGCAT-TCTTTATAATATATATA
1 TTT-T-CATAT-TTTATAATATATATA
12100008 T
1 T
12100009 GTATTTTAGA
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
24 18 0.31
25 19 0.32
26 19 0.32
27 3 0.05
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTCATATTTTATAATATATATA
Found at i:12101313 original size:98 final size:98
Alignment explanation
Indices: 12101193--12101384 Score: 210
Period size: 98 Copynumber: 1.9 Consensus size: 98
12101183 CCAGGAAAAT
*** * *
12101193 AATTTTTTTACTCGTTGAGGTGACTTTATATAAAGTGGTGGGA-AAAGAATTCAAAAAA-AATAT
1 AATTTTTTTACTCGTTGAGGTGACACAACATAAAGTGGTGGGACAAAAAATT-AAAAAACAA-AT
12101256 ACTGGTGCCACCACATCTATAGAAGGGACTGAAGG
64 ACTGGTGCCACCACATCTATAGAAGGGACTGAAGG
** *
12101291 AATTTTTTTAC-CGTTTTTGGTGACACAACATGAAGTGGTGGGACCAAAAAATTAAAAAACAAAT
1 AATTTTTTTACTCG-TTGAGGTGACACAACATAAAGTGGTGGGA-CAAAAAATTAAAAAACAAAT
* * * * *
12101355 ATTGGTGTCGCCACATGTATAGTAGGGACT
64 ACTGGTGCCACCACATCTATAGAAGGGACT
12101385 ACGAAAATTT
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
97 2 0.03
98 33 0.43
99 33 0.43
100 9 0.12
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (98 bp):
AATTTTTTTACTCGTTGAGGTGACACAACATAAAGTGGTGGGACAAAAAATTAAAAAACAAATAC
TGGTGCCACCACATCTATAGAAGGGACTGAAGG
Found at i:12114927 original size:19 final size:20
Alignment explanation
Indices: 12114892--12114934 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
12114882 AAAAAAGTCA
* *
12114892 AAAAAATATTAATAATTTAT
1 AAAAAATATTAAAAATTAAT
12114912 AAAAAATA-TAAAAATTAAT
1 AAAAAATATTAAAAATTAAT
12114931 AAAA
1 AAAA
12114935 TGCACATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATATTAAAAATTAAT
Found at i:12115272 original size:17 final size:18
Alignment explanation
Indices: 12115247--12115288 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12115237 GGGATTTTAA
*
12115247 TTTTT-TAA-TAATTATT
1 TTTTTATAATTAATAATT
*
12115263 TTTTTATAATTTATAATT
1 TTTTTATAATTAATAATT
12115281 TTTTTATA
1 TTTTTATA
12115289 GTTTTGCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 5 0.23
17 3 0.14
18 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTATAATTAATAATT
Found at i:12122145 original size:18 final size:19
Alignment explanation
Indices: 12122111--12122162 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
12122101 TTTTTAATTA
12122111 TAAAAAATT-TAAAATTTC
1 TAAAAAATTATAAAATTTC
* *
12122129 TAAAAAATTAT-AGATTTG
1 TAAAAAATTATAAAATTTC
*
12122147 TAAAATATTATTAAAA
1 TAAAAAATTA-TAAAA
12122163 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 23 0.85
19 2 0.07
20 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TAAAAAATTATAAAATTTC
Found at i:12122716 original size:82 final size:82
Alignment explanation
Indices: 12122540--12122721 Score: 194
Period size: 82 Copynumber: 2.2 Consensus size: 82
12122530 GACCTTCAGG
* ** * *
12122540 GGGC-TTTAGTGGCGTTTTTGAACAAACGCCGCTAATGTTATGGTTTTTAGTGGCGTTTTTTCCT
1 GGGCTTTTAGCGGCGTTTTTGAACAAACGCCGCTAAAATTAAGATTTTTAGTGGCGTTTTTTCCT
*
12122604 GAACGCCACTAATTTTA
66 AAACGCCACTAATTTTA
* *
12122621 GGGCTTTTCGCGGCGTTTTTG-ACAATGCGCCGCTAAAATTAAGATTTTTAGTGGCGTTTGTTT-
1 GGGCTTTTAGCGGCGTTTTTGAACAA-ACGCCGCTAAAATTAAGATTTTTAGTGGCGTTT-TTTC
* **
12122684 GTAAAGCGCTGCTAATTTT-
64 CTAAA-CGCCACTAATTTTA
12122703 GGAG-TTTTAGCGGCGTTTT
1 GG-GCTTTTAGCGGCGTTTT
12122722 GATGGAAACG
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
81 8 0.10
82 61 0.73
83 15 0.18
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.40
Consensus pattern (82 bp):
GGGCTTTTAGCGGCGTTTTTGAACAAACGCCGCTAAAATTAAGATTTTTAGTGGCGTTTTTTCCT
AAACGCCACTAATTTTA
Found at i:12123354 original size:7 final size:7
Alignment explanation
Indices: 12123342--12123423 Score: 65
Period size: 7 Copynumber: 10.9 Consensus size: 7
12123332 GGTATGGAAT
12123342 TTAGGGG
1 TTAGGGG
12123349 TTAGGGG
1 TTAGGGG
**
12123356 TTAGTGAT
