Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 690 of 770
Found at i:217439297 original size:48 final size:48
Alignment explanation
Indices: 217439226--217439687 Score: 870
Period size: 48 Copynumber: 9.6 Consensus size: 48
217439216 TGTTACAACA
* *
217439226 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
217439274 TTCACATTAGCCATTCTGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
217439322 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
217439370 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
217439418 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
217439466 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
217439514 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
217439562 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
217439610 TTCATATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
217439658 TTCACATTAGCCATTCGGCTTTACCACATA
1 TTCACATTAGCCATTCGGCTTTACCACATA
217439688 ATTACACTTT
Statistics
Matches: 404, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 404 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:217441213 original size:13 final size:13
Alignment explanation
Indices: 217441195--217441219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
217441185 CACTAAATTT
217441195 TCATGGATTCAAA
1 TCATGGATTCAAA
217441208 TCATGGATTCAA
1 TCATGGATTCAA
217441220 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:217443602 original size:40 final size:40
Alignment explanation
Indices: 217443361--217443589 Score: 343
Period size: 40 Copynumber: 5.6 Consensus size: 40
217443351 CCAGCATGAT
* * * *
217443361 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
217443401 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
217443441 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
217443481 TGCTCCTCGGAACTTAGTCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
217443521 TGCTCTTCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TG-----CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
217443566 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
217443590 TAACCACAAG
Statistics
Matches: 174, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
39 7 0.04
40 129 0.74
45 38 0.22
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:217443632 original size:40 final size:40
Alignment explanation
Indices: 217443558--217443706 Score: 149
Period size: 40 Copynumber: 3.7 Consensus size: 40
217443548 ATACATCACT
* **
217443558 AGCACGAATGCTCTTCGGAACTTAG-CCGGATATAACCACA
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* * * * *
217443598 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCAC-A
** *
217443639 A-CACAAATGCCTTCGGGTCTTAGCCCGGATATATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
* *
217443678 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
217443707 GTATCATTCA
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
39 11 0.12
40 77 0.87
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
Found at i:217443679 original size:165 final size:165
Alignment explanation
Indices: 217443363--217443681 Score: 360
Period size: 165 Copynumber: 1.9 Consensus size: 165
217443353 AGCATGATTG
* * *
217443363 CTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 CTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAAA
* * ** * *
217443428 TCACTAGCACGAATGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAA
66 CCACAAGCACGAATGCTCTTCGAAACTTAACCCGGATACAACACTAGCACAAATGCTCCTCGGAA
*
217443493 CTTAGTCCGAATACATCACTAGCACGAATGCTCTT
131 CTTAGCCCGAATACATCACTAGCACGAATGCTCTT
* *
217443528 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATATA
1 CTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA-A
*** * * *
217443592 ACCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAATGC-CTTC
65 ACCACAAGCACGAA-TGCTCTTCGAAACTTAACCCGGATACAAC-ACT-AGCACAAATGCTCCTC
** * *
217443653 GGGTCTTAGCCCGGATATATTCACTAGCA
127 GGAACTTAGCCCGAATACA-TCACTAGCA
217443682 TAAATGCCTT
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
164 43 0.34
165 83 0.65
166 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (165 bp):
CTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAAA
CCACAAGCACGAATGCTCTTCGAAACTTAACCCGGATACAACACTAGCACAAATGCTCCTCGGAA
CTTAGCCCGAATACATCACTAGCACGAATGCTCTT
Found at i:217446316 original size:30 final size:30
Alignment explanation
Indices: 217446282--217446378 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
217446272 TAAACTAAAA
217446282 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
217446312 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
217446342 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
217446372 TGAGCTA
1 TGAGCTA
217446379 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:217448560 original size:30 final size:30
Alignment explanation
Indices: 217448489--217448571 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
217448479 CTTTTGTTTC
* *
217448489 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
217448520 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
217448549 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
217448572 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:217448571 original size:18 final size:18
Alignment explanation
Indices: 217448522--217448577 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
217448512 CACTCTCAAA
* *
217448522 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
217448539 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
217448557 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
217448576 TT
1 TT
217448578 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:217448578 original size:12 final size:12
Alignment explanation
Indices: 217448547--217448571 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
217448537 TTTTTCAATC
217448547 TCATTTTCTTTT
1 TCATTTTCTTTT
217448559 TCATTTTCTTTT
1 TCATTTTCTTTT
217448571 T
1 T
217448572 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:217448589 original size:12 final size:12
Alignment explanation
Indices: 217448574--217448604 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
217448564 TTCTTTTTGC
217448574 TTTTCAAAGGCT
1 TTTTCAAAGGCT
217448586 TTTTCAAAGGCT
1 TTTTCAAAGGCT
217448598 TTTTCAA
1 TTTTCAA
217448605 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:217448662 original size:5 final size:5
Alignment explanation
Indices: 217448652--217448718 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
217448642 CTCTTGCCTC
*
217448652 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
217448699 TCTTT TCTTT T-TTT CTCTTT
1 TCTTT TCTTT TCTTT -TCTTT
217448719 ACAAGAATGT
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
4 7 0.13
5 31 0.60
6 9 0.17
7 5 0.10
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:217448694 original size:31 final size:29
Alignment explanation
Indices: 217448652--217448714 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
217448642 CTCTTGCCTC
217448652 TCTTTTCTTTTT-ATTTCATTTTCTTTTTCT
1 TCTTTTCTTTTTCATTTC-TTTTCTTTTT-T
*
217448682 TCTTTTGCTTTTTCTTTTCTTTTCTTTTTT
1 TCTTTT-CTTTTTCATTTCTTTTCTTTTTT
217448712 TCT
1 TCT
217448715 CTTTACAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 10 0.33
31 16 0.53
32 4 0.13
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (29 bp):
TCTTTTCTTTTTCATTTCTTTTCTTTTTT
Found at i:217448717 original size:15 final size:16
Alignment explanation
Indices: 217448650--217448718 Score: 81
Period size: 15 Copynumber: 4.4 Consensus size: 16
217448640 GCCTCTTGCC
*
217448650 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
217448666 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
217448682 TCT-TTTGCTTTTTCT
1 TCTCTTTTCTTTTTCT
*
217448697 TTTCTTTTCTTTTT-T
1 TCTCTTTTCTTTTTCT
217448712 TCTCTTT
1 TCTCTTT
217448719 ACAAGAATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
15 22 0.49
16 22 0.49
17 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:217449646 original size:10 final size:10
Alignment explanation
Indices: 217449633--217449672 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
217449623 TTTTTCAGAT
217449633 TTTTTTTGAA
1 TTTTTTTGAA
217449643 TTTTTTTGAA
1 TTTTTTTGAA
217449653 TTTTTTTTGAA
1 -TTTTTTTGAA
217449664 TTTTTTTGA
1 TTTTTTTGA
217449673 CTTGTATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.72
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:217449670 original size:21 final size:22
Alignment explanation
Indices: 217449621--217449672 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
217449611 CATTAAACAC
*
217449621 TTTTTTTCAGATTTTTTTTGAA
1 TTTTTTTGAGATTTTTTTTGAA
217449643 TTTTTTTGA-ATTTTTTTTGAA
1 TTTTTTTGAGATTTTTTTTGAA
217449664 TTTTTTTGA
1 TTTTTTTGA
217449673 CTTGTATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (22 bp):
TTTTTTTGAGATTTTTTTTGAA
Found at i:217451403 original size:30 final size:30
Alignment explanation
Indices: 217451369--217451465 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
217451359 TAAACTAAAA
217451369 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
217451399 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
217451429 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
217451459 TGAGCTA
1 TGAGCTA
217451466 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:217451916 original size:30 final size:30
Alignment explanation
Indices: 217451882--217451978 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
217451872 TAAACTAAAA
*
217451882 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
217451912 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
