Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 42 of 207
Found at i:12262396 original size:23 final size:23
Alignment explanation
Indices: 12262370--12262414 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
12262360 ATGTGTACCA
*
12262370 TAAAGGAGTGAGAATGGATCCCT
1 TAAAGGAATGAGAATGGATCCCT
* *
12262393 TAAATGAATGAGAATGTATCCC
1 TAAAGGAATGAGAATGGATCCC
12262415 CCAAGGGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (23 bp):
TAAAGGAATGAGAATGGATCCCT
Found at i:12262543 original size:23 final size:22
Alignment explanation
Indices: 12262484--12262537 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
12262474 AACGTGAAAA
*
12262484 ATGTATCCCTTAAGGAAATGAG
1 ATGTATCCCATAAGGAAATGAG
*
12262506 ATTGTATCCCATAAGGAAATGTTG
1 A-TGTATCCCATAAGGAAATG-AG
12262530 ATGTATCC
1 ATGTATCC
12262538 TCTAAGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 1 0.04
23 25 0.89
24 2 0.07
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (22 bp):
ATGTATCCCATAAGGAAATGAG
Found at i:12265467 original size:24 final size:24
Alignment explanation
Indices: 12265440--12265488 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
12265430 AGTTATACAA
*
12265440 ATCACAAACAAATCAGTCATTTAC
1 ATCACAAACAAATCAATCATTTAC
**
12265464 ATCACGGACAAATCAATCATTTAC
1 ATCACAAACAAATCAATCATTTAC
12265488 A
1 A
12265489 ATCGAGGGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (24 bp):
ATCACAAACAAATCAATCATTTAC
Found at i:12265525 original size:26 final size:27
Alignment explanation
Indices: 12265449--12265513 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 27
12265439 AATCACAAAC
* * *
12265449 AAATCAGTCATTTAC-ATC-ACGGAC-
1 AAATCAATCATTTACAATCGAGGGGCA
12265473 AAATCAATCATTTACAATCGAGGGGCA
1 AAATCAATCATTTACAATCGAGGGGCA
12265500 AAAT-AATCATTTAC
1 AAATCAATCATTTAC
12265514 CCTCTAGGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 14 0.40
25 3 0.09
26 14 0.40
27 4 0.11
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (27 bp):
AAATCAATCATTTACAATCGAGGGGCA
Found at i:12265549 original size:27 final size:27
Alignment explanation
Indices: 12265509--12265693 Score: 203
Period size: 27 Copynumber: 6.8 Consensus size: 27
12265499 AAAATAATCA
12265509 TTTACCCT-CTAGGGGCATTACGGTCAT
1 TTTACCCTAC-AGGGGCATTACGGTCAT
*
12265536 TTTACCCTACAGGGGCATTACGATCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * *
12265563 TTTACCCTA-TGATGGCATTATGGTCAT
1 TTTACCCTACAG-GGGCATTACGGTCAT
** *
12265590 TTTACCCTATGGGGGGTATTACGGTCAT
1 TTTACCCTA-CAGGGGCATTACGGTCAT
* * * *
12265618 TTTACCCTACAAGGGCATCACAGTTAT
1 TTTACCCTACAGGGGCATTACGGTCAT
*
12265645 TTTACCCTACAAGGGCATTACGGTCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* *
12265672 TTTACCCGATAGGGGCATTACG
1 TTTACCCTACAGGGGCATTACG
12265694 ATTATTATAC
Statistics
Matches: 132, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 108 0.82
28 22 0.17
29 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (27 bp):
TTTACCCTACAGGGGCATTACGGTCAT
Found at i:12265617 original size:82 final size:82
Alignment explanation
Indices: 12265520--12265693 Score: 235
Period size: 82 Copynumber: 2.1 Consensus size: 82
12265510 TTACCCTCTA
* * ** * *
12265520 GGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC-GATCATTTTACCCTATGATGGCATTAT
1 GGGGCATTACGGTCATTTTACCCTACAAGGGCATCACAG-TCATTTTACCCTACAAGGGCATTAC
12265584 GGTCATTTTACCCTATGG
65 GGTCATTTTACCCTATGG
* *
12265602 GGGGTATTACGGTCATTTTACCCTACAAGGGCATCACAGTTATTTTACCCTACAAGGGCATTACG
1 GGGGCATTACGGTCATTTTACCCTACAAGGGCATCACAGTCATTTTACCCTACAAGGGCATTACG
* *
12265667 GTCATTTTACCCGAT-A
66 GTCATTTTACCCTATGG
12265683 GGGGCATTACG
1 GGGGCATTACG
12265694 ATTATTATAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 10 0.12
82 69 0.86
83 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (82 bp):
GGGGCATTACGGTCATTTTACCCTACAAGGGCATCACAGTCATTTTACCCTACAAGGGCATTACG
GTCATTTTACCCTATGG
Found at i:12277587 original size:43 final size:43
Alignment explanation
Indices: 12277425--12277587 Score: 124
Period size: 43 Copynumber: 3.8 Consensus size: 43
12277415 CATAGGATTC
* *
12277425 CGATATGAG-TTATCGTGTAAGACCACGTCTAGGAC-GTTGGCAT
1 CGATATTAGATTA-CGTGTAAGACCACGTCTGGGACAG-TGGCAT
* *
12277468 CGAT-TTGAGATTTACGCGTAAGACCATGTCTGGGACA-TCGGCAT
1 CGATATT-AGA-TTACGTGTAAGACCACGTCTGGGACAGT-GGCAT
* **
12277512 CG-TA-TACAATTTTGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 CGATATTA-GATTACGTGTAAGACCAC-GTCTGGGACAGTGGCAT
* * *
12277554 CGATATTTGATTGCATGTAAGACCACGTCTGGGA
1 CGATATTAGATTACGTGTAAGACCACGTCTGGGA
12277588 TGTTGGCATT
Statistics
Matches: 94, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
42 30 0.32
43 33 0.35
44 28 0.30
45 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
CGATATTAGATTACGTGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:12277805 original size:18 final size:19
Alignment explanation
Indices: 12277770--12277806 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
12277760 CATGACATTG
12277770 AATGAAATGTATGTATACA
1 AATGAAATGTATGTATACA
12277789 AATG-AATGT-TGTGATACA
1 AATGAAATGTATGT-ATACA
12277807 TATGCTCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (19 bp):
AATGAAATGTATGTATACA
Found at i:12282405 original size:22 final size:22
Alignment explanation
Indices: 12282377--12282422 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
12282367 CCCACATACT
12282377 AGTAAAAAGAAATGTGACCATG
1 AGTAAAAAGAAATGTGACCATG
12282399 AGTAAAAAGAAATGTGACCATG
1 AGTAAAAAGAAATGTGACCATG
12282421 AG
1 AG
12282423 GGCTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.17
Consensus pattern (22 bp):
AGTAAAAAGAAATGTGACCATG
Found at i:12282734 original size:13 final size:14
Alignment explanation
Indices: 12282718--12282750 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
12282708 TATATTTTTC
12282718 TTTATATAT-AATA
1 TTTATATATAAATA
12282731 TTTATATATCAAATA
1 TTTATATAT-AAATA
12282746 TTTAT
1 TTTAT
12282751 TTCTCCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:12284539 original size:24 final size:24
Alignment explanation
Indices: 12284511--12284562 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
12284501 TTCGTAGGTC
* * * *
12284511 AAATAAATTGTGCTAATCAATGCT
1 AAATAAATTATACTAATAAATACT
*
12284535 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
12284559 AAAT
1 AAAT
12284563 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:12285749 original size:6 final size:6
Alignment explanation
Indices: 12285738--12285772 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
12285728 TGCTTGTCTT
12285738 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCT
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCT
12285773 TCTTTGTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CCTCTC
Found at i:12292700 original size:13 final size:13
Alignment explanation
Indices: 12292679--12292809 Score: 90
Period size: 13 Copynumber: 9.8 Consensus size: 13
12292669 TTCATAATCT
12292679 ATTTCCATATAACC
1 ATTT-CATATAACC
12292693 GA-TTCATATAACC
1 -ATTTCATATAACC
*
12292706 ATTTCATAT-ATC
1 ATTTCATATAACC
12292718 ATTTTTCATATAACC
1 A--TTTCATATAACC
*
12292733 ATTTCATATAA-T
1 ATTTCATATAACC
*
12292745 ATTTTTCATATAATCG
1 A--TTTCATATAA-CC
* *
12292761 A-TTCGTATAATC
1 ATTTCATATAACC
***
12292773 ATTTCATATATTT
1 ATTTCATATAACC
12292786 ATTTTCATATAACC
1 A-TTTCATATAACC
12292800 ATTTCATATA
1 ATTTCATATA
12292810 TCATTTTTTT
Statistics
Matches: 93, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.06
13 52 0.56
14 30 0.32
15 4 0.04
16 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:12292731 original size:40 final size:39
Alignment explanation
Indices: 12292667--12292743 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 39
12292657 CCAATGTTCT
12292667 ATTTCATAATCTATTTCCATATAACCGA-TTCATATAACC
1 ATTTCATAATCTATTTCCATATAACC-ATTTCATATAACC
*
12292706 ATTTCATATATC-ATTTTTCATATAACCATTTCATATAA
1 ATTTCATA-ATCTA-TTTCCATATAACCATTTCATATAA
12292744 TATTTTTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
39 10 0.29
40 24 0.71
ACGTcount: A:0.36, C:0.19, G:0.01, T:0.43
Consensus pattern (39 bp):
ATTTCATAATCTATTTCCATATAACCATTTCATATAACC
Found at i:12292769 original size:27 final size:28
Alignment explanation
Indices: 12292695--12292776 Score: 116
Period size: 27 Copynumber: 3.0 Consensus size: 28
12292685 ATATAACCGA
12292695 TTCATATAACCATTTCATAT-ATCATTT
1 TTCATATAACCATTTCATATAATCATTT
12292722 TTCATATAACCATTTCATATAAT-ATTT
1 TTCATATAACCATTTCATATAATCATTT
* *
12292749 TTCATATAATCGA-TTCGTATAATCATTT
1 TTCATATAA-CCATTTCATATAATCATTT
12292777 CATATATTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
27 42 0.84
28 8 0.16
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (28 bp):
TTCATATAACCATTTCATATAATCATTT