1 TTAG-GGG
*
12123364 TTGGGGGG
1 TT-AGGGG
12123372 TTAGGGG
1 TTAGGGG
12123379 TTAGGGAG
1 TTAGGG-G
12123387 ATTTAGGGG
1 --TTAGGGG
12123396 TTAGGGG
1 TTAGGGG
**
12123403 TTAAGGAT
1 TT-AGGGG
12123411 TTAGGGG
1 TTAGGGG
12123418 TTAGGG
1 TTAGGG
12123424 TGTCAAGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
7 39 0.66
8 12 0.20
9 2 0.03
10 6 0.10
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:12123375 original size:23 final size:21
Alignment explanation
Indices: 12123340--12123423 Score: 105
Period size: 22 Copynumber: 3.7 Consensus size: 21
12123330 TTGGTATGGA
12123340 ATTTAGGGGTTAGGGGTTAGTG
1 ATTTAGGGGTTAGGGGTTAG-G
*
12123362 ATTTGGGGGGTTAGGGGTTAGGGAG
1 ATTT-AGGGGTTAGGGGTTA--G-G
12123387 ATTTAGGGGTTAGGGGTTAAGG
1 ATTTAGGGGTTAGGGGTT-AGG
12123409 ATTTAGGGGTTAGGG
1 ATTTAGGGGTTAGGG
12123424 TGTCAAGGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
22 20 0.36
23 15 0.27
24 13 0.24
25 7 0.13
ACGTcount: A:0.19, C:0.00, G:0.49, T:0.32
Consensus pattern (21 bp):
ATTTAGGGGTTAGGGGTTAGG
Found at i:12124202 original size:4 final size:4
Alignment explanation
Indices: 12124193--12124223 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
12124183 AACATAGAAG
12124193 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
12124224 ATATGTGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:12124924 original size:24 final size:22
Alignment explanation
Indices: 12124895--12124938 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
12124885 ATCACTTTTC
12124895 TCCCCAAAAATTCCCCCCAAATTT
1 TCCCCAAAAA-T-CCCCCAAATTT
12124919 TCCCCAAAAATCCCCCAAAT
1 TCCCCAAAAATCCCCCAAAT
12124939 CTAGTACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.20
Consensus pattern (22 bp):
TCCCCAAAAATCCCCCAAATTT
Found at i:12126049 original size:26 final size:26
Alignment explanation
Indices: 12126020--12126077 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
12126010 CCCGTTGCAT
* *
12126020 AATAATTCTCACTCTATAGCTTATCA
1 AATAATTATCACTCTATAGCTTATAA
*
12126046 AATAATTATTACTCTATAGCTTATAA
1 AATAATTATCACTCTATAGCTTATAA
12126072 AATAAT
1 AATAAT
12126078 ATAAATCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (26 bp):
AATAATTATCACTCTATAGCTTATAA
Found at i:12128014 original size:9 final size:9
Alignment explanation
Indices: 12127996--12128200 Score: 106
Period size: 9 Copynumber: 23.2 Consensus size: 9
12127986 CTTATATTTA
*
12127996 AACTTTCAT
1 AACTTACAT
12128005 AACTTACAT
1 AACTTACAT
*
12128014 AA-TAACAT
1 AACTTACAT
12128022 ATGGACTTACAT
1 A---ACTTACAT
*
12128034 TA--TACAT
1 AACTTACAT
* *
12128041 AGCTTAAAT
1 AACTTACAT
12128050 AACTTACAT
1 AACTTACAT
*
12128059 AA--TACAA
1 AACTTACAT
12128066 AACTTACAT
1 AACTTACAT
*
12128075 AACTTAAAT
1 AACTTACAT
* *
12128084 ATCTTACAC
1 AACTTACAT
*
12128093 AACTTACAC
1 AACTTACAT
*
12128102 AACTTAAAT
1 AACTTACAT
* *
12128111 AATTTAAAT
1 AACTTACAT
12128120 AACTTACAT
1 AACTTACAT
*
12128129 AATACATA-AT
1 -A-ACTTACAT
12128139 AACTTAC--
1 AACTTACAT
* *
12128146 AAC-AACTT
1 AACTTACAT
*
12128154 AACATACATT
1 AACTTACA-T
**
12128164 AA-TTTGAT
1 AACTTACAT
12128172 AACTTACAT
1 AACTTACAT
*
12128181 AAGTTACAT
1 AACTTACAT
12128190 AACTTACAT
1 AACTTACAT
12128199 AA
1 AA
12128201 TACATAAAAA
Statistics
Matches: 147, Mismatches: 33, Indels: 32
0.69 0.16 0.15
Matches are distributed among these distances:
6 2 0.01
7 14 0.10
8 16 0.11
9 99 0.67
10 6 0.04
11 5 0.03
12 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:12128056 original size:25 final size:25
Alignment explanation
Indices: 12128026--12128080 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
12128016 TAACATATGG
* * *
12128026 ACTTACATTATACATAGCTTAAATA
1 ACTTACATAATACAAAACTTAAATA
*
12128051 ACTTACATAATACAAAACTTACATA
1 ACTTACATAATACAAAACTTAAATA
12128076 ACTTA
1 ACTTA