217451942 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
217451972 TGAGCTA
1 TGAGCTA
217451979 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:217452124 original size:513 final size:515
Alignment explanation
Indices: 217451114--217452142 Score: 1960
Period size: 513 Copynumber: 2.0 Consensus size: 515
217451104 CTTCATCCAT
217451114 ACATTGTACCGTCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCATGGAC
1 ACATTGTACCGTCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCATGGAC
217451179 ACTCATAAATTCAGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAA
66 ACTCATAAATTCAGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAA
*
217451244 TCAATTTATGTAATGACTATGGCATATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTA
131 TCAATTTATGTAATGACTATGACATATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTA
217451309 AATAAATATGTGCAAATTTTTATTTAATGCATTAAAGACAAAACCGAGTTTAAACTAAAATGAGC
196 AATAAATATGTGCAAATTTTTATTTAATGCATTAAAGACAAAACCGAGTTTAAACTAAAATGAGC
217451374 TAAGCTTTAGCTCGTGAGCTAAAGTTGAGCTGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGG
261 TAAGCTTTAGCTCGTGAGCTAAAGTTGAGCTGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGG
217451439 TTTAGCTCGTGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCAGCAAGATGGATTGAGC
326 TTTAGCTCGTGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCAGCAAGATGGATTGAGC
217451504 TCGAATAAGCTGATTTGAGCTGGACGGAGCTCGTGGAGCTGGAAACGAGCTTGGATCAGCTTGCC
391 TCGAATAAGCTGATTTGAGCTGGACGGAGCTCGTGGAGCTGGAAACGAGCTTGGATCAGCTTGCC
217451569 AACATGTCATTGCTCGGCTTGACAGACTTGCTCGATAAGTTCGC-GGGCGTGCTCGTATCA
456 AACATGTCATTGCTCGGCTTGACAGACTTGCTC-ATAAGTTCGCGGGGCGTGCTCGTATCA
217451629 ACATTGTACCGTCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCAT-GA-
1 ACATTGTACCGTCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCATGGAC
*
217451692 ACTCATAAATTCGGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAA
66 ACTCATAAATTCAGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAA
217451757 TCAATTTATGTAATGACTATGACATATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTA
131 TCAATTTATGTAATGACTATGACATATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTA
217451822 AATAAATATGTGCAAATTTTTATTTAATGCATTAAAGACAAAACCGAGTTTAAACTAAAATGAGC
196 AATAAATATGTGCAAATTTTTATTTAATGCATTAAAGACAAAACCGAGTTTAAACTAAAATGAGC
*
217451887 TAAGCTTTAGCTTGTGAGCTAAAGTTGAGCTGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGG
261 TAAGCTTTAGCTCGTGAGCTAAAGTTGAGCTGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGG
217451952 TTTAGCTCGTGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCAGGCAAGATGGATTGAG
326 TTTAGCTCGTGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCA-GCAAGATGGATTGAG
217452017 CTCGAATAAGCTGGATTTGAGCTGGACGGAGCTCGTGGAGCTGGAAACGAGC-TGGATCAGCTTG
390 CTCGAATAAGCT-GATTTGAGCTGGACGGAGCTCGTGGAGCTGGAAACGAGCTTGGATCAGCTTG
217452081 CCAACATGTCATTGCTCGGCTTGACAGACTTGCT-ATAAAGTTCGCGGGGCGTGCTCGTATCA
454 CCAACATGTCATTGCTCGGCTTGACAGACTTGCTCAT-AAGTTCGCGGGGCGTGCTCGTATCA
217452143 TTCCCCCTCT
Statistics
Matches: 507, Mismatches: 3, Indels: 9
0.98 0.01 0.02
Matches are distributed among these distances:
512 2 0.00
513 314 0.62
514 91 0.18
515 100 0.20
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (515 bp):
ACATTGTACCGTCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCATGGAC
ACTCATAAATTCAGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAA
TCAATTTATGTAATGACTATGACATATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTA
AATAAATATGTGCAAATTTTTATTTAATGCATTAAAGACAAAACCGAGTTTAAACTAAAATGAGC
TAAGCTTTAGCTCGTGAGCTAAAGTTGAGCTGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGG
TTTAGCTCGTGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCAGCAAGATGGATTGAGC
TCGAATAAGCTGATTTGAGCTGGACGGAGCTCGTGGAGCTGGAAACGAGCTTGGATCAGCTTGCC
AACATGTCATTGCTCGGCTTGACAGACTTGCTCATAAGTTCGCGGGGCGTGCTCGTATCA
Found at i:217454154 original size:30 final size:31
Alignment explanation
Indices: 217454083--217454154 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
217454073 CTTTTGTTTC
*
217454083 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATCTTCTTTTTCAATCTCA
*
217454114 AATTTC-TTTTCGT-TCTCTTTTTCAATCTC-
1 AATTTCTTTTTCATCT-TCTTTTTCAATCTCA
*
217454143 ATTTTCTTTTTC
1 AATTTCTTTTTC
217454155 TTTTTGCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 6 0.17
30 24 0.67
31 6 0.17
ACGTcount: A:0.14, C:0.24, G:0.01, T:0.61
Consensus pattern (31 bp):
AATTTCTTTTTCATCTTCTTTTTCAATCTCA
Found at i:217454250 original size:6 final size:5
Alignment explanation
Indices: 217454228--217454288 Score: 63
Period size: 5 Copynumber: 12.0 Consensus size: 5
217454218 CTCTTGCCTC
* *
217454228 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT GCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT TC-TTT TCTTT
217454274 TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT
217454289 GTTTTCTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.09
5 34 0.72
6 8 0.17
7 1 0.02
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:217454268 original size:30 final size:30
Alignment explanation
Indices: 217454228--217454284 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
217454218 CTCTTGCCTC
*
217454228 TCTTTTCTTTTT-ATTTCATTTTCTTTTTCT
1 TCTTTGCTTTTTCATTTC-TTTTCTTTTTCT
*
217454258 TCTTTGCTTTTTCTTTTCTTTTCTTTT
1 TCTTTGCTTTTTCATTTCTTTTCTTTT
217454285 CTTTGTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (30 bp):
TCTTTGCTTTTTCATTTCTTTTCTTTTTCT
Found at i:217457716 original size:14 final size:14
Alignment explanation
Indices: 217457669--217457716 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
217457659 GTACGAATGG
*
217457669 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
217457683 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
217457697 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
217457711 ATTGGT
1 AATGGT
217457717 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:217464242 original size:12 final size:12
Alignment explanation
Indices: 217464212--217464241 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
217464202 TAAATCACTC
217464212 TTTTTTTCGATA
1 TTTTTTTCGATA
217464224 TTTTTTTCGA-A
1 TTTTTTTCGATA
217464235 TTTTTTT
1 TTTTTTT
217464242 TAAACTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTTTTCGATA
Found at i:217464653 original size:14 final size:14
Alignment explanation
Indices: 217464606--217464653 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
217464596 GTACGAATGG
*
217464606 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
217464620 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
217464634 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
217464648 ATTGGT
1 AATGGT
217464654 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:217465932 original size:19 final size:19
Alignment explanation
Indices: 217465895--217465937 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
217465885 CGTGAGCTGA
*
217465895 TAATGAGCTGGTCCCGAGC
1 TAATGAGCTGGTCACGAGC
* *
217465914 TAATGAGCTGGTGAGGAGC
1 TAATGAGCTGGTCACGAGC
217465933 TAATG
1 TAATG
217465938 GGAGCTAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.35, T:0.23
Consensus pattern (19 bp):
TAATGAGCTGGTCACGAGC
Found at i:217469413 original size:41 final size:41
Alignment explanation
Indices: 217469356--217469498 Score: 189
Period size: 41 Copynumber: 3.5 Consensus size: 41
217469346 AGCTTGGGTT
* **
217469356 CGAAGGGCTTTTGAGCCAGTGCTAATAATTGAACTTAAATA
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGTTA
* *
217469397 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGTTA
* * *
217469438 CGAAGGGCTTTTGAGCCAGTG-TCATAACTGGACTTAGTTC
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGTTA
* *
217469478 CGAAGGGCCTTCGAGCCAGTG
1 CGAAGGGCTTTTGAGCCAGTG
217469499 GCCTAATCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 34 0.37
41 57 0.63
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (41 bp):
CGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGTTA
Found at i:217469476 original size:40 final size:40
Alignment explanation
Indices: 217469354--217469539 Score: 185
Period size: 41 Copynumber: 4.6 Consensus size: 40
217469344 CGAGCTTGGG
* **
217469354 TTCGAAGGGCTTTTGAGCCAGTGCTAATAATTGAACTTAAA
1 TTCGAAGGGCTTTTGAGCCAGTG-TAATAACTGAACTTAGT
* *
217469395 TACGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
1 TTCGAAGGGCTTTTGAGCCAGTG-TAATAACTGAACTTAGT
* *
217469436 TTCGAAGGGCTTTTGAGCCAGTGTCATAACTGGACTTAGT
1 TTCGAAGGGCTTTTGAGCCAGTGTAATAACTGAACTTAGT
* * * *** * * *
217469476 TCCGAAGGGCCTTCGAGCCAGTGGCCTAATCCGAGCTTGGT
1 TTCGAAGGGCTTTTGAGCCAGTGTAATAA-CTGAACTTAGT
*
217469517 CTCGAAGGGC-TTTGAGCCAGTGT
1 TTCGAAGGGCTTTTGAGCCAGTGT
217469540 TAAGAATCGT
Statistics
Matches: 122, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 49 0.40
41 73 0.60
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TTCGAAGGGCTTTTGAGCCAGTGTAATAACTGAACTTAGT
Found at i:217469522 original size:81 final size:78
Alignment explanation
Indices: 217469340--217469539 Score: 231
Period size: 81 Copynumber: 2.5 Consensus size: 78
217469330 TCGGGGTGTA
*
217469340 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAATTGAACTTAAATACGAAGGGC
1 AATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAACTGAACTTAAATACGAAGGGC
* *
217469405 TTTTGAGCCAGTGCT
64 CTTCGAGCCAGTGCT
* * * * ** *
217469420 AATAACCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACTGGACTTAGTTCCGAAGGG
1 AAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAACTGAACTTAAATACGAAGGG
217469485 CCTTCGAGCCAGTGGCCT
63 CCTTCGAGCCAGT-G-CT