Found at i:12292777 original size:67 final size:67
Alignment explanation
Indices: 12292667--12292817 Score: 202
Period size: 67 Copynumber: 2.3 Consensus size: 67
12292657 CCAATGTTCT
*
12292667 ATTTCATA-ATC-TATTTCCATATAACCGATTCATATAACCATTTCATATATCAT-TTTTCATAT
1 ATTTCATATATCAT-TTTTCATATAACCGATTCATATAACCATTTCATATAT-ATATTTTCATAT
12292729 AACC
64 AACC
* * * *
12292733 ATTTCATATAAT-ATTTTTCATATAATCGATTCGTATAATCATTTCATATATTTATTTTCATATA
1 ATTTCATAT-ATCATTTTTCATATAACCGATTCATATAACCATTTCATATATATATTTTCATATA
12292797 ACC
65 ACC
12292800 ATTTCATATATCATTTTT
1 ATTTCATATATCATTTTT
12292818 TTCACCCGAT
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
66 11 0.15
67 61 0.81
68 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.48
Consensus pattern (67 bp):
ATTTCATATATCATTTTTCATATAACCGATTCATATAACCATTTCATATATATATTTTCATATAA
CC
Found at i:12295468 original size:21 final size:21
Alignment explanation
Indices: 12295444--12295521 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
12295434 GTGGAAAAGG
* *
12295444 GCACACACCCATGTGCAAGAA
1 GCACACGCCCGTGTGCAAGAA
*
12295465 GCACACGCCTGTGTGCAAGAA
1 GCACACGCCCGTGTGCAAGAA
* *
12295486 GCACACGCCTGTGTACAAGAA
1 GCACACGCCCGTGTGCAAGAA
12295507 GCACACGCCCGTGTG
1 GCACACGCCCGTGTG
12295522 GAGGAGACAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (21 bp):
GCACACGCCCGTGTGCAAGAA
Found at i:12300636 original size:57 final size:57
Alignment explanation
Indices: 12300575--12300707 Score: 194
Period size: 57 Copynumber: 2.3 Consensus size: 57
12300565 GCCATTATTC
* *
12300575 ACATTTTGACAACATAAATATACGCATTAAGAGACATTATGACAACAACTATAAATT
1 ACATTTAGACAACATAAATATACACATTAAGAGACATTATGACAACAACTATAAATT
* * * * *
12300632 ACATTTGGACAACATAAATATGCATATTAAGAGACATTTTGACAGCAACTATAAATT
1 ACATTTAGACAACATAAATATACACATTAAGAGACATTATGACAACAACTATAAATT
*
12300689 ACATTAAGACAACATAAAT
1 ACATTTAGACAACATAAAT
12300708 GTAGAAATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (57 bp):
ACATTTAGACAACATAAATATACACATTAAGAGACATTATGACAACAACTATAAATT
Found at i:12311660 original size:30 final size:32
Alignment explanation
Indices: 12311601--12311661 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
12311591 AGAGGTGGGA
*
12311601 TGGGAAGGGAATAAAAGCTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAGATTTTAGGGGAAAAG
* *
12311633 TGGG-AGGGAGTAAAA-ATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAGATTTTAGGGGAAAA
12311662 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 12 0.46
31 10 0.38
32 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (32 bp):
TGGGAAGGGAATAAAAGATTTTAGGGGAAAAG
Found at i:12311894 original size:9 final size:9
Alignment explanation
Indices: 12311876--12311912 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
12311866 TATAGTTTGA
*
12311876 TATTCAAAT
1 TATTCGAAT
12311885 TATTCGAAT
1 TATTCGAAT
*
12311894 TATTCGAGT
1 TATTCGAAT
12311903 TATTCGAAT
1 TATTCGAAT
12311912 T
1 T
12311913 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12312287 original size:18 final size:18
Alignment explanation
Indices: 12312252--12312289 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
12312242 ACTCAACCAC
12312252 ATTAAACACAACAAACAT
1 ATTAAACACAACAAACAT
*
12312270 ATTAAGACAC-ACATACAT
1 ATTAA-ACACAACAAACAT
12312288 AT
1 AT
12312290 ACTTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (18 bp):
ATTAAACACAACAAACAT
Found at i:12312959 original size:25 final size:24
Alignment explanation
Indices: 12312931--12312994 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
12312921 CGGACACATA
*
12312931 AACGGGAAGCTCATATGAGCCATGT
1 AACGGGAAGCTCATAAGAGCCAT-T
* **
12312956 AACGAGAAGCTCCGAAGAGCCATT
1 AACGGGAAGCTCATAAGAGCCATT
12312980 AACGGGAAGCTCATA
1 AACGGGAAGCTCATA
12312995 CTAGCCAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.16
Consensus pattern (24 bp):
AACGGGAAGCTCATAAGAGCCATT
Found at i:12313000 original size:24 final size:24
Alignment explanation
Indices: 12312931--12313001 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
12312921 CGGACACATA
12312931 AACGGGAAGCTCATATGAGCCATGT
1 AACGGGAAGCTCATAT-AGCCATGT
* *
12312956 AACGAGAAGCTCCGA-AGAGCCAT-T
1 AACGGGAAGCT-C-ATATAGCCATGT
12312980 AACGGGAAGCTCATACTAGCCA
1 AACGGGAAGCTCATA-TAGCCA
12313002 ATATTGGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
22 1 0.03
23 2 0.05
24 16 0.42
25 16 0.42
26 2 0.05
27 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.15
Consensus pattern (24 bp):
AACGGGAAGCTCATATAGCCATGT
Found at i:12324477 original size:24 final size:24
Alignment explanation
Indices: 12324440--12324487 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12324430 TAGGAGCTCA
* *
12324440 TAATCGGTATGCT-CTTACGAGCTG
1 TAATCGATAAGCTCCTT-CGAGCTG
12324464 TAATCGATAAGCTCCTTCGAGCTG
1 TAATCGATAAGCTCCTTCGAGCTG
12324488 ATTAGCGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (24 bp):
TAATCGATAAGCTCCTTCGAGCTG
Found at i:12324505 original size:24 final size:23
Alignment explanation
Indices: 12324444--12324505 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
12324434 AGCTCATAAT
* *
12324444 CGGTATGCTCTTACGAGCTGTAAT
1 CGGTAAGCTCTT-CGAGCTGTAAG
* *
12324468 CGATAAGCTCCTTCGAGCTGATTAG
1 CGGTAAGCT-CTTCGAGCTG-TAAG
12324493 CGGTAAGCTCTTC
1 CGGTAAGCTCTTC
12324506 CGAACTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (23 bp):
CGGTAAGCTCTTCGAGCTGTAAG
Found at i:12326644 original size:13 final size:13
Alignment explanation
Indices: 12326626--12326650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12326616 AGTTATGGAC
12326626 AATTTTTAATTAA
1 AATTTTTAATTAA
12326639 AATTTTTAATTA
1 AATTTTTAATTA
12326651 CTAATAAGGG
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTTTAATTAA
Found at i:12329696 original size:15 final size:17
Alignment explanation
Indices: 12329676--12329708 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
12329666 GAAATTTTAT
12329676 AATAAAT-AAT-ATAAA
1 AATAAATCAATAATAAA
12329691 AATAAATCAATAATAAA
1 AATAAATCAATAATAAA
12329708 A
1 A
12329709 TATGAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAATCAATAATAAA
Found at i:12335518 original size:14 final size:17
Alignment explanation
Indices: 12335478--12335512 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12335468 GTGAATGGTA
12335478 AATGAAGATGTGAGCTTG
1 AATGAA-ATGTGAGCTTG
12335496 AATGAAATGTGA-CTTG
1 AATGAAATGTGAGCTTG
12335512 A
1 A
12335513 GAAATGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
AATGAAATGTGAGCTTG
Found at i:12337044 original size:16 final size:15
Alignment explanation
Indices: 12337014--12337052 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
12337004 ATATAATATT
* *
12337014 ATTTTATTAACTTTA
1 ATTTAATTAAATTTA
12337029 ATTGTAATTAAATTTA
1 ATT-TAATTAAATTTA
12337045 ATTTAATT
1 ATTTAATT
12337053 TTTATTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTAATTAAATTTA
Found at i:12337049 original size:21 final size:21
Alignment explanation
Indices: 12337020--12337067 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
12337010 TATTATTTTA
12337020 TTAACTTTAATTGTAATTAAAT
1 TTAA-TTTAATTGTAATTAAAT
* * *
12337042 TTAATTTAATTTTTATTCAAT
1 TTAATTTAATTGTAATTAAAT
12337063 TTAAT
1 TTAAT
12337068 AAGCACTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAATTTAATTGTAATTAAAT
Found at i:12340156 original size:22 final size:22
Alignment explanation
Indices: 12340086--12340158 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
12340076 TCACAATACT
*
12340086 CATATAATTACATAACATTCAAG
1 CATAT-ATCACATAACATTCAAG
12340109 CATATATCAC--AACACTT---G
1 CATATATCACATAACA-TTCAAG
*
12340127 TATA-ATCACATAACATTCAAG
1 CATATATCACATAACATTCAAG
12340148 CATATATCACA
1 CATATATCACA
12340159 ATACTCAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 15
0.69 0.05 0.26
Matches are distributed among these distances:
17 5 0.12
18 6 0.15
19 4 0.10
20 4 0.10
21 6 0.15
22 10 0.25
23 5 0.12
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (22 bp):
CATATATCACATAACATTCAAG
Found at i:12340159 original size:39 final size:39
Alignment explanation
Indices: 12340028--12340165 Score: 186
Period size: 39 Copynumber: 3.5 Consensus size: 39
12340018 ATTCACTTTT
* ** * *
12340028 AAGCATATGTCACATTACACATATAATTACATAACATTT
1 AAGCATATATCACAACACTCATATAATTACATAACATTC
*
12340067 AAGCATATATCACAATACTCATATAATTACATAACATTC
1 AAGCATATATCACAACACTCATATAATTACATAACATTC
** *
12340106 AAGCATATATCACAACACTTGTATAATCACATAACATTC
1 AAGCATATATCACAACACTCATATAATTACATAACATTC
*
12340145 AAGCATATATCACAATACTCA
1 AAGCATATATCACAACACTCA
12340166 AAGACATGTT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAACACTCATATAATTACATAACATTC
Found at i:12342069 original size:20 final size:21
Alignment explanation