12128081 AATATCTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (25 bp):
ACTTACATAATACAAAACTTAAATA
Found at i:12133741 original size:21 final size:21
Alignment explanation
Indices: 12133715--12133762 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
12133705 CAACTTAAAA
*
12133715 CAGAGGCGGCAGCGAGGGAAG
1 CAGAGGCGGCAGCGAGAGAAG
*
12133736 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCGGCAGCGAGAGAAG
12133757 CAGAGG
1 CAGAGG
12133763 TTCAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.48, T:0.02
Consensus pattern (21 bp):
CAGAGGCGGCAGCGAGAGAAG
Found at i:12134286 original size:43 final size:42
Alignment explanation
Indices: 12134239--12134489 Score: 301
Period size: 42 Copynumber: 6.0 Consensus size: 42
12134229 TTTATAGATA
* *
12134239 AAGCGCCGCTAAAGAACTTCA-CTTTTAGCGGCGTTTTATTCCC
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCC
* * **
12134282 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTCT-AT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
* *
12134323 AAGCGCCGCTAAAGATCATTG-TCTTTAGCGGCGTTTTTTGCAC
1 AAGCGCCGCTAAAGAACA-TGATCTTTAGCGGCGTTTTTT-CCC
* *
12134366 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
* * *
12134408 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
* * *
12134450 AAGCGCTGCTAAAGAACATGAACTTTAGCGGCATTTTTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
12134490 TGTAAGCGCC
Statistics
Matches: 183, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
41 33 0.18
42 82 0.45
43 67 0.37
44 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
Found at i:12134356 original size:84 final size:83
Alignment explanation
Indices: 12134196--12134501 Score: 323
Period size: 84 Copynumber: 3.6 Consensus size: 83
12134186 TTTCTGAAAT
* **
12134196 AAGCGCCGCTAAAGTACA--ATACTTTTAGCGGCGTTTATAGATAAAGCGCCGCTAAAGAAC-TT
1 AAGCGCCGCTAAAGAACATGAT-C-TTTAGCGGCGTTT-TCTAT-AAGCGCCGCTAAAGAACATT
**
12134258 CACTTTTAGCGGCGTTTTATTCCC
62 GTC-TTTAGCGGCGTTTT-TTCCC
* *
12134282 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTCTATAAGCGCCGCTAAAGATCATTGTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTATAAGCGCCGCTAAAGAACATTGTCT
*
12134347 TTAGCGGCGTTTTTTGCAC
66 TTAGCGGCGTTTTTT-CCC
* * *
12134366 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCCTAAGCGCCGCTAAAGAACA-TGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCT-ATAAGCGCCGCTAAAGAACATTG-T
* * *
12134430 CTTTAGTGGCGTTTTTTTCT
64 CTTTAGCGGCGTTTTTTCCC
* * * *
12134450 AAGCGCTGCTAAAGAACATGAACTTTAGCGGCATTTTTTCTGTAAGCGCCGC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGC--GTTTTCTATAAGCGCCGC
12134502 AAAAAGTTAG
Statistics
Matches: 191, Mismatches: 21, Indels: 17
0.83 0.09 0.07
Matches are distributed among these distances:
83 2 0.01
84 101 0.53
85 51 0.27
86 34 0.18
87 1 0.01
88 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (83 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTATAAGCGCCGCTAAAGAACATTGTCT
TTAGCGGCGTTTTTTCCC
Found at i:12134416 original size:42 final size:42
Alignment explanation
Indices: 12134195--12134501 Score: 320
Period size: 43 Copynumber: 7.2 Consensus size: 42
12134185 ATTTCTGAAA
* * ***
12134195 TAAGCGCCGCTAAAGTACA--ATACTTTTAGCGGCGTTTATAGA
1 TAAGCGCCGCTAAAGAACATGAT-C-TTTAGCGGCGTTTTTTCC
* *
12134237 TAAAGCGCCGCTAAAGAACTTCA-CTTTTAGCGGCGTTTTATTCC
1 T-AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
* * * *
12134281 CAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTCT-A
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
12134322 TAAGCGCCGCTAAAGATCATTG-TCTTTAGCGGCGTTTTTTGCAC
1 TAAGCGCCGCTAAAGAACA-TGATCTTTAGCGGCGTTTTTT-C-C
*
12134366 -AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
12134407 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* * * *