217469503 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGT
1 AATCCGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTGT
217469540 TAAGAATCGT
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
80 18 0.18
81 47 0.46
82 32 0.31
83 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (78 bp):
AATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACTGAACTTAAATACGAAGGGCCT
TCGAGCCAGTGCT
Found at i:217469560 original size:81 final size:77
Alignment explanation
Indices: 217469340--217469565 Score: 206
Period size: 81 Copynumber: 2.8 Consensus size: 77
217469330 TCGGGGTGTA
* ** * *
217469340 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAATTGAACTTAAATACGAAGGGC
1 AATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAATCGTGCTT-ATTCCGAAGGGC
* *
217469405 TTTTGAGCCAGTGCT
63 CTTCGAGCCAGTGCT
* * *
217469420 AATAACCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAA-C-TGGACTTAGTTCCGAAG
1 AAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAATCGT-G-CTTA-TTCCGAAG
217469483 GGCCTTCGAGCCAGTGGCCT
60 GGCCTTCGAGCCAGT-G-CT
*
217469503 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGTTAAGAATCGTGCTTGATTCCGAAGGG
1 AATCCGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTG-TAATAATCGTGCTT-ATTCCGAAGGG
217469566 TGGTTGTGCC
Statistics
Matches: 119, Mismatches: 15, Indels: 23
0.76 0.10 0.15
Matches are distributed among these distances:
80 18 0.15
81 60 0.50
82 35 0.29
83 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (77 bp):
AATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAATCGTGCTTATTCCGAAGGGCCTT
CGAGCCAGTGCT
Found at i:217473787 original size:39 final size:39
Alignment explanation
Indices: 217473733--217473895 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
217473723 TGTGAATGAA
217473733 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
217473772 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
217473811 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
217473850 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
217473890 TGTGCG
1 TGTGCG
217473896 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:217473911 original size:40 final size:39
Alignment explanation
Indices: 217473733--217473925 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
217473723 TGTGAATGAA
* *
217473733 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
217473772 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
217473811 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
217473850 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
217473890 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
217473926 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:217481749 original size:39 final size:39
Alignment explanation
Indices: 217481706--217481818 Score: 181
Period size: 39 Copynumber: 2.9 Consensus size: 39
217481696 TGTGCAATTG
217481706 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
217481745 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
217481784 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
217481819 GGTTACCATA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
39 52 0.75
40 17 0.25
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:217481834 original size:78 final size:79
Alignment explanation
Indices: 217481703--217481847 Score: 195
Period size: 79 Copynumber: 1.8 Consensus size: 79
217481693 GAATGTGCAA
** *
217481703 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAG-CCCGAA
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATATACGGGCTAAGTCCCGAA
217481767 GGCAATTGTGCGAG
66 GGCAATTGTGCGAG
* * * * *
217481781 TTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATA-ACGGGCTATGTCCCGA
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATATACGGGCTAAGTCCCGA
217481845 AGG
65 AGG
217481848 TGTTTTGAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
78 26 0.46
79 31 0.54
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATATACGGGCTAAGTCCCGAA
GGCAATTGTGCGAG
Found at i:217485947 original size:20 final size:20
Alignment explanation
Indices: 217485922--217485966 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
217485912 AAGGACTAAA
* *
217485922 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
217485942 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
217485962 ATGAA
1 ATGAA
217485967 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:217486616 original size:57 final size:57
Alignment explanation
Indices: 217486476--217486622 Score: 149
Period size: 57 Copynumber: 2.6 Consensus size: 57
217486466 ATTGATCTTG
* * *
217486476 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCTGATATAATACCTCTTGAGCATACA
1 TTATATAAAGGATTTAGCCTGGACTGGTAAT-CTGATATAATACCTCTTAAGCATACA
* * * * *
217486534 TTATGAT-TAGGGTTTAGCCTTGACTGGTAATCTTA-ATCAAGCT-CCTC-TAAGCTTACA
1 TTAT-ATAAAGGATTTAGCCTGGACTGGTAATCTGATAT-AA--TACCTCTTAAGCATACA
217486591 TTATATAAAGGATTTAGCCTGGACTGGTAATC
1 TTATATAAAGGATTTAGCCTGGACTGGTAATC
217486623 CTGTTATATG
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
56 4 0.05
57 39 0.53
58 28 0.38
59 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (57 bp):
TTATATAAAGGATTTAGCCTGGACTGGTAATCTGATATAATACCTCTTAAGCATACA
Found at i:217488970 original size:29 final size:29
Alignment explanation
Indices: 217488937--217489067 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
217488927 GTGACGAGAT
217488937 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
217488966 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
217488995 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
217489024 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
217489053 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
217489068 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:217497027 original size:29 final size:29
Alignment explanation
Indices: 217496994--217497124 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
217496984 GTGACGAGAT
217496994 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
217497023 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
217497052 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
217497081 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
217497110 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
217497125 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:217506924 original size:40 final size:40
Alignment explanation
Indices: 217506868--217507107 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
217506858 CGGAATTTAA
** *
217506868 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
217506908 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
217506948 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
217506987 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GG-CTTAG-
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
217507024 CCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
217507063 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
217507103 CCGGA
1 CCGGA
217507108 CATCATTCGA
Statistics
Matches: 179, Mismatches: 12, Indels: 18
0.86 0.06 0.09
Matches are distributed among these distances:
36 25 0.14
37 5 0.03
38 12 0.07
39 40 0.22
40 86 0.48
41 11 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:217507067 original size:115 final size:120
Alignment explanation
Indices: 217506887--217507107 Score: 312
Period size: 115 Copynumber: 1.9 Consensus size: 120
217506877 GCTACTCGTT
*
217506887 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
217506952 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* **
217507006 CAAATGCCTTC-GG-CTTAG-CCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
217507066 GATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
217507108 CATCATTCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
114 3 0.03
115 48 0.52
116 24 0.26
117 4 0.04
118 2 0.02
119 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:217514129 original size:122 final size:122
Alignment explanation
Indices: 217513909--217514129 Score: 318
Period size: 122 Copynumber: 1.8 Consensus size: 122
217513899 GAATTATGTG
* * * * * * *
217513909 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
217513974 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
*
217514031 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
217514096 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTAT
66 GCTAAGTCCCGAAGACGA-TTATGCTAGAAATTAT
217514130 ATCCGGGTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 1 0.01
122 85 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (122 bp):
AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
Found at i:217514253 original size:40 final size:40
Alignment explanation
Indices: 217514126--217514255 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
217514116 ATGCTGGAAA
* *
217514126 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
217514166 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
217514206 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
217514246 TTATATCCGG
1 TTATATCCGG
217514256 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:217522098 original size:122 final size:122
Alignment explanation
Indices: 217521878--217522098 Score: 318
Period size: 122 Copynumber: 1.8 Consensus size: 122
217521868 GAATTATGTG
* * * * * * *
217521878 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
217521943 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
*
217522000 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
217522065 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTAT
66 GCTAAGTCCCGAAGACGA-TTATGCTAGAAATTAT
217522099 ATCCGGGTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 1 0.01
122 85 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (122 bp):
AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
Found at i:217522222 original size:40 final size:40
Alignment explanation
Indices: 217522095--217522224 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
217522085 ATGCTGGAAA
* *
217522095 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
217522135 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
217522175 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
217522215 TTATATCCGG
1 TTATATCCGG
217522225 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:217527810 original size:213 final size:213
Alignment explanation
Indices: 217527451--217527994 Score: 860
Period size: 213 Copynumber: 2.6 Consensus size: 213
217527441 AAAGTACTCC
* *
217527451 CGATTTACAGAATTACCGTTTTACCCTC-AGTTATAGAA-TACTG-TTTACCCTCGA-TTGT-AA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAA
217527511 ATTACTGTTTTACCCTCGATTTACAGAATTA-CGTTTTA-CCTCAGTTTACAGAATTACTATTTA
66 ATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTA
*
217527574 CCCTCGATTTAAGAATTACCGTTTTACCCCTAATTTACATTA-TACCATTTTACCCCGATTTACA
131 CCCTCGATTTAAGAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACCCCGATTTACA
217527638 GAATTATCGTTTTACCCT
196 GAATTATCGTTTTACCCT
217527656 CGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTCGTAA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT-GTAA
*
217527721 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTT
65 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTA-TT
217527786 TA-CCT-GATTTATAGAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACCCCGATTT
129 TACCCTCGATTTA-AGAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACCCCGATTT
*
217527849 ACATAATTATCGTTTTACCCT
193 ACAGAATTATCGTTTTACCCT
* * * *
217527870 CGATTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAA
* * *
217527934 ATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTC-GATTTACAAAATTACTA
66 ATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACTA
217527995 AAATACCCTT
Statistics
Matches: 314, Mismatches: 13, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
205 28 0.09
206 9 0.03
207 4 0.01
208 11 0.04
209 2 0.01
210 2 0.01
211 33 0.11
212 71 0.23
213 96 0.31
214 58 0.18
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (213 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAA
ATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTA
CCCTCGATTTAAGAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACCCCGATTTACA
GAATTATCGTTTTACCCT
Found at i:217527993 original size:27 final size:27
Alignment explanation
Indices: 217527451--217527992 Score: 633
Period size: 27 Copynumber: 20.6 Consensus size: 27
217527441 AAAGTACTCC
217527451 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
217527478 C-AGTTATAGAA-TACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
217527502 CGATTGT--A-AATTACTGTTTTACCCT
1 CGATT-TACAGAATTACCGTTTTACCCT
217527527 CGATTTACAGAATTA-CGTTTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
217527552 C-AGTTTACAGAATTA-C-TATTTACCCT
1 CGA-TTTACAGAATTACCGT-TTTACCCT
217527578 CGATTTA-AGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
217527603 CTAATTTACATTA-TACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
*
217527629 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
217527656 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
217527683 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
217527710 CGATTT-CGTAAAATTACCGTTTTACCCT
1 CGATTTAC--AGAATTACCGTTTTACCCT
217527738 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
217527765 C-AGTTTACAGAATTACTATTTTA-CCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
217527791 -GATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
217527816 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
217527843 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
217527870 CGATTTACAGAATTA-CGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
217527896 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
217527923 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
217527950 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
217527977 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
217527993 TAAAATACCC
Statistics
Matches: 448, Mismatches: 40, Indels: 54
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.00
24 18 0.04
25 73 0.16
26 116 0.26
27 214 0.48
28 24 0.05
29 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:217528021 original size:81 final size:80
Alignment explanation
Indices: 217527432--217528003 Score: 405
Period size: 79 Copynumber: 7.2 Consensus size: 80
217527422 CTCGACTTGT
* * * * *
217527432 AAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTC-AGTTATAGAA-TAC-T
1 AAAATTACCAAAATAC-CCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACGT
217527493 GTTTACCCTCGATTGT--
65 -TTTACCCTCGATT-TAC
***** *
217527509 -AAATTACTGTTTTACCCTCGATTTACAGAATTAC-GTTTTA-CCTC-AGTTTACAGAATTAC-T
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGA-TTTACAGAATTACGT
217527569 ATTTACCCTCGATTTA-
65 -TTTACCCTCGATTTAC
* **** * * * * **
217527585 AGAATTACCGTTTTACCC-CTAATT-TACATTATACCATTTTACCC-CGATTTACAGAATTATCG
1 AAAATTACCAAAATACCCTCGATTTATAGAAT-TACTGTTTTACCCTCGATTTACAGAATTA-CG
217527647 TTTTACCCTCGATTTAC
64 TTTTACCCTCGATTTAC
* **** * *
217527664 AGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT-CGTAAAATTACC
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTAC--AGAATTA-C
217527728 GTTTTACCCTCGATTTAC
63 GTTTTACCCTCGATTTAC
* **** * * *
217527746 AGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTA-CCT-GATTTATAGAATTACCG
1 AAAATTACCAAAATACCCTCGA-TTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTA-CG
*
217527808 TTTTACCC-CTAATTTAC
64 TTTTACCCTC-GATTTAC
* *** * *
217527825 ATAATTACCATTTTACCC-CGATTTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTACGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACT-GTTTTACCCTCGATTTACAGAATTACGT
217527888 TTTACCCTCGATTTAC
65 TTTACCCTCGATTTAC
* *** *
217527904 AGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTAC-GT
217527969 TTTACCCTCGATTTAC
65 TTTACCCTCGATTTAC
*
217527985 AAAATTACTAAAATACCCT
1 AAAATTACCAAAATACCCT
217528004 TGGTTTGTGA
Statistics
Matches: 423, Mismatches: 44, Indels: 52
0.82 0.08 0.10
Matches are distributed among these distances:
74 5 0.01
75 19 0.04
76 50 0.12
77 34 0.08
78 37 0.09
79 95 0.22
80 74 0.17
81 47 0.11
82 62 0.15
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACGTT
TTACCCTCGATTTAC
Found at i:217529320 original size:9 final size:9
Alignment explanation
Indices: 217529308--217529364 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
217529298 TTTGATAAAC
217529308 ATGATATGT
1 ATGATATGT
*
217529317 ATGATATGCAC
1 ATGATATG--T
*
217529328 ATGACATGT
1 ATGATATGT
*
217529337 ATGATATGCAC
1 ATGATATG--T
217529348 ATGATATGT
1 ATGATATGT
217529357 ATGATATG
1 ATGATATG
217529365 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:217529331 original size:20 final size:20
Alignment explanation
Indices: 217529306--217529368 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
217529296 ATTTTGATAA
217529306 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
217529326 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
217529346 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
217529366 ACA
1 ACA
217529369 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:217529479 original size:24 final size:24
Alignment explanation
Indices: 217529423--217529612 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
217529413 GAGGAAGTGA
*
217529423 AAAAGGGCTTATGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
217529446 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
217529470 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
217529494 GAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
217529518 AAAAGGGCTTATGCCCCAGCTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
217529542 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
217529565 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
217529589 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
217529613 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
23 42 0.28
24 98 0.65
25 11 0.07
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:217529861 original size:31 final size:31
Alignment explanation
Indices: 217529805--217529868 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
217529795 CGTTTACCGT
* *
217529805 AAAGGCTTCGGCCCAGTAATCTGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
217529836 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
217529867 AA
1 AA
217529869 TATTAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:217533897 original size:46 final size:46
Alignment explanation
Indices: 217533844--217534019 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
217533834 TATTTGGGCA
217533844 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
217533890 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
217533937 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
217533983 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
217534020 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:217533999 original size:93 final size:93
Alignment explanation
Indices: 217533840--217534011 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
217533830 GGGATATTTG
* *