Indices: 12342041--12342094 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
12342031 GAAGACCTAG
12342041 GTATCAATACCT-T-GAAGCAT
1 GTATCAATACCTCTAG-AGCAT
*
12342061 GTATTAATACCTCTAGAGCAT
1 GTATCAATACCTCTAGAGCAT
12342082 GTATCAATACCTC
1 GTATCAATACCTC
12342095 ATGAACAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 11 0.37
21 18 0.60
22 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (21 bp):
GTATCAATACCTCTAGAGCAT
Found at i:12342106 original size:21 final size:20
Alignment explanation
Indices: 12342041--12342108 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
12342031 GAAGACCTAG
12342041 GTATCAATACCT-TGAAGCAT
1 GTATCAATACCTCTGAA-CAT
* *
12342061 GTATTAATACCTCTAGAGCAT
1 GTATCAATACCTCT-GAACAT
*
12342082 GTATCAATACCTCATGAACAA
1 GTATCAATACCTC-TGAACAT
12342103 GTATCA
1 GTATCA
12342109 GTACAATGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.28
21 26 0.65
22 3 0.08
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (20 bp):
GTATCAATACCTCTGAACAT
Found at i:12351843 original size:33 final size:33
Alignment explanation
Indices: 12351792--12351893 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 33
12351782 GCTGGTATGC
* * *
12351792 AAGGTGAAGA-AGGAGTAACATGTATAGAAGATG
1 AAGGTGAA-ATAGGGGTAACAGGTATAGAAGGTG
* *
12351825 AAGGTGAAATAGGGGTAACCGGTATAGAGGGTG
1 AAGGTGAAATAGGGGTAACAGGTATAGAAGGTG
* * *
12351858 AAGGAGATATAGAGGTAACAGGTATAGAAGGTG
1 AAGGTGAAATAGGGGTAACAGGTATAGAAGGTG
12351891 AAG
1 AAG
12351894 CTAAAGGCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 1 0.02
33 57 0.98
ACGTcount: A:0.41, C:0.04, G:0.37, T:0.18
Consensus pattern (33 bp):
AAGGTGAAATAGGGGTAACAGGTATAGAAGGTG
Found at i:12358021 original size:21 final size:22
Alignment explanation
Indices: 12357997--12358037 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12357987 TTGAATTAAT
*
12357997 TTAATTCATTTAA-TCGGTCAG
1 TTAATTCATCTAATTCGGTCAG
*
12358018 TTAATTGATCTAATTCGGTC
1 TTAATTCATCTAATTCGGTC
12358038 GGAAGTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (22 bp):
TTAATTCATCTAATTCGGTCAG
Found at i:12360426 original size:50 final size:50
Alignment explanation
Indices: 12360302--12360473 Score: 155
Period size: 50 Copynumber: 3.3 Consensus size: 50
12360292 GGTAAATAGA
* * * *
12360302 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGAGATTGTGAGAGG
1 TCCCACGTAAGACCATGTCTAGGACATGGCATGGGCA-C--CGAGA---TAAGAGG
* * * *
12360358 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGG
1 TCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATAAGAGG
* * * * **
12360408 TCCCCCGTAAGACTATGTCTAGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATAAGAGG
*
12360458 TCCCATGTAAGACCAT
1 TCCCACGTAAGACCAT
12360474 ATCTGGGATA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 59 0.60
53 4 0.04
55 1 0.01
56 35 0.35
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATAAGAGG
Found at i:12373970 original size:69 final size:69
Alignment explanation
Indices: 12373883--12374059 Score: 221
Period size: 69 Copynumber: 2.6 Consensus size: 69
12373873 TTAAGCTTGC
* * * * **
12373883 AACTCCAACACGGCTAGCGGACCTACACTCCCAAATGATGTTACAAAGGTTTTTCGGTTTATGAT
1 AACTCCAAAACAGCTAGCGGACCTACACTCCCAACTGATGTTACAAAGGTTTTCCAATTTATGAT
12373948 -TACA
66 CT-CA
* * *
12373952 AACTCCAAAACAGCTAGCGGACCTACACTCCCAGCTAATGTTACAAAGGTTTTCCAATTTATTAT
1 AACTCCAAAACAGCTAGCGGACCTACACTCCCAACTGATGTTACAAAGGTTTTCCAATTTATGAT
12374017 CTCA
66 CTCA
* * * *
12374021 ACCTCCAAAACAACTAGCAGACCTACACCCCCAACTGAT
1 AACTCCAAAACAGCTAGCGGACCTACACTCCCAACTGAT
12374060 ACTCTAAGAG
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
69 91 0.99
70 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (69 bp):
AACTCCAAAACAGCTAGCGGACCTACACTCCCAACTGATGTTACAAAGGTTTTCCAATTTATGAT
CTCA
Found at i:12374105 original size:68 final size:67
Alignment explanation
Indices: 12374023--12374241 Score: 251
Period size: 68 Copynumber: 3.2 Consensus size: 67
12374013 TTATCTCAAC
* *
12374023 CTCCAAAACAACTAGCAGACCTACACCCCCAACTGATACTCTAAGAGCTCGTAGAGTTAAGCTCA
1 CTCCAACACAACTAGCAGACCTACACTCCCAACTGATACTCTAAGAGCTCG-AGAGTTAAGCTCA
12374088 CAA
65 CAA
** * * * * *
12374091 CTCCAACACAACTAGTGGACCTACACTCCTAGCTGATACTCTAAGAGCTCACAGACTTAAGCTCG
1 CTCCAACACAACTAGCAGACCTACACTCCCAACTGATACTCTAAGAGCTC-GAGAGTTAAGCTCA
* *
12374156 TAG
65 CAA
* * * *
12374159 CTCCAACAAAACTAGCAGACCTACGCTCTCAACTGATACTCTAAGAGCTCGAGGAGCTAAGCTCA
1 CTCCAACACAACTAGCAGACCTACACTCCCAACTGATACTCTAAGAGCTCGA-GAGTTAAGCTCA
12374224 CAGA
65 CA-A
*
12374228 -TCCAACACATCTAG
1 CTCCAACACAACTAG
12374242 GTAATTGATT
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
67 1 0.01
68 121 0.99
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.19
Consensus pattern (67 bp):
CTCCAACACAACTAGCAGACCTACACTCCCAACTGATACTCTAAGAGCTCGAGAGTTAAGCTCAC
AA
Found at i:12402534 original size:43 final size:43
Alignment explanation
Indices: 12402472--12402556 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
12402462 TCATGTCTCA
12402472 TTTCTCACCTCATAATCATTTCTCATATTTGT-CATTTCAATAT
1 TTTCTCACCTCATAATCATTTCTCATATTT-TCCATTTCAATAT
* * *
12402515 TTTCTCATCTCATATTCATTTCTCATCTTTTCCATTTCAATA
1 TTTCTCACCTCATAATCATTTCTCATATTTTCCATTTCAATA
12402557 CCAATCATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.24, C:0.25, G:0.01, T:0.51
Consensus pattern (43 bp):
TTTCTCACCTCATAATCATTTCTCATATTTTCCATTTCAATAT
Found at i:12403800 original size:15 final size:15
Alignment explanation
Indices: 12403780--12403818 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
12403770 CTTTAATTTT
12403780 TATTATTATAACATA
1 TATTATTATAACATA
*
12403795 TATTATTATAACTTA
1 TATTATTATAACATA
12403810 TATATATTA
1 TAT-TATTA
12403819 AGTTAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTATTATAACATA
Found at i:12426025 original size:32 final size:32
Alignment explanation
Indices: 12425988--12426051 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
12425978 AAAAAAATAG
12425988 GGATTAGAGGGCTTTGTTTAAGGTTTAAAAAA
1 GGATTAGAGGGCTTTGTTTAAGGTTTAAAAAA
* *
12426020 GGATTAGAGGGTTTTGTTTAGGGTTTAAAAAA
1 GGATTAGAGGGCTTTGTTTAAGGTTTAAAAAA
12426052 AGATCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.36
Consensus pattern (32 bp):
GGATTAGAGGGCTTTGTTTAAGGTTTAAAAAA
Found at i:12426514 original size:14 final size:13
Alignment explanation
Indices: 12426492--12426541 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
12426482 AACTGTTTAG
*
12426492 TATTTTTGTAATGA
1 TATTATTGTAAT-A
*
12426506 TATTATTGTACTA
1 TATTATTGTAATA
12426519 TATTTATTGTAATA
1 TA-TTATTGTAATA
12426533 T-TTATTGTA
1 TATTATTGTA
12426542 TTACATTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 8 0.25
13 3 0.09
14 21 0.66
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (13 bp):
TATTATTGTAATA
Found at i:12426535 original size:12 final size:12
Alignment explanation
Indices: 12426492--12426541 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
12426482 AACTGTTTAG
12426492 TATTT-TTGTAA
1 TATTTATTGTAA
12426503 TGATATTATTGTACTA
1 T-AT-TTATTGTA--A
12426519 TATTTATTGTAA
1 TATTTATTGTAA
12426531 TATTTATTGTA
1 TATTTATTGTA
12426542 TTACATTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 14 0.41
13 2 0.06
14 13 0.38
15 2 0.06
16 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (12 bp):
TATTTATTGTAA
Found at i:12426540 original size:26 final size:28
Alignment explanation
Indices: 12426492--12426550 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
12426482 AACTGTTTAG
12426492 TATTT-TTGTAATGATATTATTGTACTA
1 TATTTATTGTAATGATATTATTGTACTA
*
12426519 TATTTATTGTAAT-AT-TTATTGTATTA
1 TATTTATTGTAATGATATTATTGTACTA
*
12426545 CATTTA
1 TATTTA
12426551 GGTGTTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.52
27 7 0.24
28 7 0.24
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (28 bp):
TATTTATTGTAATGATATTATTGTACTA
Found at i:12429025 original size:33 final size:34
Alignment explanation
Indices: 12428983--12429058 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
12428973 ATGCAAAAAT
*
12428983 AACAAACTTTG-AAATTTAAATGAGATGTATTGG
1 AACAAACTTTGTAAATTTAAATGAGATGTATTAG
* *
12429016 AACAAACTTTGTAATTTTAAATGAGATGTGTTAG
1 AACAAACTTTGTAAATTTAAATGAGATGTATTAG
12429050 AACAAACTT
1 AACAAACTT
12429059 GGAACAAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 11 0.28
34 28 0.72
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (34 bp):
AACAAACTTTGTAAATTTAAATGAGATGTATTAG
Found at i:12429077 original size:45 final size:45
Alignment explanation
Indices: 12429012--12429113 Score: 177
Period size: 45 Copynumber: 2.3 Consensus size: 45
12429002 ATGAGATGTA
**
12429012 TTGGAACAAACTTTGTAATTTTAAATGAGATGTGTTAGAACAAAC
1 TTGGAACAAACTTTCCAATTTTAAATGAGATGTGTTAGAACAAAC
*