12134449 TAAGCGCTGCTAAAGAACATGAACTTTAGCGGCATTTTTTCTG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC-C
12134492 TAAGCGCCGC
1 TAAGCGCCGC
12134502 AAAAAGTTAG
Statistics
Matches: 226, Mismatches: 27, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
41 34 0.15
42 83 0.37
43 106 0.47
44 2 0.01
45 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:12135013 original size:17 final size:17
Alignment explanation
Indices: 12134961--12135013 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
12134951 TGGACTAAAG
* *
12134961 TTTTTAAATGATTATTAA
1 TTTTTTAAT-ATTATTTA
*
12134979 TATTTTTAATATTGTTTA
1 T-TTTTTAATATTATTTA
*
12134997 TTTTTTAATTTTATTTA
1 TTTTTTAATATTATTTA
12135014 ACATCTCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 14 0.48
18 8 0.28
19 7 0.24
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTTTAATATTATTTA
Found at i:12135741 original size:5 final size:5
Alignment explanation
Indices: 12135731--12135757 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
12135721 ACTCACACTC
12135731 ACAAT ACAAT ACAAT ACAAT ACAAT AC
1 ACAAT ACAAT ACAAT ACAAT ACAAT AC
12135758 TTGAAAGAAT
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:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (5 bp):
ACAAT
Found at i:12136066 original size:22 final size:22
Alignment explanation
Indices: 12136031--12136086 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
12136021 TGGAGCTGTG
* *
12136031 GACTCAAGAAAATTTGCAATAT
1 GACTCGAGACAATTTGCAATAT
12136053 GACTCGAGACAATTTGCAATAT
1 GACTCGAGACAATTTGCAATAT
**
12136075 GTTTCGAGACAA
1 GACTCGAGACAA
12136087 ATACTTGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (22 bp):
GACTCGAGACAATTTGCAATAT
Found at i:12138348 original size:50 final size:50
Alignment explanation
Indices: 12138236--12138482 Score: 214
Period size: 50 Copynumber: 4.8 Consensus size: 50
12138226 ATTTTGGTAA
* * *
12138236 AGAGATCCCATGTAAGACCATATCTGTGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
12138292 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTCGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
12138342 AGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGATCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
12138392 AGA-ACTCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAGG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * *
12138441 AAACATCCCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
12138483 TGTTTTTATC
Statistics
Matches: 161, Mismatches: 25, Indels: 17
0.79 0.12 0.08
Matches are distributed among these distances:
49 38 0.24
50 80 0.50
51 1 0.01
53 3 0.02
55 1 0.01
56 38 0.24
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:12140523 original size:11 final size:11
Alignment explanation
Indices: 12140509--12140542 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
12140499 AAAAATTAAG
12140509 AGAAAACCTAA
1 AGAAAACCTAA
12140520 AGAAAACCTAA
1 AGAAAACCTAA
12140531 AGATAAA-CTAA
1 AGA-AAACCTAA
12140542 A
1 A
12140543 CTAATGTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 19 0.86
12 3 0.14
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.12
Consensus pattern (11 bp):
AGAAAACCTAA
Found at i:12152815 original size:29 final size:28
Alignment explanation
Indices: 12152749--12152815 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
12152739 TCACTGTAAT
* * * *
12152749 GGATGCCTTTCTGGCTATCTCTGTACAA
1 GGATGCCTTTATGACTACCTCTGTAAAA
*
12152777 GGAAGCCTTTATGACTACCTCTGTTAAAA
1 GGATGCCTTTATGACTACCTCTG-TAAAA
*
12152806 TGATGCCTTT
1 GGATGCCTTT
12152816 GTATTGTAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 19 0.61
29 12 0.39
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (28 bp):
GGATGCCTTTATGACTACCTCTGTAAAA
Found at i:12162511 original size:16 final size:17
Alignment explanation