217533840 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
217533905 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
217533933 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
217533998 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
217534012 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:217536983 original size:15 final size:15
Alignment explanation
Indices: 217536963--217537031 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
217536953 GTATCTTGGG
217536963 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
217536978 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
217536993 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
217537008 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
217537023 TTTCTTTAT
1 TTTCTTTAT
217537032 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:217537032 original size:30 final size:30
Alignment explanation
Indices: 217536954--217537041 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
217536944 CATAGTATCG
* * * *
217536954 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
217536984 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
217537014 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
217537042 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:217539458 original size:46 final size:46
Alignment explanation
Indices: 217539408--217539583 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
217539398 TGGTTGAGCA
217539408 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
217539454 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
217539499 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
217539547 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
217539584 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:217539519 original size:93 final size:93
Alignment explanation
Indices: 217539405--217539575 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
217539395 GGATGGTTGA
* *
217539405 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
217539470 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
217539498 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
217539563 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
217539576 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:217544777 original size:29 final size:29
Alignment explanation
Indices: 217544738--217544816 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
217544728 CTTAATAATC
*
217544738 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
217544768 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
217544797 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
217544817 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:217554414 original size:17 final size:18
Alignment explanation
Indices: 217554372--217554420 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
217554362 AGTTGAAAAG
217554372 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
217554391 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
217554408 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
217554421 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:217555363 original size:39 final size:40
Alignment explanation
Indices: 217555240--217555405 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
217555230 AAATTGAATG
* * *
217555240 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
217555279 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
217555319 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
217555358 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
217555398 ATATCCGG
1 ATATCCGG
217555406 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.42
40 55 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:217555372 original size:79 final size:79
Alignment explanation
Indices: 217555240--217555389 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
217555230 AAATTGAATG
*
217555240 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
217555305 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
217555319 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
217555382 ATTTGTGC
64 AATTGTGC
217555390 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.06
79 58 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:217563308 original size:40 final size:40
Alignment explanation
Indices: 217563242--217563408 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
217563232 AAATTGAATG
* * *
217563242 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
217563281 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
217563321 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
217563361 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
217563401 ATATCCGG
1 ATATCCGG
217563409 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:217569713 original size:29 final size:29
Alignment explanation
Indices: 217569681--217569870 Score: 292
Period size: 29 Copynumber: 6.6 Consensus size: 29
217569671 GCTTGGAAGG
217569681 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
217569710 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
*
217569739 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
* *
217569768 TATGGCACTAGGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
217569797 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCAAACTTAAATTA
* * * **
217569826 TATGGCACTATGT-TGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCAAACTTAAATTA
*
217569854 CATGGCACTAAGTGTGC
1 TATGGCACTAAGTGTGC
217569871 GAGATCGTTT
Statistics
Matches: 149, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
28 22 0.15
29 127 0.85
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCAAACTTAAATTA
Found at i:217572293 original size:5 final size:6
Alignment explanation
Indices: 217572238--217572290 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
217572228 TAGGAAGATA
217572238 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTA-TT TTA-TT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
217572284 TTATTT T
1 TTATTT T
217572291 ATTAAATTAG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.22
6 36 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:217579102 original size:41 final size:41
Alignment explanation
Indices: 217579045--217579129 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
217579035 AATGCCCAAA
217579045 CCACAAAATAGAAAAGTGAGTACTCACAATCCTATGACATG
1 CCACAAAATAGAAAAGTGAGTACTCACAATCCTATGACATG
*
217579086 CCACAAAATAGAAAAGTGAGTACTCACAGTCCTATGACATG
1 CCACAAAATAGAAAAGTGAGTACTCACAATCCTATGACATG
217579127 CCA
1 CCA
217579130 ACTATATCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (41 bp):
CCACAAAATAGAAAAGTGAGTACTCACAATCCTATGACATG
Found at i:217595447 original size:13 final size:13
Alignment explanation
Indices: 217595429--217595453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
217595419 TAACCTACAA
217595429 AATTAAATAACAT
1 AATTAAATAACAT
217595442 AATTAAATAACA
1 AATTAAATAACA
217595454 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:217595711 original size:10 final size:10
Alignment explanation
Indices: 217595678--217595726 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
217595668 AAAAAGGAAT
*
217595678 GAGCTGAAAC
1 GAGCTCAAAC
217595688 GAGCT-AAATTC
1 GAGCTCAAA--C
217595699 GAGCTCAAAC
1 GAGCTCAAAC
*
217595709 GAGCTAAAAC
1 GAGCTCAAAC
217595719 GAGCTCAA
1 GAGCTCAA
217595727 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:217595733 original size:20 final size:21
Alignment explanation
Indices: 217595678--217595726 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
217595668 AAAAAGGAAT
* *
217595678 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
217595699 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
217595719 GAGCTCAA
1 GAGCTCAA
217595727 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:217599068 original size:30 final size:30
Alignment explanation
Indices: 217599034--217599130 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
217599024 TAAACTAAAA
217599034 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
217599064 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
217599094 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
217599124 TGAGCTA
1 TGAGCTA
217599131 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:217601499 original size:15 final size:15
Alignment explanation
Indices: 217601453--217601500 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
217601443 AAACCTACAA
*
217601453 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
217601468 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
217601482 AAACTTCATATCCAT
1 AAACTTCATATCCAT
217601497 AAAC
1 AAAC
217601501 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:217601730 original size:10 final size:11
Alignment explanation
Indices: 217601713--217601762 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
217601703 CAAGTAAGTT
217601713 TCAAAAAAAAA
1 TCAAAAAAAAA
217601724 T-AAAAAAAAA
1 TCAAAAAAAAA
*
217601734 TTCAAAAAAAAT
1 -TCAAAAAAAAA
217601746 TCAAAAAAAAA
1 TCAAAAAAAAA
*
217601757 ACAAAA
1 TCAAAA
217601763 TCTGAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.26
11 17 0.50
12 8 0.24
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (11 bp):
TCAAAAAAAAA
Found at i:217601740 original size:22 final size:23
Alignment explanation
Indices: 217601712--217601756 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
217601702 TCAAGTAAGT
217601712 TTCAAAAAAAAAT-AAAAAAAAA
1 TTCAAAAAAAAATCAAAAAAAAA
*
217601734 TTCAAAAAAAATTCAAAAAAAAA