12429057 TTGGAACAAACTTTCCAATTTTAAATGAGATGTGTTGGAACAAAC
1 TTGGAACAAACTTTCCAATTTTAAATGAGATGTGTTAGAACAAAC
12429102 TTGGAACAAACT
1 TTGGAACAAACT
12429114 ATGTAATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (45 bp):
TTGGAACAAACTTTCCAATTTTAAATGAGATGTGTTAGAACAAAC
Found at i:12443414 original size:44 final size:43
Alignment explanation
Indices: 12443349--12443477 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 43
12443339 ATATATGATA
* *
12443349 TCGTGTAAGACCTTGTTTGGGACGCTGGCATCGATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACGCTGGCATCGATTTGAGATT
* * *
12443392 TACGTGTAAGACCATGTCTGGGACATCT-GCATCG-TATAAGATT
1 T-CGTGTAAGACCATGTCTGGGAC-GCTGGCATCGATTTGAGATT
* * *
12443435 TCGTGTAAGACCCTATCTGGGATAG-TGGCATCGATATTG-GATT
1 TCGTGTAAGACCATGTCTGGGA-CGCTGGCATCGAT-TTGAGATT
12443478 ACATGTTGGA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 25 0.36
43 14 0.20
44 27 0.39
45 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACGCTGGCATCGATTTGAGATT
Found at i:12443988 original size:24 final size:25
Alignment explanation
Indices: 12443954--12444000 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
12443944 ACTGGTCATA
12443954 GAGAGAATTGAGGA-AGAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
* *
12443978 GAGAGATTTGATGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
12444001 GGAATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:12444554 original size:81 final size:81
Alignment explanation
Indices: 12444419--12444626 Score: 283
Period size: 81 Copynumber: 2.6 Consensus size: 81
12444409 GTAATGAGCC
* * * * * * *
12444419 TAAAATGACAGAAATGCCCTTGAAGGGTAAAGTGACCAAAATACCCTTGAAGGGTAAAATGGCCG
1 TAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCGAAATACCCTTGAAGGGTAAAATGACCA
* *
12444484 AAATACCCTCGAAGGG
66 AAATACCCCCGAAAGG
* **
12444500 TAAAATGACTGAGATACCCTTGAAGGGTAAAATGATCGAAATACCCTTGAAGGGTAAAATGATTA
1 TAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCGAAATACCCTTGAAGGGTAAAATGACCA
12444565 AAATACCCCCGAAAGG
66 AAATACCCCCGAAAGG
*
12444581 TAAAATGACTAAAATA-CCTTCGAAGGGTAAAATGATCGAAATACCC
1 TAAAATGACTGAAATACCCTT-GAAGGGTAAAATGATCGAAATACCC
12444627 CCGTAGGATA
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
80 4 0.04
81 108 0.96
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (81 bp):
TAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCGAAATACCCTTGAAGGGTAAAATGACCA
AAATACCCCCGAAAGG
Found at i:12444638 original size:27 final size:27
Alignment explanation
Indices: 12444419--12444643 Score: 222
Period size: 27 Copynumber: 8.3 Consensus size: 27
12444409 GTAATGAGCC
* *
12444419 TAAAATGA-CAGAAATGCCCTTGAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
* * * *
12444446 TAAAGTGACCAAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
**
12444473 TAAAATGGCCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
12444500 TAAAATGA-CTGAGATACCCTTGAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
*
12444527 TAAAATGATCGAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
** * *
12444554 TAAAATGATTAAAATACCCCCGAAAGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
12444581 TAAAATGA-CTAAAATACCTTCGAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
* * *
12444608 TAAAATGATCGAAATACCCCCGTAGGA
1 TAAAATGATCGAAATACCCTCGAAGGG
12444635 TAAAATGAT
1 TAAAATGAT
12444644 TGTTATACCC
Statistics
Matches: 168, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 164 0.98
28 3 0.02
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCTCGAAGGG
Found at i:12444849 original size:25 final size:26
Alignment explanation
Indices: 12444818--12444890 Score: 103
Period size: 25 Copynumber: 2.8 Consensus size: 26
12444808 TTGCCACATA
* *
12444818 TACTGTTAGTAGCAGCTTTGCTGC-T
1 TACTGTTACTGGCAGCTTTGCTGCAT
12444843 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* *
12444869 CACTATTACTGGCAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
12444891 AAGATATTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 22 0.51
26 21 0.49
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:12444884 original size:26 final size:25
Alignment explanation
Indices: 12444829--12444890 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 25
12444819 ACTGTTAGTA
* *
12444829 GCAGCTTTGCTGCTTACTGTTACTG
1 GCAGCTTTGCTGCTCACTATTACTG
12444854 GCAGCTTTGCTGCATCACTATTACTG
1 GCAGCTTTGCTGC-TCACTATTACTG
12444880 GCAGCTTTGCT
1 GCAGCTTTGCT
12444891 AAGATATTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 13 0.38
26 21 0.62
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.37
Consensus pattern (25 bp):
GCAGCTTTGCTGCTCACTATTACTG
Found at i:12448134 original size:21 final size:21
Alignment explanation
Indices: 12448110--12448157 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
12448100 TTTGTGAAAA
*
12448110 TTTTTAAG-AATTTTATGGTAT
1 TTTTTAAGAAATTTTA-GGGAT
**
12448131 TTTTTTGGAAATTTTAGGGAT
1 TTTTTAAGAAATTTTAGGGAT
12448152 TTTTTA
1 TTTTTA
12448158 GTTTTATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (21 bp):
TTTTTAAGAAATTTTAGGGAT
Found at i:12449457 original size:35 final size:35
Alignment explanation
Indices: 12449414--12449480 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
12449404 ACTGTGATAA
* **
12449414 TTTATAACAGTATATTAAATTAGTATATTACAAAT
1 TTTATAACAATATATTAAACCAGTATATTACAAAT
12449449 TTTATAACAATATATTAAACCAGTATATTACA
1 TTTATAACAATATATTAAACCAGTATATTACA
12449481 TTAATAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.40
Consensus pattern (35 bp):
TTTATAACAATATATTAAACCAGTATATTACAAAT
Found at i:12452086 original size:43 final size:43
Alignment explanation
Indices: 12451946--12452101 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
12451936 GGCTCGTACA
* *
12451946 ATGCCAACGTCCCAGACGTGGTCTTACATGTA-ATCAC-ATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTATA-CACAAT-TCG
* * ** *
12451989 ATGCC-ACTGTCCCAAACAGGGTCTTACACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTATACACAATTCG
** *
12452030 ATGCCAATTTCCCAGACATGGTCTTATACGTATACACAATTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTATACACAATTCG
*
12452073 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
12452102 TAAAATACAT
Statistics
Matches: 88, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
41 26 0.30
42 9 0.10
43 53 0.60
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTATACACAATTCG
Found at i:12452096 original size:84 final size:84
Alignment explanation
Indices: 12451946--12452101 Score: 194
Period size: 84 Copynumber: 1.9 Consensus size: 84
12451936 GGCTCGTACA
* *
12451946 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAAACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAGGGT
12452011 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
** * *
12452030 ATGCCAATTTCCCAGACATGGTCTTATACGT-ATACACA-ATTCGATGCCAAC-GTCCCAGAC-G
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAT-CACATA-TCGATGCC-ACTGTCCCAAACAG
12452091 TGGTCTTACAC
63 -GGTCTTACAC
12452102 TAAAATACAT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
83 4 0.06
84 56 0.90
85 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAGGGT
CTTACACAAATCAAATACG
Found at i:12453404 original size:13 final size:13
Alignment explanation
Indices: 12453372--12453475 Score: 127
Period size: 13 Copynumber: 7.8 Consensus size: 13
12453362 TCACAATAAT
*
12453372 AGTATATTTATAAC
1 AGTATA-TTAAAAC
12453386 AGTATATTAAAAC
1 AGTATATTAAAAC
*
12453399 ATTATATTAAAAC
1 AGTATATTAAAAC
*
12453412 AGTATATTTATAAC
1 AGTATA-TTAAAAC
*
12453426 AGTATACTAAAAC
1 AGTATATTAAAAC
12453439 AGTATATTAAAAC
1 AGTATATTAAAAC
*
12453452 AATATATTAAAAC
1 AGTATATTAAAAC
* *
12453465 AATATAATAAA
1 AGTATATTAAA
12453476 CTAGTTATTT
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
13 62 0.77
14 18 0.22
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.34
Consensus pattern (13 bp):
AGTATATTAAAAC
Found at i:12453427 original size:40 final size:40
Alignment explanation
Indices: 12453372--12453459 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
12453362 TCACAATAAT
* *
12453372 AGTATATTTATAACAGTATATTAAAACATTATATTAAAAC
1 AGTATATTTATAACAGTATACTAAAACAGTATATTAAAAC
12453412 AGTATATTTATAACAGTATACTAAAACAGTATATTAAAAC
1 AGTATATTTATAACAGTATACTAAAACAGTATATTAAAAC
*
12453452 AATATATT
1 AGTATATT
12453460 AAAACAATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (40 bp):
AGTATATTTATAACAGTATACTAAAACAGTATATTAAAAC
Found at i:12454753 original size:7 final size:7
Alignment explanation
Indices: 12454741--12454782 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
12454731 ACACGGGGTC
12454741 GGGAAAT
1 GGGAAAT
12454748 GGGAAAT
1 GGGAAAT
12454755 GGGAAAT
1 GGGAAAT
* *
12454762 GGG-GAG
1 GGGAAAT
*
12454768 GGGAATT
1 GGGAAAT