Indices: 12162479--12162511 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12162469 ATTGAACATG
12162479 ATTTTAGTAAGTTTGTA
1 ATTTTAGTAAGTTTGTA
*
12162496 ATTTTATTAA-TTTGTA
1 ATTTTAGTAAGTTTGTA
12162512 GAGTTAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (17 bp):
ATTTTAGTAAGTTTGTA
Found at i:12163066 original size:11 final size:11
Alignment explanation
Indices: 12163052--12163095 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
12163042 TCATTCCAAT
*
12163052 ATCATTCATCC
1 ATCATTCATTC
12163063 ATCATTCATTC
1 ATCATTCATTC
12163074 ATTCATT-ATTC
1 A-TCATTCATTC
*
12163085 ATTATTCATTC
1 ATCATTCATTC
12163096 TTCACTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 4 0.14
11 20 0.69
12 5 0.17
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (11 bp):
ATCATTCATTC
Found at i:12163071 original size:4 final size:4
Alignment explanation
Indices: 12163053--12163099 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
12163043 CATTCCAATA
*
12163053 TCAT TCAT CCA- TCAT TCAT TCAT TCAT T-AT TCAT T-AT TCAT TC-T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
12163097 TCA
1 TCA
12163100 CTAGTTCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 11 0.30
4 26 0.70
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (4 bp):
TCAT
Found at i:12163071 original size:15 final size:15
Alignment explanation
Indices: 12163053--12163087 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12163043 CATTCCAATA
12163053 TCATTCATCCATCAT
1 TCATTCATCCATCAT
* *
12163068 TCATTCATTCATTAT
1 TCATTCATCCATCAT
12163083 TCATT
1 TCATT
12163088 ATTCATTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (15 bp):
TCATTCATCCATCAT
Found at i:12163084 original size:7 final size:7
Alignment explanation
Indices: 12163066--12163109 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
12163056 TTCATCCATC
12163066 ATTCATT
1 ATTCATT
12163073 CATTCATT
1 -ATTCATT
12163081 ATTCATT
1 ATTCATT
12163088 ATTCATT
1 ATTCATT
* *
12163095 CTTCACT
1 ATTCATT
12163102 AGTTCATT
1 A-TTCATT
12163110 TTCTCTCCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 19 0.61
8 12 0.39
ACGTcount: A:0.25, C:0.20, G:0.02, T:0.52
Consensus pattern (7 bp):
ATTCATT
Found at i:12163094 original size:22 final size:22
Alignment explanation
Indices: 12163066--12163109 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12163056 TTCATCCATC
*
12163066 ATTCATTCATTCATTA-TTCATT
1 ATTCATTC-TTCACTAGTTCATT
12163088 ATTCATTCTTCACTAGTTCATT
1 ATTCATTCTTCACTAGTTCATT
12163110 TTCTCTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.25, C:0.20, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTCATTCTTCACTAGTTCATT
Found at i:12163443 original size:20 final size:20
Alignment explanation
Indices: 12163418--12163458 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
12163408 ACAAAGTTTA
*
12163418 TTTGATTCATGTTTATAATG
1 TTTGATCCATGTTTATAATG
12163438 TTTGATCCATGTTTATAATG
1 TTTGATCCATGTTTATAATG
12163458 T
1 T
12163459 CTGTGCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTGATCCATGTTTATAATG
Found at i:12163991 original size:19 final size:19
Alignment explanation
Indices: 12163967--12164006 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
12163957 ATCTCATCTC
12163967 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
12163986 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
12164005 AT
1 AT
12164007 ATTAATGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:12170766 original size:63 final size:63
Alignment explanation
Indices: 12170664--12170795 Score: 176
Period size: 63 Copynumber: 2.1 Consensus size: 63
12170654 ATGAGGCCCT
** *
12170664 CCACCATTCGGGCCAAGAGTTTGTGGCCGATACTCATGACTTTCAACATTTGGCCTGGGCCAA
1 CCACCATTCGGGCCAAGAGTTTGTGGCCGATACTCATGACAATCAACATTTAGCCTGGGCCAA
* * * * *