1 TTCAAAAAAAAATCAAAAAAAAA
217601757 ACAAAATCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.16
Consensus pattern (23 bp):
TTCAAAAAAAAATCAAAAAAAAA
Found at i:217602818 original size:30 final size:28
Alignment explanation
Indices: 217602782--217602837 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
217602772 AAGCGAAAAA
* *
217602782 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
217602812 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
217602838 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:217606100 original size:29 final size:28
Alignment explanation
Indices: 217606067--217606125 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
217606057 ATAACCAAAC
*
217606067 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAA-CCAT
*
217606096 CTACATAAACTTCATATCCATAAACCAT
1 CTACAAAAACTTCATATCCATAAACCAT
217606124 CT
1 CT
217606126 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (28 bp):
CTACAAAAACTTCATATCCATAAACCAT
Found at i:217606119 original size:15 final size:15
Alignment explanation
Indices: 217606073--217606120 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
217606063 AAACCTACAA
*
217606073 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
217606088 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
217606102 AAACTTCATATCCAT
1 AAACTTCATATCCAT
217606117 AAAC
1 AAAC
217606121 CATCTTTGAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:217615939 original size:2 final size:2
Alignment explanation
Indices: 217615932--217615965 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
217615922 CGAAATTACG
217615932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
217615966 CACTAACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:217617804 original size:40 final size:40
Alignment explanation
Indices: 217617727--217617956 Score: 399
Period size: 40 Copynumber: 5.8 Consensus size: 40
217617717 GATATAGCTT
*
217617727 CTCGCTCAAATGCCTTCGGGAC-TAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
217617766 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
217617806 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
217617846 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
217617886 CTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
217617926 CTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGG
217617957 ATATCAATCC
Statistics
Matches: 181, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 20 0.11
40 161 0.89
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:217617853 original size:80 final size:80
Alignment explanation
Indices: 217617700--217617960 Score: 420
Period size: 80 Copynumber: 3.3 Consensus size: 80
217617690 AAACCAAGTA
** * * *
217617700 CCTTCGGGGTTTAG-CCGGATATAGCT-TCTCGCTCAAATGCCTTCGGGAC-TAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATA
*
217617762 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* *
217617778 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAG
217617843 TAACTCGCACAAATG
66 TAACTCGCACAAATG
217617858 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAG
217617923 TAACTCGCACAAATG
66 TAACTCGCACAAATG
217617938 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
217617961 CAATCCGAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
78 13 0.08
79 29 0.17
80 128 0.75
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:217625828 original size:39 final size:39
Alignment explanation
Indices: 217625777--217626005 Score: 401
Period size: 39 Copynumber: 5.9 Consensus size: 39
217625767 GGATATAGCT
*
217625777 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTAA
217625817 CTCGCAC-AATGCCTTCGGGACTTAGCCCGGTATA-TAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAA
*
217625854 C-CGCACAATTGCCTTCGGGACTTAGCCCGGTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAA
217625892 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTAA
217625932 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAA
217625971 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATA
217626006 TCCGAATATC
Statistics
Matches: 182, Mismatches: 3, Indels: 9
0.94 0.02 0.05
Matches are distributed among these distances:
36 5 0.03
37 30 0.16
38 8 0.04
39 94 0.52
40 45 0.25
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAA
Found at i:217625960 original size:79 final size:79
Alignment explanation
Indices: 217625752--217626006 Score: 400
Period size: 79 Copynumber: 3.3 Consensus size: 79
217625742 AAACCAAGTA
* *
217625752 CCTTCGGG-TTTAG-CCGGATATAGCT--CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TATA
217625813 GTAACTCGCAC-AATG
64 GTAACTCGCACAAATG
*
217625828 CCTTCGGGACTTAGCCCGG-TATA-TAAC-CGCACAATTGCCTTCGGGACTTAGCCCGGTATAGT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGT
217625890 AACTCGCACAAATG
66 AACTCGCACAAATG
217625904 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGT
217625969 AACTCGCACAAATG
66 AACTCGCACAAATG
217625983 CCTTCGGGACTTAGCCCGGTATAT
1 CCTTCGGGACTTAGCCCGG-ATAT
217626007 CCGAATATCC
Statistics
Matches: 166, Mismatches: 4, Indels: 14
0.90 0.02 0.08
Matches are distributed among these distances:
75 16 0.10
76 58 0.35
77 13 0.08
78 8 0.05
79 67 0.40
80 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGT
AACTCGCACAAATG
Found at i:217633821 original size:75 final size:77
Alignment explanation
Indices: 217633723--217633865 Score: 263
Period size: 75 Copynumber: 1.9 Consensus size: 77
217633713 GATATAGCTT
*
217633723 CTCGCTCAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCAC-AATGCCTTCGGGACTTA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
217633786 GCCGTATAGTAA
66 GCCGTATAGTAA
217633798 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
217633863 GCC
66 GCC
217633866 NNNNNNNNNN
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
75 30 0.46
76 15 0.23
77 20 0.31
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (77 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
GCCGTATAGTAA
Found at i:217633845 original size:40 final size:39
Alignment explanation
Indices: 217633723--217633865 Score: 247
Period size: 40 Copynumber: 3.7 Consensus size: 39
217633713 GATATAGCTT
*
217633723 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAA
217633762 CTCGCAC-AATGCCTTCGGGACTTAG-CC-GTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAA
217633798 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTAA
217633838 CTCGCACAAATGCCTTCGGGACTTAGCC
1 CTCGCACAAATGCCTTCGGGACTTAGCC
217633866 NNNNNNNNNN
Statistics
Matches: 99, Mismatches: 1, Indels: 7
0.93 0.01 0.07
Matches are distributed among these distances:
36 16 0.16
37 20 0.20
38 20 0.20
39 7 0.07
40 36 0.36
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAA
Found at i:217636672 original size:40 final size:40
Alignment explanation
Indices: 217636545--217636674 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
217636535 ATGCTGGAAA
* * *
217636545 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
217636585 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
217636625 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
217636665 TTATATCCGG
1 TTATATCCGG
217636675 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:217644790 original size:40 final size:40
Alignment explanation
Indices: 217644663--217644792 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
217644653 ATGCTGGAAA
* * *
217644663 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
217644703 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
217644743 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
217644783 TTATATCCGG
1 TTATATCCGG
217644793 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:217650089 original size:40 final size:40
Alignment explanation
Indices: 217650030--217650237 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
217650020 CAATTGAATG
* * * *
217650030 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
217650070 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
217650110 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
217650150 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
217650190 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
217650230 ATATCCGG
1 ATATCCGG
217650238 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:217650168 original size:80 final size:80
Alignment explanation
Indices: 217650031--217650237 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
217650021 AATTGAATGA
* * ** * * *
217650031 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
217650096 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
217650109 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
217650174 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
217650191 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
217650238 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:217657316 original size:40 final size:40
Alignment explanation
Indices: 217657257--217657464 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
217657247 CAATTGAATG
* * * *
217657257 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
217657297 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
217657337 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
217657377 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
217657417 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
217657457 ATATCCGG
1 ATATCCGG
217657465 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:217657395 original size:80 final size:80
Alignment explanation
Indices: 217657258--217657464 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