12454775 GGGAAAT
1 GGGAAAT
12454782 G
1 G
12454783 TAACTGTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.36, C:0.00, G:0.50, T:0.14
Consensus pattern (7 bp):
GGGAAAT
Found at i:12455088 original size:28 final size:28
Alignment explanation
Indices: 12455052--12455144 Score: 75
Period size: 28 Copynumber: 3.3 Consensus size: 28
12455042 TATTTTTTAG
*
12455052 TTTATTTAAACTTTTATAACTATTTCAT
1 TTTACTTAAACTTTTATAACTATTTCAT
** * * *
12455080 TTTACTT-AA-TTAGACATATA-TTTTTTAG
1 TTTACTTAAACTT--TTATA-ACTATTTCAT
*
12455108 TTTATTTAAACTTTTATAACTATTTCAT
1 TTTACTTAAACTTTTATAACTATTTCAT
12455136 TTTACTTAA
1 TTTACTTAA
12455145 TTTTTCTTTA
Statistics
Matches: 46, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 36 0.78
29 3 0.07
30 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (28 bp):
TTTACTTAAACTTTTATAACTATTTCAT
Found at i:12455116 original size:56 final size:56
Alignment explanation
Indices: 12455037--12455146 Score: 220
Period size: 56 Copynumber: 2.0 Consensus size: 56
12455027 CCTAATTTAA
12455037 ACATATATTTTTTAGTTTATTTAAACTTTTATAACTATTTCATTTTACTTAATTAG
1 ACATATATTTTTTAGTTTATTTAAACTTTTATAACTATTTCATTTTACTTAATTAG
12455093 ACATATATTTTTTAGTTTATTTAAACTTTTATAACTATTTCATTTTACTTAATT
1 ACATATATTTTTTAGTTTATTTAAACTTTTATAACTATTTCATTTTACTTAATT
12455147 TTTCTTTATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (56 bp):
ACATATATTTTTTAGTTTATTTAAACTTTTATAACTATTTCATTTTACTTAATTAG
Found at i:12456115 original size:139 final size:140
Alignment explanation
Indices: 12455866--12456191 Score: 401
Period size: 139 Copynumber: 2.4 Consensus size: 140
12455856 GTGAATCAAG
* * * * * *
12455866 GAGTATTTATTCCATATAACGCC-AAATTGG-GAGTGAAGTCAAGAAAATAGTTAACGTAAAATA
1 GAGTATTTGTTCCATATAACGCCGAAATCGGAGAATGAAGTCGAGAAAGTAGTTAACGTAAAACA
* * * * * *
12455929 ATAACCCTTCTTCTTCATTCACCACTACTGAACCTAGTGGGGTTGTTTTCAAACAAACAAGCGAA
66 ATAACCCTTCTTCTTCATCCACCACTACTGAACCCAGCGAGGTTGTTTTCAAACAAACAAACAAA
12455994 AGATTTACAC
131 AGATTTACAC
* *
12456004 GAGTATTTGTTCCA-ATTAACGCCGGAATC-GAGAATGAAGTCGAGAAAGTAGTTAGCAG-AAAA
1 GAGTATTTGTTCCATA-TAACGCCGAAATCGGAGAATGAAGTCGAGAAAGTAGTTAAC-GTAAAA
** * *
12456066 CAATAACCCTTCTTCTTCATCCACCACTGTTGAACCCAGCGAGGTTGTTTTGAGACAAACAAACA
64 CAATAACCCTTCTTCTTCATCCACCACTACTGAACCCAGCGAGGTTGTTTTCAAACAAACAAACA
*
12456131 AAATATTTACAC
129 AAAGATTTACAC
* * *
12456143 GAGTATTTGTTCCATATAACGTCGAAATCGGGGAGTGAAGTCGAGAAAG
1 GAGTATTTGTTCCATATAACGCCGAAATCGGAGAATGAAGTCGAGAAAG
12456192 GAGTATTTGT
Statistics
Matches: 159, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
137 1 0.01
138 21 0.13
139 118 0.74
140 19 0.12
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (140 bp):
GAGTATTTGTTCCATATAACGCCGAAATCGGAGAATGAAGTCGAGAAAGTAGTTAACGTAAAACA
ATAACCCTTCTTCTTCATCCACCACTACTGAACCCAGCGAGGTTGTTTTCAAACAAACAAACAAA
AGATTTACAC
Found at i:12459053 original size:20 final size:19
Alignment explanation
Indices: 12459023--12459104 Score: 76
Period size: 20 Copynumber: 4.2 Consensus size: 19
12459013 CATTAAATAT
12459023 GTGTAACAGAGGCACCAAA
1 GTGTAACAGAGGCACCAAA
12459042 GTGTAGACAGAGGCA-CAAA
1 GTGTA-ACAGAGGCACCAAA
* **
12459061 TGTGTAATCAGAGGAACTGAA
1 -GTGTAA-CAGAGGCACCAAA
* *
12459082 GTGCAAACAGAGGCACCGAA
1 GTG-TAACAGAGGCACCAAA
12459102 GTG
1 GTG
12459105 CAATCTCGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 10 0.19
20 38 0.73
21 4 0.08
ACGTcount: A:0.39, C:0.17, G:0.30, T:0.13
Consensus pattern (19 bp):
GTGTAACAGAGGCACCAAA
Found at i:12459084 original size:40 final size:39
Alignment explanation
Indices: 12459021--12459097 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
12459011 GGCATTAAAT
* * *
12459021 ATGTGTAACAGAGGCACCAAAGTGTAGACAGAGGCACAA
1 ATGTGTAACAGAGGAACCAAAGTGCAAACAGAGGCACAA
**
12459060 ATGTGTAATCAGAGGAACTGAAGTGCAAACAGAGGCAC
1 ATGTGTAA-CAGAGGAACCAAAGTGCAAACAGAGGCAC
12459098 CGAAGTGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 8 0.25
40 24 0.75
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (39 bp):
ATGTGTAACAGAGGAACCAAAGTGCAAACAGAGGCACAA
Found at i:12467547 original size:15 final size:14
Alignment explanation
Indices: 12467519--12467561 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
12467509 AATTAAAGTT
12467519 AAAATAAAGTACATAA
1 AAAATAAA--ACATAA
*
12467535 AAACTTAAAACATAA
1 AAA-ATAAAACATAA
12467550 AAAATAAAACAT
1 AAAATAAAACAT
12467562 CATCTTCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 8 0.33
15 9 0.38
16 3 0.12
17 4 0.17
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAATAAAACATAA
Found at i:12474687 original size:27 final size:27
Alignment explanation
Indices: 12474626--12474679 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
12474616 CTACCAACTC
12474626 ATAAAAATCACCATTTCATGAATTTAA
1 ATAAAAATCACCATTTCATGAATTTAA
12474653 ATAAAAATCACCATTTCATGAATTTAA
1 ATAAAAATCACCATTTCATGAATTTAA
12474680 CTTAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (27 bp):
ATAAAAATCACCATTTCATGAATTTAA
Found at i:12478317 original size:12 final size:14
Alignment explanation
Indices: 12478278--12478322 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
12478268 AAAGTACTTC
*
12478278 TCAAAAGCACTTTT
1 TCAAAAACACTTTT
*
12478292 TC-ACAACACTTTT
1 TCAAAAACACTTTT
12478305 T-AAAAACAC-TTT
1 TCAAAAACACTTTT
12478317 TCAAAA
1 TCAAAA
12478323 GCATTGCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 4 0.15
13 20 0.77
14 2 0.08
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.33
Consensus pattern (14 bp):
TCAAAAACACTTTT
Found at i:12479773 original size:40 final size:40
Alignment explanation
Indices: 12479729--12479965 Score: 384
Period size: 40 Copynumber: 5.9 Consensus size: 40
12479719 AATTAATGTC
12479729 TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCT
*
12479769 TGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCT
*
12479809 TGAATGCACATTCGTGCCCCTGTTTGCACTTCGGTACCCT
1 TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCT
* * *
12479849 TGAATGCACATTCGTGCCCCTATTTGTACTACGGTACCCC
1 TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCT
* * *
12479889 TGAATGCACATTCATGCCCCCGTTTGTACTTCGGTACCCC
1 TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCT
* *
12479929 TGAATGCACATTCATGCCCCTGTTAGTACTTCGGTAC
1 TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTAC
12479966 TCCTGAAGGC
Statistics
Matches: 184, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 184 1.00
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (40 bp):
TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:12479856 original size:20 final size:21
Alignment explanation
Indices: 12479758--12479862 Score: 92
Period size: 20 Copynumber: 5.2 Consensus size: 21
12479748 CTGTTTGTAC
12479758 TTCGGTACCCTTGAATGCACA
1 TTCGGTACCCTTGAATGCACA
* * ** *
12479779 TTC-GTGCCCCTGTTTGTAC-
1 TTCGGTACCCTTGAATGCACA
*
12479798 TTTGGTACCCTTGAATGCACA
1 TTCGGTACCCTTGAATGCACA
* * **
12479819 TTC-GTGCCCCTGTTTGCAC-
1 TTCGGTACCCTTGAATGCACA
12479838 TTCGGTACCCTTGAATGCACA
1 TTCGGTACCCTTGAATGCACA
12479859 TTCG
1 TTCG
12479863 TGCCCCTATT
Statistics
Matches: 60, Mismatches: 20, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
19 5 0.08
20 46 0.77
21 9 0.15
ACGTcount: A:0.16, C:0.30, G:0.20, T:0.34
Consensus pattern (21 bp):
TTCGGTACCCTTGAATGCACA
Found at i:12479908 original size:20 final size:20
Alignment explanation
Indices: 12479885--12479950 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
12479875 TACTACGGTA
12479885 CCCCTGAATGCACATTCATG
1 CCCCTGAATGCACATTCATG
* ** * * *
12479905 CCCCCGTTTGTAC-TTCGGTA
1 CCCCTGAATGCACATTC-ATG
12479925 CCCCTGAATGCACATTCATG
1 CCCCTGAATGCACATTCATG
12479945 CCCCTG
1 CCCCTG
12479951 TTAGTACTTC
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.18, C:0.38, G:0.17, T:0.27
Consensus pattern (20 bp):
CCCCTGAATGCACATTCATG
Found at i:12493494 original size:18 final size:17
Alignment explanation
Indices: 12493473--12493520 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
12493463 TATTATTTTT
* *
12493473 ATTATTATTATATTACTC
1 ATTATTTTTATATCA-TC
12493491 ATTATTTTTATCATCATC
1 ATTATTTTTAT-ATCATC
12493509 ATTATTTTTATA
1 ATTATTTTTATA
12493521 CACTTACACG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.85
19 3 0.11
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTTTTATATCATC
Found at i:12493653 original size:47 final size:46
Alignment explanation
Indices: 12493584--12493673 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 46
12493574 ATGTGCATCT
* * *
12493584 TACATATATATATATGCATTATTATTTTATTTT-CATATTTTTTTA
1 TACATATATATATATACATTATTAATATATTTTACATATTTTTTTA
* *
12493629 TACATATATATACTCATACTTTATTAATATATTTTACTTATTTTT
1 TACATATATATA-T-ATACATTATTAATATATTTTACATATTTTT
12493674 ATTTATATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