12170727 CCACCATTCGGGCCAATAGTTTGTGGTCTATA-TGTATGACAATCAACATTTAGCCTGGGCCCA
1 CCACCATTCGGGCCAAGAGTTTGTGGCCGATACT-CATGACAATCAACATTTAGCCTGGGCCAA
12170790 CCACCA
1 CCACCA
12170796 ATCTGTCCTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 1 0.02
63 59 0.98
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (63 bp):
CCACCATTCGGGCCAAGAGTTTGTGGCCGATACTCATGACAATCAACATTTAGCCTGGGCCAA
Found at i:12172307 original size:77 final size:78
Alignment explanation
Indices: 12172200--12172452 Score: 343
Period size: 77 Copynumber: 3.3 Consensus size: 78
12172190 AAAATATATA
*
12172200 AATTGAATTAAATGTATGAATTTTATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
12172265 GTATAAGTTATTG
66 GTATAAGTTATTG
* * *
12172278 AATTGAATTAAA-GTATGAAATATATATATGTATATGTGAGGTTCAAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
*
12172342 GTATAAGTTCTTG
66 GTATAAGTTATTG
* * * * *
12172355 AATTGAATTAAAGGTATGAATTTTACATATGTATGTGTGTGATTCG-A-ATAGATGTATATACAT
1 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
* *
12172418 ATACAAG-TACTTG
66 GTATAAGTTA-TTG
* *
12172431 AGTTGAATTAAAAGTATGAATT
1 AATTGAATTAAAGGTATGAATT
12172453 GTAAATACTT
Statistics
Matches: 156, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
75 1 0.01
76 43 0.28
77 74 0.47
78 38 0.24
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.40
Consensus pattern (78 bp):
AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
GTATAAGTTATTG
Found at i:12172691 original size:40 final size:40
Alignment explanation
Indices: 12172601--12172699 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
12172591 GGTTTTGTGC
*
12172601 CTAGCAGGCTTAATGCCAATGAAAATTTTCAAACTTAATGT
1 CTAGTAGGCTTAATGCCAATG-AAATTTTCAAACTTAATGT
** *
12172642 CTA-TCAGGCTTAATGCCGGTG-AATTATTCAGACTTAATGT
1 CTAGT-AGGCTTAATGCCAATGAAATT-TTCAAACTTAATGT
12172682 CTAGTAGGCTTAATGCCA
1 CTAGTAGGCTTAATGCCA
12172700 GTGTTCTGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 4 0.08
40 28 0.56
41 18 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (40 bp):
CTAGTAGGCTTAATGCCAATGAAATTTTCAAACTTAATGT
Found at i:12172887 original size:35 final size:35
Alignment explanation
Indices: 12172848--12173020 Score: 110
Period size: 35 Copynumber: 5.2 Consensus size: 35
12172838 TATTTGATAA
*
12172848 GTATATATATGCATTTAGTTATATACCTTTGAAGT
1 GTATATATATGCATTTCGTTATATACCTTTGAAGT
12172883 G----TATATGCA-TTCGATTATAAGTA--TTTGATAG-
1 GTATATATATGCATTTCG-TTAT-A-TACCTTTGA-AGT
12172914 GTATATATATGCA-TTCGGTTATATACCTTTGAAGT
1 GTATATATATGCATTTC-GTTATATACCTTTGAAGT
**
12172949 G----TATATGC-TTTCGATTATA-AGAATTTGATAG-
1 GTATATATATGCATTTCG-TTATATA-CCTTTGA-AGT
*
12172980 GTATATATATGCA-TTCGGTTATATACCTTTGATGT
1 GTATATATATGCATTTC-GTTATATACCTTTGAAGT
12173015 GTATAT
1 GTATAT
12173021 GCATTCGATT
Statistics
Matches: 108, Mismatches: 6, Indels: 48
0.67 0.04 0.30
Matches are distributed among these distances:
30 5 0.05
31 39 0.36
32 5 0.05
33 4 0.04
34 4 0.04
35 48 0.44
36 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (35 bp):
GTATATATATGCATTTCGTTATATACCTTTGAAGT
Found at i:12172918 original size:66 final size:66
Alignment explanation
Indices: 12172838--12173130 Score: 432
Period size: 66 Copynumber: 4.5 Consensus size: 66
12172828 ATTTATATCT
* **
12172838 TATTTGATAAGTATATATATGCATTTAGTTATATACCTTTGAAGTGTATATGCATTCGATTATAA
1 TATTTGATAGGTATATATATGCATTCGGTTATATACCTTTGAAGTGTATATGCATTCGATTATAA
12172903 G
66 G
*
12172904 TATTTGATAGGTATATATATGCATTCGGTTATATACCTTTGAAGTGTATATGCTTTCGATTATAA
1 TATTTGATAGGTATATATATGCATTCGGTTATATACCTTTGAAGTGTATATGCATTCGATTATAA
12172969 G
66 G
* *
12172970 AATTTGATAGGTATATATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTCGATTATAA
1 TATTTGATAGGTATATATATGCATTCGGTTATATACCTTTGAAGTGTATATGCATTCGATTATAA
12173035 G
66 G
* * * * *
12173036 TATTTGATAGG--TACATATGCATTCGGTTGTATACATTTGATGTGTATATGCATTCGGTTATAA