217657248 AATTGAATGA
* * ** * * *
217657258 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
217657323 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
217657336 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
217657401 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
217657418 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
217657465 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:217663341 original size:40 final size:40
Alignment explanation
Indices: 217663296--217663462 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
217663286 CGGAATATAA
217663296 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
217663336 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
217663376 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
217663416 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
217663455 CCGGATAT
1 CCGGATAT
217663463 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:217663446 original size:80 final size:79
Alignment explanation
Indices: 217663312--217663462 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
217663302 ATAATCACGT
*
217663312 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
217663377 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
217663392 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
217663455 CCGGATAT
64 CCGGATAT
217663463 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:217671343 original size:40 final size:40
Alignment explanation
Indices: 217671298--217671464 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
217671288 CGGAATATAA
217671298 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
217671338 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
217671378 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
217671418 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
217671457 CCGGATAT
1 CCGGATAT
217671465 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:217671448 original size:80 final size:79
Alignment explanation
Indices: 217671314--217671464 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
217671304 ATAATCACGT
*
217671314 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
217671379 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
217671394 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
217671457 CCGGATAT
64 CCGGATAT
217671465 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:217676795 original size:41 final size:41
Alignment explanation
Indices: 217676624--217676783 Score: 150
Period size: 41 Copynumber: 3.9 Consensus size: 41
217676614 GGGTCTAAAT
*
217676624 CCGAGCTTGGTCTCGAAGGGCTTTTGAGTCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * * * *
217676665 CCGAACTTAGTTTCGAAGGGCTTTAGAGCTAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * *
217676705 CCG-GACTTAGT-TCCGCAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATAA
217676746 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
217676784 GAATCGGGCT
Statistics
Matches: 95, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
39 5 0.05
40 31 0.33
41 54 0.57
42 2 0.02
43 3 0.03
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.28
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
Found at i:217677328 original size:13 final size:13
Alignment explanation
Indices: 217677310--217677335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
217677300 CGAAATGCTT
217677310 ATTCTCTGTTTTA
1 ATTCTCTGTTTTA
217677323 ATTCTCTGTTTTA
1 ATTCTCTGTTTTA
217677336 TAGATTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTCTCTGTTTTA
Found at i:217678412 original size:25 final size:25
Alignment explanation
Indices: 217678375--217678475 Score: 96
Period size: 25 Copynumber: 4.0 Consensus size: 25
217678365 TGAGAGTATT
217678375 CCGATCTACAGCTCGTGTGAGCATA
1 CCGATCTACAGCTCGTGTGAGCATA
* * ** *
217678400 CCGATTTATAGCTCGTGAAAGCAAA
1 CCGATCTACAGCTCGTGTGAGCATA
* * *
217678425 TCGATCTACAGCTGGAGTGAGCATA
1 CCGATCTACAGCTCGTGTGAGCATA
* *
217678450 CCGAT-TCACAGCTCTTATGAGCATA
1 CCGATCT-ACAGCTCGTGTGAGCATA
217678475 C
1 C
217678476 ATGTACATGA
Statistics
Matches: 57, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
24 1 0.02
25 56 0.98
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
CCGATCTACAGCTCGTGTGAGCATA
Found at i:217682857 original size:40 final size:39
Alignment explanation
Indices: 217682812--217682977 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
217682802 CGGAATATAA
217682812 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
217682852 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
217682891 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
217682931 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
217682970 CCGGATAT
1 CCGGATAT
217682978 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:217682934 original size:79 final size:79
Alignment explanation
Indices: 217682828--217682977 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
217682818 ATAATCACGT
*
217682828 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
217682891 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
217682907 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
217682972 GGATAT
66 GGATAT
217682978 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:217684224 original size:54 final size:50
Alignment explanation
Indices: 217684161--217684267 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 50
217684151 AAATCCTCCT
*
217684161 TTTCCTTAGTA-TTTCGGCCAAGAAGATGAGAAAGGATGAACAAATTTTTTTTTC
1 TTTCCTTAGTACATTCGG-CAAG-AGATG-GAAAGGATGAAC--ATTTTTTTTTC
** *
217684215 TTTCCTTAGTACATTCGGCAAGCTATGGGAAGGATGAACATTTTTTTTTC
1 TTTCCTTAGTACATTCGGCAAGAGATGGAAAGGATGAACATTTTTTTTTC
217684265 TTT
1 TTT
217684268 TTTTTTTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
50 14 0.29
52 11 0.23
53 3 0.06
54 15 0.31
55 5 0.10
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (50 bp):
TTTCCTTAGTACATTCGGCAAGAGATGGAAAGGATGAACATTTTTTTTTC
Found at i:217689341 original size:39 final size:40
Alignment explanation
Indices: 217689179--217689358 Score: 168
Period size: 41 Copynumber: 4.5 Consensus size: 40
217689169 ACGAATGCCG
* * *
217689179 CGGGTCTTAGCCCGGATAGA-ACGACTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTT
* * * * *
217689219 CGGGTATTTAGCCCGGATTTA-ACAACTTGCAACGAATGCCTT
1 CGGGT-CTTAGCCCGGATATAGTC-ACTAGC-ACAAATGCCTT
* *
217689261 CGGGTCTTAGCCCGGATGTAGTCACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTT
* * * *
217689301 CGGGTCTTAACCCGGATATA-TTACTAGCATAAATGTCTT
1 CGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTT
*
217689340 CGGGACTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
217689359 CATTCAATTG
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 32 0.27
40 32 0.27
41 38 0.32
42 16 0.14
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTT
Found at i:217697398 original size:40 final size:40
Alignment explanation
Indices: 217697211--217697415 Score: 197
Period size: 39 Copynumber: 5.2 Consensus size: 40
217697201 CGGAATACAA
* *
217697211 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTA-GCACAAATGCCTTCGGGTCTTAGC
* * *
217697251 CC-GATAGAA-CGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
217697290 CC-GATTTAA-CAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
217697329 CC-GATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
217697368 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
217697408 CCGGATAT
1 CCGGATAT
217697416 CATTCAATTG
Statistics
Matches: 138, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 97 0.70
40 40 0.29
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:217699348 original size:64 final size:65
Alignment explanation
Indices: 217699260--217699438 Score: 191
Period size: 71 Copynumber: 2.7 Consensus size: 65
217699250 ATAAACAAAT
* * *
217699260 GATAGGTGTGCCCTACACTAGTCAGATAAACCGATAATGTTTTG-CGCTGGTCGAATAAACCGAC
1 GATAGATGTGCCCTGCACTAGTCAGATAAACCGATAATGTTTTGCCGCTAGTCGAATAAACCGAC
* * *
217699324 GATAGATGTGCCTTGCACTAGTCAGATAAACAG-TCAATGTTTTGCGCCCAACGCTAGTCGGATA
1 GATAGATGTGCCCTGCACTAGTCAGATAAACCGAT-AATGTTTT--G--C--CGCTAGTCGAATA
* *
217699388 GATCGAC
59 AACCGAC
* *
217699395 GATAGATGTGCCCTGCACTAGTCGGGTAAACCGATAATGTTTTG
1 GATAGATGTGCCCTGCACTAGTCAGATAAACCGATAATGTTTTG
217699439 TATATATACA
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
63 1 0.01
64 37 0.39
66 1 0.01
69 1 0.01
71 53 0.56
72 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (65 bp):
GATAGATGTGCCCTGCACTAGTCAGATAAACCGATAATGTTTTGCCGCTAGTCGAATAAACCGAC
Found at i:217701336 original size:19 final size:20
Alignment explanation
Indices: 217701312--217701349 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
217701302 GGTACCACCA
217701312 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
217701331 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
217701350 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:217704150 original size:27 final size:28
Alignment explanation
Indices: 217704116--217704211 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
217704106 ACGTAGAACA
*
217704116 CGAAATTACCCTTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
217704144 TG-AATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
* *
217704171 CGAAATAACCCCTAAGGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
217704199 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
217704212 GGGTTTAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.05
27 32 0.53
28 25 0.42
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:217711518 original size:40 final size:40