45 12 0.32
46 1 0.03
47 16 0.43
48 8 0.22
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (46 bp):
TACATATATATATATACATTATTAATATATTTTACATATTTTTTTA
Found at i:12494843 original size:18 final size:18
Alignment explanation
Indices: 12494820--12494859 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12494810 TTAAACCATT
*
12494820 TATAAATATTTT-TAATAA
1 TATAAA-ATTTTAAAATAA
12494838 TATAAAATTTTAAAATAA
1 TATAAAATTTTAAAATAA
12494856 TATA
1 TATA
12494860 TTAAAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATAAAATTTTAAAATAA
Found at i:12496179 original size:14 final size:14
Alignment explanation
Indices: 12496160--12496199 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
12496150 TTGATTGCTA
12496160 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
12496174 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
12496188 GGAAAATGTTTT
1 GTAAAATGTTTT
12496200 ACTTTTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:12496352 original size:20 final size:19
Alignment explanation
Indices: 12496327--12496373 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
12496317 ACATATATTA
12496327 ATATATATTAATAAATTTTT
1 ATATATATTAAT-AATTTTT
* *
12496347 ATATAT-TAAATTATTTTT
1 ATATATATTAATAATTTTT
*
12496365 ACATATATT
1 ATATATATT
12496374 GCAATGATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 11 0.50
19 5 0.23
20 6 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATATTAATAATTTTT
Found at i:12496970 original size:21 final size:21
Alignment explanation
Indices: 12496946--12496990 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
12496936 TTTGTTTACT
*
12496946 AGTTTTCTCTTTGGAATTTTG
1 AGTTTTCTATTTGGAATTTTG
* **
12496967 AGTTTTTTATTTGGGGTTTTG
1 AGTTTTCTATTTGGAATTTTG
12496988 AGT
1 AGT
12496991 AATGTACAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.04, G:0.24, T:0.58
Consensus pattern (21 bp):
AGTTTTCTATTTGGAATTTTG
Found at i:12503725 original size:22 final size:22
Alignment explanation
Indices: 12503697--12503748 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
12503687 CCGTGCTCTT
12503697 TGATTAGCTCTTATGTCCTATC
1 TGATTAGCTCTTATGTCCTATC
* *
12503719 TGATTAGCTCTTATGTGCTATT
1 TGATTAGCTCTTATGTCCTATC
*
12503741 TGTTTAGC
1 TGATTAGC
12503749 ACTTTGATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (22 bp):
TGATTAGCTCTTATGTCCTATC
Found at i:12503772 original size:20 final size:20
Alignment explanation
Indices: 12503747--12503803 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
12503737 TATTTGTTTA
*
12503747 GCACTTTGATGCCTTTGATT
1 GCACTTTGATGCCTCTGATT
* *
12503767 GCACTTTGGTGCCTCTGTTT
1 GCACTTTGATGCCTCTGATT
* *
12503787 GCACTTCGTTGCCTCTG
1 GCACTTTGATGCCTCTG
12503804 GTTACACTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (20 bp):
GCACTTTGATGCCTCTGATT
Found at i:12503811 original size:20 final size:20
Alignment explanation
Indices: 12503776--12503813 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12503766 TGCACTTTGG
* *
12503776 TGCCTCTGTTTGCACTTCGT
1 TGCCTCTGGTTACACTTCGT
12503796 TGCCTCTGGTTACACTTC
1 TGCCTCTGGTTACACTTC
12503814 AATAGCTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.32, G:0.18, T:0.42
Consensus pattern (20 bp):
TGCCTCTGGTTACACTTCGT
Found at i:12510601 original size:27 final size:26
Alignment explanation
Indices: 12510545--12510604 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
12510535 CTAATAGATG
*
12510545 AAAATGACTGAAATATCCCATAGGGT
1 AAAATGACTGAAATACCCCATAGGGT
12510571 AAAATGA-TCGAAATACCCTCATAGGGT
1 AAAATGACT-GAAATACCC-CATAGGGT
12510598 AAAATGA
1 AAAATGA
12510605 ATGTTATACC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 1 0.03
26 15 0.48
27 15 0.48
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (26 bp):
AAAATGACTGAAATACCCCATAGGGT
Found at i:12510615 original size:27 final size:27
Alignment explanation
Indices: 12510545--12510604 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
12510535 CTAATAGATG
*
12510545 AAAATGA-CTGAAATATCC-CATAGGGT
1 AAAATGATC-GAAATACCCTCATAGGGT
12510571 AAAATGATCGAAATACCCTCATAGGGT
1 AAAATGATCGAAATACCCTCATAGGGT
12510598 AAAATGA
1 AAAATGA
12510605 ATGTTATACC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (27 bp):
AAAATGATCGAAATACCCTCATAGGGT
Found at i:12510869 original size:26 final size:26
Alignment explanation
Indices: 12510839--12510919 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
12510829 TTTGCCATAT
* *
12510839 ATACTGTTACTGGCAACTTTGTTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
12510865 ATACTGATACTGGCAGCTCTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
12510891 ATGCTATTACTTGG-AGCTTTGCTGCG
1 ATACTGTTAC-TGGCAGCTTTGCTGCG
12510917 ATA
1 ATA
12510920 TTGGTGTGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 42 0.93
27 3 0.07
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:12511011 original size:58 final size:58
Alignment explanation
Indices: 12510921--12511051 Score: 199
Period size: 58 Copynumber: 2.3 Consensus size: 58
12510911 GCTGCGATAT
* * *
12510921 TGGTGTGTTGGCTAGGTGGGTCAATTTTATCCCTACATGGTGTGTTGGTGGTACATAG
1 TGGTGTGTTGGCTGGGTGGGTCAATTTTATCCCCACATGGTGTGTTGGTGGTACAGAG
** **
12510979 TGGTGTGTTGGCTGGGTGGGTTGATTTTATCCCCACATGGTGTGTTGGTGGTATGGAG
1 TGGTGTGTTGGCTGGGTGGGTCAATTTTATCCCCACATGGTGTGTTGGTGGTACAGAG
12511037 TGGTGTGTTGGCTGG
1 TGGTGTGTTGGCTGG
12511052 ATTGTGATGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.11, C:0.11, G:0.40, T:0.38
Consensus pattern (58 bp):
TGGTGTGTTGGCTGGGTGGGTCAATTTTATCCCCACATGGTGTGTTGGTGGTACAGAG
Found at i:12511119 original size:28 final size:28
Alignment explanation
Indices: 12511079--12511257 Score: 265
Period size: 28 Copynumber: 6.4 Consensus size: 28
12511069 TATTGCACTG
12511079 CACTGTTACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
12511107 CACTGTTACTGTATTGAGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
12511135 CACTGATT-CTGTATTGGGCTAAGGCCCT
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
*
12511163 CACTGATT-CTGTATTGGACTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* *
12511191 CACTGTTACTGTATTAGGCTAAGGGCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
12511219 CACTGTGACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
12511247 CACTG-TACTGT
1 CACTGTTACTGT
12511258 CTTTGAATAG
Statistics
Matches: 137, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
27 7 0.05
28 128 0.93
29 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:12520725 original size:32 final size:32
Alignment explanation
Indices: 12520684--12520747 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
12520674 CATTCTAAGA
12520684 AAGGATGCCTTAAAATGAACCCCTGAAACTAT
1 AAGGATGCCTTAAAATGAACCCCTGAAACTAT
* *
12520716 AAGGATGCCTTCAAATGAATCCCTGAAACTAT
1 AAGGATGCCTTAAAATGAACCCCTGAAACTAT
12520748 TTTAGATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (32 bp):
AAGGATGCCTTAAAATGAACCCCTGAAACTAT
Found at i:12525646 original size:74 final size:74
Alignment explanation
Indices: 12525557--12525707 Score: 284
Period size: 74 Copynumber: 2.0 Consensus size: 74
12525547 CTAAATTGGG
*
12525557 AAAAATGTCATTTCATGGCAATAGAAGGCATTGTGTTAGGCCATCATATCTCTCTTCAAGGAATT
1 AAAAATGTCATTTCATGGCAATAGAAGGCATTGTGTTAGGCCATCATATCTCTCGTCAAGGAATT
*
12525622 GAAGTCAAC
66 GAAATCAAC
12525631 AAAAATGTCATTTCATGGCAATAGAAGGCATTGTGTTAGGCCATCATATCTCTCGTCAAGGAATT
1 AAAAATGTCATTTCATGGCAATAGAAGGCATTGTGTTAGGCCATCATATCTCTCGTCAAGGAATT
12525696 GAAATCAAC
66 GAAATCAAC
12525705 AAA
1 AAA
12525708 GCTAAAGTGG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (74 bp):
AAAAATGTCATTTCATGGCAATAGAAGGCATTGTGTTAGGCCATCATATCTCTCGTCAAGGAATT
GAAATCAAC
Found at i:12529972 original size:17 final size:16
Alignment explanation
Indices: 12529950--12529984 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
12529940 GTTAGTGAAC
*
12529950 ATTGTCATTGCATTGTT
1 ATTGTCATCGCATT-TT
12529967 ATTGTCATCGCATTTT
1 ATTGTCATCGCATTTT
12529983 AT
1 AT
12529985 GCATGATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (16 bp):
ATTGTCATCGCATTTT
Found at i:12533878 original size:26 final size:26
Alignment explanation
Indices: 12533848--12533904 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
12533838 CTCTTTGGTG
* * *
12533848 TAAAGATGAAAGTATTCGCCCAATGT
1 TAAAGAAGAAAGTATACGCCCAATAT
*
12533874 TAAAGAAGAAAGTATACGCCCGATAT
1 TAAAGAAGAAAGTATACGCCCAATAT
12533900 TAAAG
1 TAAAG
12533905 TTCACCCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (26 bp):
TAAAGAAGAAAGTATACGCCCAATAT
Found at i:12542344 original size:19 final size:19
Alignment explanation
Indices: 12542317--12542391 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
12542307 AATTTTCAAG
* *