1 TATTTGATAGGTATATATATGCATTCGGTTATATACCTTTGAAGTGTATATGCATTCGATTATAA
12173099 G
66 G
* * *
12173100 TAGTTGATAAG--TATATATGCATTCGATTATA
1 TATTTGATAGGTATATATATGCATTCGGTTATA
12173131 ATTATTTGAT
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
64 75 0.36
66 135 0.64
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (66 bp):
TATTTGATAGGTATATATATGCATTCGGTTATATACCTTTGAAGTGTATATGCATTCGATTATAA
G
Found at i:12173107 original size:31 final size:32
Alignment explanation
Indices: 12172875--12173141 Score: 221
Period size: 31 Copynumber: 8.2 Consensus size: 32
12172865 GTTATATACC
12172875 TTTGA-AGTGTATATGCATTCGATTATAAGTA
1 TTTGATAGTGTATATGCATTCGATTATAAGTA
* *
12172906 TTTGATAGGTATATATATGCATTCGGTTAT-A-TA
1 TTTGATA-G--TGTATATGCATTCGATTATAAGTA
* *
12172939 CCTTTGA-AGTGTATATGCTTTCGATTATAAGAA
1 --TTTGATAGTGTATATGCATTCGATTATAAGTA
* *
12172972 TTTGATAGGTATATATATGCATTCGGTTAT-A-TA
1 TTTGATA-G--TGTATATGCATTCGATTATAAGTA
12173005 CCTTTGAT-GTGTATATGCATTCGATTATAAGTA
1 --TTTGATAGTGTATATGCATTCGATTATAAGTA
* * *
12173038 TTTGATAG-GTACATATGCATTCGGTTGTATA-CA
1 TTTGATAGTGT--ATATGCATTCGATTATA-AGTA
*
12173071 TTTGAT-GTGTATATGCATTCGGTTATAAGTA
1 TTTGATAGTGTATATGCATTCGATTATAAGTA
* * *
12173102 GTTGATAAGTATATATGCATTCGATTATAATTA
1 TTTGAT-AGTGTATATGCATTCGATTATAAGTA
12173135 TTTGATA
1 TTTGATA
12173142 AGTATATACA
Statistics
Matches: 190, Mismatches: 22, Indels: 47
0.73 0.08 0.18
Matches are distributed among these distances:
30 1 0.01
31 73 0.38
32 7 0.04
33 61 0.32
34 4 0.02
35 44 0.23
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (32 bp):
TTTGATAGTGTATATGCATTCGATTATAAGTA
Found at i:12176325 original size:16 final size:16
Alignment explanation
Indices: 12176304--12176371 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
12176294 TTTGGTTCGC
12176304 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
12176320 TGTATTAGATTAGAGA
1 TGTATTGGATTAGAGG
*
12176336 TGTATCGGATTAGAGG
1 TGTATTGGATTAGAGG
12176352 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12176368 TGTA
1 TGTA
12176372 ATAGCAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.28, C:0.01, G:0.34, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:12176628 original size:18 final size:17
Alignment explanation
Indices: 12176607--12176641 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12176597 TTATTATTAA
*
12176607 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12176625 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12176642 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12176748 original size:18 final size:17
Alignment explanation
Indices: 12176727--12176761 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12176717 TTATTATTAA
*
12176727 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12176745 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12176762 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12176848 original size:120 final size:120
Alignment explanation
Indices: 12176590--12176837 Score: 496
Period size: 120 Copynumber: 2.1 Consensus size: 120
12176580 ATCATATTTA
12176590 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
12176655 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
12176710 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
12176775 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
12176830 AACATAAT
1 AACATAAT
12176838 AATATATAAA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 128 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:12188043 original size:21 final size:21
Alignment explanation
Indices: 12187980--12188043 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
12187970 TTTTTTACGT
**
12187980 AATTAATATTTAGATATTTTA
1 AATTAATATTTAGATATACTA
* ** *
12188001 ATTATTAAAATTTATTTTTACTA