Alignment explanation
Indices: 217711473--217711640 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
217711463 CGGAATATAA
217711473 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
217711513 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
217711553 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
217711593 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
217711633 CCGGATAT
1 CCGGATAT
217711641 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:217713553 original size:40 final size:40
Alignment explanation
Indices: 217713498--217713706 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
217713488 AACATTGGAA
217713498 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
217713538 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
217713578 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
217713618 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
217713657 ACCAAATCCGGGTTATGACCCGAAGG-AATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
217713697 CTATATCCGG
1 ATATATCCGG
217713707 TTAAATCCCG
Statistics
Matches: 150, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.11
40 134 0.89
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:217718072 original size:30 final size:30
Alignment explanation
Indices: 217718038--217718098 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
217718028 TCCTTAACTC
217718038 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
217718068 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
217718098 A
1 A
217718099 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:217722508 original size:30 final size:30
Alignment explanation
Indices: 217722474--217722534 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
217722464 TCCTTAACTC
217722474 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
217722504 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
217722534 A
1 A
217722535 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:217725699 original size:19 final size:20
Alignment explanation
Indices: 217725675--217725712 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
217725665 GGTACGACCA
217725675 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
217725694 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
217725713 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:217726056 original size:93 final size:93
Alignment explanation
Indices: 217725942--217726112 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
217725932 GCCCCTAAGT
* * * * *
217725942 GAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGTATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
217726007 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
217726035 GAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTGAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
217726100 CGAGTTCGGATGC
66 CGAGTTCGGATGC
217726113 TCAACCATCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:217726100 original size:46 final size:46
Alignment explanation
Indices: 217725937--217726109 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
217725927 AACCCGCCCC
* * * * * *
217725937 TAAGTGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
217725983 TAAATGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
217726031 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
217726076 TAAGTGAACTCGGACTGAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
217726110 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.56
47 27 0.27
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:217729276 original size:48 final size:48
Alignment explanation
Indices: 217729211--217729432 Score: 215
Period size: 48 Copynumber: 4.7 Consensus size: 48
217729201 GGTTATGTGT
* * *
217729211 GATCCCATGTAAGACCATGCCTAGGACATGGCATTGGCATCGTTATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * *
217729259 GATCCCATGTAATACCATGTATGGGACATGGCATTGGCATCGACATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* *
217729307 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * * * *
217729355 GA-CATCGTGTAAGACCATAG-CTAGG-C-T---ATCGGCTTCGATTTGT
1 GATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGA
* *
217729398 GATCCCATGTAAGACCATATCTGGGATATGGCATT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATT
217729433 AGAATCTTAC
Statistics
Matches: 137, Mismatches: 28, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
43 30 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 103 0.75
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:217732066 original size:40 final size:40
Alignment explanation
Indices: 217731987--217732190 Score: 263
Period size: 40 Copynumber: 5.1 Consensus size: 40
217731977 CAGGATTTAA
* *
217731987 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
217732026 CCGGATATAGTAACTCGCACCAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
217732066 CCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
217732106 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
217732146 CCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGAGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
217732187 CCGG
1 CCGG
217732191 TTATCATCCA
Statistics
Matches: 147, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 17 0.12
40 102 0.69
41 23 0.16
42 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:217733353 original size:9 final size:9
Alignment explanation
Indices: 217733339--217733367 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
217733329 GCTAACAAAT
217733339 AAATAAAAA
1 AAATAAAAA
217733348 AAAT-AAAA
1 AAATAAAAA
217733356 AAATAAAAA
1 AAATAAAAA
217733365 AAA
1 AAA
217733368 CATGCATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAATAAAAA
Found at i:217740294 original size:28 final size:27
Alignment explanation
Indices: 217740233--217740302 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
217740223 ATAGTGAGTC
*
217740233 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
217740260 CGCACACTTAGTGCTATATGATCCAACT
1 CGCACACTTAGTGCTATATAAT-CAACT
217740288 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
217740303 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:217741679 original size:23 final size:23
Alignment explanation
Indices: 217741653--217741699 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
217741643 CTAGCACATT
217741653 TCTAGATTTTCTCACATAAGTCC
1 TCTAGATTTTCTCACATAAGTCC
217741676 TCTAGATTTTCTCACATAAGTCC
1 TCTAGATTTTCTCACATAAGTCC
217741699 T
1 T
217741700 ATTTGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (23 bp):
TCTAGATTTTCTCACATAAGTCC
Found at i:217745011 original size:29 final size:29
Alignment explanation
Indices: 217744969--217745034 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
217744959 ATGTATAGCA
217744969 AGAAACTCAATTTCT-AAAAGAATTTTTGT
1 AGAAACTCAATTTCTAAAAAGAA-TTTTGT
217744998 AGAAACTCAATTTCTAAAAAGAATTTTGT
1 AGAAACTCAATTTCTAAAAAGAATTTTGT
*
217745027 AGTAACTC
1 AGAAACTC
217745035 TATGTAGATC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 28 0.80
30 7 0.20
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (29 bp):
AGAAACTCAATTTCTAAAAAGAATTTTGT
Found at i:217748203 original size:80 final size:80
Alignment explanation
Indices: 217748119--217748267 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
217748109 TATGGTAACC
* * * *
217748119 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
217748183 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
217748199 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
217748264 CCGG
66 CCGG
217748268 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:217748209 original size:40 final size:38
Alignment explanation
Indices: 217748160--217748267 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
217748150 ATCACGATTT
*
217748160 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
217748200 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
217748240 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
217748268 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:217756310 original size:80 final size:80
Alignment explanation
Indices: 217756226--217756374 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
217756216 TATGGTAACC
* * * *
217756226 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
217756290 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
217756306 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
217756371 CCGG
66 CCGG
217756375 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:217756316 original size:40 final size:38
Alignment explanation
Indices: 217756267--217756374 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
217756257 ATCACGATTT
*
217756267 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
217756307 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
217756347 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
217756375 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:217762987 original size:63 final size:64
Alignment explanation
Indices: 217762907--217763089 Score: 203
Period size: 66 Copynumber: 2.8 Consensus size: 64
217762897 AGACATTATG
* *
217762907 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
217762970 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
217763035 AA
63 AA
* * *
217763037 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
217763090 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 43 0.43
64 1 0.01
65 2 0.02
66 45 0.45
67 7 0.07
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Done.