12542317 GATAAGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
*
12542336 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
12542355 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
12542376 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
12542392 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:12542413 original size:23 final size:22
Alignment explanation
Indices: 12542330--12542414 Score: 90
Period size: 19 Copynumber: 4.0 Consensus size: 22
12542320 AAGCAATATT
12542330 AGATATGATATGCAATCTTA-A
1 AGATATGATATGCAATCTTAGA
*
12542351 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGCAATCTTAGA
12542370 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
12542392 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
12542415 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.28
21 15 0.28
22 10 0.19
23 12 0.22
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:12543009 original size:36 final size:36
Alignment explanation
Indices: 12542934--12543009 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
12542924 CATACATGCA
*
12542934 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
12542971 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
12543007 TTT
1 TTT
12543010 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:12543126 original size:23 final size:22
Alignment explanation
Indices: 12543100--12543143 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
12543090 ATAATTCACA
*
12543100 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
12543123 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
12543144 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:12544352 original size:3 final size:3
Alignment explanation
Indices: 12544344--12544373 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12544334 TATGTTACCT
12544344 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12544374 AGCTATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12545799 original size:32 final size:32
Alignment explanation
Indices: 12545708--12545801 Score: 88
Period size: 31 Copynumber: 3.0 Consensus size: 32
12545698 ATTGAAATTA
* * *
12545708 CTCACGTTAATATTAAATTAATAAAATACTA-
1 CTCACGTTAATATTAAATTCATAAATTAATAT
* * * *
12545739 -TCAAGATCAATATTTAA-TCA-AATTTAATAT
1 CTCACG-TTAATATTAAATTCATAAATTAATAT
12545769 CTCACGTTAATATTAAATTCATAAATTAATAT
1 CTCACGTTAATATTAAATTCATAAATTAATAT
12545801 C
1 C
12545802 AATATAAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
29 6 0.13
30 15 0.32
31 16 0.34
32 10 0.21
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (32 bp):
CTCACGTTAATATTAAATTCATAAATTAATAT
Found at i:12545823 original size:61 final size:61
Alignment explanation
Indices: 12545708--12545829 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
12545698 ATTGAAATTA
* * * * *
12545708 CTCACGTTAATATTAAATTAATAAAATACTATCAAGATCAATATTTAATCAAATTTAATAT
1 CTCACGTTAATATTAAATTAATAAAATAATATCAAGATAAAAATTAAATCAAATTAAATAT
* * * *
12545769 CTCACGTTAATATTAAATTCATAAATTAATATCAATATAAAAATTAAATTAAATTAAATAT
1 CTCACGTTAATATTAAATTAATAAAATAATATCAAGATAAAAATTAAATCAAATTAAATAT
12545830 TAAATTTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (61 bp):
CTCACGTTAATATTAAATTAATAAAATAATATCAAGATAAAAATTAAATCAAATTAAATAT
Found at i:12545844 original size:17 final size:18
Alignment explanation
Indices: 12545806--12545850 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
12545796 AATATCAATA
12545806 TAAAA-ATTAAATTAAAT
1 TAAAATATTAAATTAAAT
*
12545823 T-AAATATTAAATT-TAT
1 TAAAATATTAAATTAAAT
12545839 TAAAATAATTAA
1 TAAAAT-ATTAA
12545851 TATGATCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 13 0.54
18 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAATATTAAATTAAAT
Found at i:12549338 original size:43 final size:43
Alignment explanation
Indices: 12549263--12549395 Score: 137
Period size: 43 Copynumber: 3.1 Consensus size: 43
12549253 AAACACATAT
* * * * *
12549263 ATCACATA-CAATGCC-ATATCCCAGATATGGTCTTACATGTT
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGTA
* *
12549304 ATCACATATCGATGTCACA-GTCCCAGACAGGGTCTTACACGTA
1 ATCACATATCGATGCCA-ATGTCCCAGACATGGTCTTACACGTA
* * **
12549347 ATCTCATATCGATGCCAATGACCCAGACATGGTCTTACACAAA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGTA
12549390 ATCACA
1 ATCACA
12549396 CCTCAGGAGT
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
41 8 0.11
42 6 0.08
43 59 0.80
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (43 bp):
ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGTA
Found at i:12564872 original size:26 final size:26
Alignment explanation
Indices: 12564843--12564894 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
12564833 ACCAATGAAA
*
12564843 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
12564869 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
12564895 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:12564887 original size:103 final size:104
Alignment explanation
Indices: 12564708--12564972 Score: 410
Period size: 103 Copynumber: 2.6 Consensus size: 104
12564698 AACCGTTATT
* * *
12564708 GGTGGATCTCGCACTTAGCACCACCACTGAATTGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
*
12564773 ATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
12564811 GGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 GGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
12564875 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* * **
12564915 GGTGGATCA-CGCACATAGCACCACCAATGAACCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
12564973 TTTATATACA
Statistics
Matches: 150, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
103 81 0.54
104 68 0.45
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:12567864 original size:24 final size:21
Alignment explanation
Indices: 12567829--12567871 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
12567819 GATCGATTAA
12567829 AAAATAAGATGTGTGGTATTGAG
1 AAAATAAGATGT-T-GTATTGAG
*
12567852 AAAATACATATGTTGTATTG
1 AAAATA-AGATGTTGTATTG
12567872 TTCTATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 6 0.33
23 7 0.39
24 5 0.28
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (21 bp):
AAAATAAGATGTTGTATTGAG
Found at i:12572499 original size:17 final size:18
Alignment explanation
Indices: 12572479--12572539 Score: 74
Period size: 17 Copynumber: 3.4 Consensus size: 18
12572469 ATTTTAATAG
12572479 ATTTAATATT-AAGTTTA
1 ATTTAATATTAAAGTTTA
12572496 ATTTAATATTAAAGTGATT-
1 ATTTAATATTAAAGT--TTA
12572515 ATCTTAATATTAAAG-TTA
1 AT-TTAATATTAAAGTTTA
12572533 ATTTAAT
1 ATTTAAT
12572540 GTTTATCTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 17 0.44
18 6 0.15
19 2 0.05
20 14 0.36
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (18 bp):
ATTTAATATTAAAGTTTA
Found at i:12581366 original size:30 final size:32
Alignment explanation
Indices: 12581312--12581372 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
12581302 TAAATTAGTT
* * *
12581312 AAAATTAGTAATATTATTACAAAAA-TGTAAA
1 AAAATTAGTAAAATTATAAAAAAAATTGTAAA
12581343 AAAATT-GTAAAATTATAAAAAAAATTGTAA
1 AAAATTAGTAAAATTATAAAAAAAATTGTAA
12581373 TTTTTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (32 bp):
AAAATTAGTAAAATTATAAAAAAAATTGTAAA
Found at i:12581527 original size:15 final size:15
Alignment explanation
Indices: 12581507--12581538 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12581497 TATTTTTTAA
12581507 AATTTATAATTATAT
1 AATTTATAATTATAT
*
12581522 AATTTATAATTTTAT
1 AATTTATAATTATAT
12581537 AA
1 AA
12581539 AAATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTTATAATTATAT
Found at i:12581902 original size:15 final size:15
Alignment explanation
Indices: 12581882--12581910 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12581872 TATTTTATTG
12581882 TAAATTTTATTTTTA
1 TAAATTTTATTTTTA
12581897 TAAATTTTATTTTT
1 TAAATTTTATTTTT
12581911 TTTAGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TAAATTTTATTTTTA
Found at i:12581919 original size:16 final size:16
Alignment explanation
Indices: 12581867--12581922 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
12581857 ATTTATTTTC
* *
12581867 AATTATATTTTATTGTA
1 AATTTTATTTT-TTATA
12581884 AATTTTA-TTTTTATA
1 AATTTTATTTTTTATA
*
12581899 AATTTTATTTTTTTTA
1 AATTTTATTTTTTATA
*
12581915 GATTTTAT
1 AATTTTAT
12581923 ATATATTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.32
16 17 0.50
17 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (16 bp):
AATTTTATTTTTTATA
Found at i:12592580 original size:42 final size:42
Alignment explanation
Indices: 12592516--12592650 Score: 164
Period size: 42 Copynumber: 3.2 Consensus size: 42
12592506 CAGGTTTATA
* * *