1 A--ATTAATATTTAGATATACTA
12188024 AATTAATATTTAGATATACT
1 AATTAATATTTAGATATACT
12188044 CTTATTAATT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
21 16 0.52
23 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (21 bp):
AATTAATATTTAGATATACTA
Found at i:12191972 original size:26 final size:27
Alignment explanation
Indices: 12191918--12191992 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 27
12191908 AAAATTATTT
*
12191918 AAAATATTATAAAA-TA-TATAAAAGTG
1 AAAAAATTA-AAAATTATTATAAAAGTG
*
12191944 AAAAAATTAAAAATTATTATAAATG-G
1 AAAAAATTAAAAATTATTATAAAAGTG
* *
12191970 AAAAAA-TATAAATTATTAAAAAA
1 AAAAAATTAAAAATTATTATAAAA
12191993 TTAAAATAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
25 18 0.43
26 17 0.40
27 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (27 bp):
AAAAAATTAAAAATTATTATAAAAGTG
Found at i:12191991 original size:18 final size:18
Alignment explanation
Indices: 12191970--12192037 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 18
12191960 TTATAAATGG
*
12191970 AAAAAATATAAATTAT-T
1 AAAAAATATAAATTATCA
* *
12191987 AAAAAAT-TAAAATAACA
1 AAAAAATATAAATTATCA
*
12192004 AAAAAGTATATAAATTATGA
1 AAAAA--ATATAAATTATCA
*
12192024 AAAAAATTTAAATT
1 AAAAAATATAAATT
12192038 TTTTTGTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
16 6 0.15
17 12 0.30
18 8 0.20
19 2 0.05
20 12 0.30
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAATATAAATTATCA
Found at i:12192074 original size:16 final size:17
Alignment explanation
Indices: 12192044--12192078 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
12192034 AATTTTTTTG
*
12192044 TAAAAATCATGGAAAAT
1 TAAAAATCATAGAAAAT
12192061 TAAAAAT-ATAGAAAAT
1 TAAAAATCATAGAAAAT
12192077 TA
1 TA
12192079 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.26
Consensus pattern (17 bp):
TAAAAATCATAGAAAAT
Found at i:12192495 original size:21 final size:22
Alignment explanation
Indices: 12192453--12192495 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12192443 TAGTATAATA
*
12192453 TTTTGTAATTTTTATAACTTTT
1 TTTTGTAATTTTAATAACTTTT
12192475 TTTTGT-ATTTGTAATAA-TTTT
1 TTTTGTAATTT-TAATAACTTTT
12192496 CTATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTGTAATTTTAATAACTTTT
Found at i:12192694 original size:20 final size:21
Alignment explanation
Indices: 12192671--12192720 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
12192661 ATTTTTTTTC
12192671 ATTTTTTAATAATTTAT-ATA
1 ATTTTTTAATAATTTATAATA
* *
12192691 ATTTTTT-GTCATTTATAATA
1 ATTTTTTAATAATTTATAATA
*
12192711 ATTTTATAAT
1 ATTTTTTAAT
12192721 GTTTGTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.29
20 16 0.67
21 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTTTAATAATTTATAATA
Found at i:12192695 original size:19 final size:20
Alignment explanation
Indices: 12192673--12192720 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
12192663 TTTTTTTCAT
12192673 TTTTTAATAATTTAT-ATAA
1 TTTTTAATAATTTATAATAA
** *
12192692 TTTTTTGTCATTTATAATAA
1 TTTTTAATAATTTATAATAA
12192712 TTTTATAAT
1 TTTT-TAAT
12192721 GTTTGTATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 12 0.55
20 8 0.36
21 2 0.09
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTTAATAATTTATAATAA
Found at i:12193244 original size:12 final size:12
Alignment explanation
Indices: 12193198--12193252 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
12193188 ATGGTATTTT
*
12193198 AATTTT-AATAA
1 AATTTTAAATTA
12193209 AATATTTAAATTA
1 AAT-TTTAAATTA
12193222 ACA--TT-AATTA
1 A-ATTTTAAATTA
12193232 AATTTTAAATTA
1 AATTTTAAATTA
12193244 AATTTTAAA
1 AATTTTAAA
12193253 AAATTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
9 1 0.03
10 6 0.16
11 7 0.19
12 17 0.46
13 5 0.14
14 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTTTAAATTA
Done.