12592516 CTTCGGTTTAGCCAATGATGCACTTATGTGCTAGTATATTTG
1 CTTCAGTTTATCCAATGATGCACTTATGTGCCAGTATATTTG
* * *
12592558 CTTCAGTTTATCCGATGATGCACTTACGTTCCAGTATATTTG
1 CTTCAGTTTATCCAATGATGCACTTATGTGCCAGTATATTTG
** *
12592600 CTTCAGTTTATCCAATGATG-TGTTATGCTTGCCAGTATAATTG
1 CTTCAGTTTATCCAATGATGCACTTATG--TGCCAGTATATTTG
12592643 CTTCAGTT
1 CTTCAGTT
12592651 CATTTGATGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 4 0.05
42 55 0.70
43 20 0.25
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (42 bp):
CTTCAGTTTATCCAATGATGCACTTATGTGCCAGTATATTTG
Found at i:12592751 original size:43 final size:43
Alignment explanation
Indices: 12592699--12592796 Score: 178
Period size: 43 Copynumber: 2.3 Consensus size: 43
12592689 CGGCTTGCTC
*
12592699 GATGATGCACTATGTGTGTCAGTATCTTTTTTTTAATATATCT
1 GATGATGCACTATGTGTGTCAGTATCTTTTCTTTAATATATCT
*
12592742 GATGTTGCACTATGTGTGTCAGTATCTTTTCTTTAATATATCT
1 GATGATGCACTATGTGTGTCAGTATCTTTTCTTTAATATATCT
12592785 GATGATGCACTA
1 GATGATGCACTA
12592797 CAGTGCCAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.46
Consensus pattern (43 bp):
GATGATGCACTATGTGTGTCAGTATCTTTTCTTTAATATATCT
Found at i:12594698 original size:16 final size:16
Alignment explanation
Indices: 12594674--12594727 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
12594664 TTTGGTTCGC
* *
12594674 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
12594690 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
12594706 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
12594722 TGTAAT
1 TGTAAT
12594728 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:12594770 original size:45 final size:44
Alignment explanation
Indices: 12594706--12594800 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 44
12594696 GGAATAGAGG
12594706 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
12594751 TGTAATGGAATAGAGGTGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGAAATCAACTGTTTGGTTGAA
12594795 TGTAAT
1 TGTAAT
12594801 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 22 0.48
45 24 0.52
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGTGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:12594981 original size:18 final size:17
Alignment explanation
Indices: 12594960--12594994 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12594950 TTATTATTAA
*
12594960 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12594978 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12594995 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12595124 original size:16 final size:16
Alignment explanation
Indices: 12595087--12595128 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12595077 TTAATCATAT
*
12595087 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
12595103 TT-AAATATATTATAA
1 TTAAAATATATTATAA
12595118 TTAAAATATAT
1 TTAAAATATAT
12595129 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:12595135 original size:14 final size:15
Alignment explanation
Indices: 12595096--12595137 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12595086 TTTAAACATA
*
12595096 ATTATTATTAAATAT
1 ATTATAATTAAATAT
12595111 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
12595125 A-TATAATTTAATA
1 ATTATAATTAAATA
12595138 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:12595148 original size:147 final size:147
Alignment explanation
Indices: 12594881--12595153 Score: 512
Period size: 147 Copynumber: 1.9 Consensus size: 147
12594871 ATGATTATTG
*
12594881 TTATTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTTAAC
1 TTATTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAC
*
12594946 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
66 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
12595011 AAATTTGTTTTGGTAAA
131 AAATTTGTTTTGGTAAA
12595028 TTATT-TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
1 TTATTGTTA-TTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
12595092 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
65 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
12595154 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
146 3 0.02
147 120 0.98
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:12595226 original size:120 final size:121
Alignment explanation
Indices: 12595085--12595382 Score: 496
Period size: 120 Copynumber: 2.5 Consensus size: 121
12595075 ATTTAATCAT
* *
12595085 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
12595150 ATTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATA-AA
12595207 A-TT-AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
12595270 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATAAA
66 ATTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAA
* *
12595326 ATTTGAA-ATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAA-TAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
12595383 TAAAATAATT
Statistics
Matches: 168, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
119 3 0.02
120 157 0.93
121 7 0.04
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAA
Found at i:12595395 original size:28 final size:27
Alignment explanation
Indices: 12595319--12595395 Score: 70
Period size: 28 Copynumber: 2.9 Consensus size: 27
12595309 TGATACTATA
*
12595319 AAATAAAATTTGAAATAATTA-ATATT
1 AAATAAAATTTAAAATAATTATATATT
* *
12595345 AAATATATTTTAATTAA-AA-TATATGATT
1 AAATAAAATTTAA--AATAATTATAT-ATT
*
12595373 TAATAAAATTTAAAATAATTATA
1 AAATAAAATTTAAAATAATTATA
12595396 ACTAATAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
26 14 0.36
27 6 0.15
28 19 0.49
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (27 bp):
AAATAAAATTTAAAATAATTATATATT
Found at i:12595492 original size:101 final size:93
Alignment explanation
Indices: 12595325--12595605 Score: 286
Period size: 91 Copynumber: 3.0 Consensus size: 93
12595315 TATAAAATAA
* * * *
12595325 AATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATT-TAAAA
1 AATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTCT----
* * * *
12595388 TAATTATAACTAATAAATTATATTTTATGAATTTGTAT
61 T-A--ATAA-T-ATAAATTTTATTATATGAATTTATAC
* *
12595426 AATTTAAAATAA-TAATTATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 AATTTAAAATAATTAA-TATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAAT
*
12595490 -A-ATAAATTTTCTTATATGAATTTATAC
65 AATATAAATTTTATTATATGAATTTATAC
* *
12595517 AATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATA
1 AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATA
**
12595582 ATA-AAATGGTATTATATGAATTTA
66 ATATAAATTTTATTATATGAATTTA
12595606 CTAAAATCAA
Statistics
Matches: 156, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
91 77 0.49
92 22 0.14
93 1 0.01
94 1 0.01
95 2 0.01
98 1 0.01
100 6 0.04
101 45 0.29
102 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (93 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATA
ATATAAATTTTATTATATGAATTTATAC
Found at i:12595493 original size:91 final size:91
Alignment explanation
Indices: 12595398--12595605 Score: 292
Period size: 91 Copynumber: 2.3 Consensus size: 91
12595388 TAATTATAAC
* * * *
12595398 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
12595462 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * *
12595489 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
12595554 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
**
12595580 TAATAAAATGGTATTATATGAATTTA
1 TAAT-AAATTATATTATATGAATTTA
12595606 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 82 0.80
92 21 0.20
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:12595580 original size:47 final size:46
Alignment explanation
Indices: 12595448--12595586 Score: 126
Period size: 47 Copynumber: 3.0 Consensus size: 46
12595438 TAATTATTAC
* *
12595448 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAAT-ATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
12595495 AT-T--TTCTTATATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
12595539 ATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATA-TGATATATAATTTCATAAAATTCTTAATAATAA
12595586 A
1 A
12595587 ATGGTATTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 14 0.20
47 22 0.32
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (46 bp):
ATATAATTTAATATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:12597027 original size:15 final size:15
Alignment explanation
Indices: 12597007--12597037 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12596997 ATATTATGTA
*
12597007 TAATTGACGTAAAAT
1 TAATTGACCTAAAAT
12597022 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
12597037 T
1 T
12597038 TGAAGGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (15 bp):
TAATTGACCTAAAAT
Done.