Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 75 of 167
Found at i:23814089 original size:20 final size:20
Alignment explanation
Indices: 23814066--23814111 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
23814056 GTGTAGTCAC
23814066 ACACGCCCGTGTGGCTAGGG
1 ACACGCCCGTGTGGCTAGGG
23814086 ACACGCCCGTGTGGCTAGGG
1 ACACGCCCGTGTGGCTAGGG
23814106 ACACGC
1 ACACGC
23814112 TCGGTGCCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.37, T:0.13
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTAGGG
Found at i:23827754 original size:45 final size:45
Alignment explanation
Indices: 23827637--23827760 Score: 167
Period size: 45 Copynumber: 2.8 Consensus size: 45
23827627 TCGATGTCCC
* * * * * *
23827637 AGACATGGTCTTACACGTAACCACATAGATCAATTCCAACGTCCT
1 AGACATGGTCTTACACGAAAACACATATATCGATGCCAACCTCCT
*
23827682 AGACGTGGTCTTACACGAAAACACATATATCGATGCCAACCTCCT
1 AGACATGGTCTTACACGAAAACACATATATCGATGCCAACCTCCT
* *
23827727 AGACCTGGTCTTACACGAAAACACATATCTCGAT
1 AGACATGGTCTTACACGAAAACACATATATCGAT
23827761 CCTATGGTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (45 bp):
AGACATGGTCTTACACGAAAACACATATATCGATGCCAACCTCCT
Found at i:23829981 original size:34 final size:34
Alignment explanation
Indices: 23829943--23830009 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
23829933 TGGTGTACAC
*
23829943 ATAGTTTTATGTAAATTTGGGCTAAATGCGCCAT
1 ATAGTTTTATCTAAATTTGGGCTAAATGCGCCAT
*
23829977 ATAGTTTTATCTAAATTTGGTCTAAATGCGCCA
1 ATAGTTTTATCTAAATTTGGGCTAAATGCGCCA
23830010 CATGAGCGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (34 bp):
ATAGTTTTATCTAAATTTGGGCTAAATGCGCCAT
Found at i:23830234 original size:27 final size:27
Alignment explanation
Indices: 23830137--23830266 Score: 102
Period size: 27 Copynumber: 4.9 Consensus size: 27
23830127 AGACCGCGAT
* * *
23830137 TTGTAAAATTATCGAAATACCC-CTAA
1 TTGTAAAATTACCGAAATACCCTCGAC
* **
23830163 TTTTAAAATTACCGAAATACCCTCGGG
1 TTGTAAAATTACCGAAATACCCTCGAC
* * *
23830190 TTGTAAAATTGCCAAAATACCCTTGAC
1 TTGTAAAATTACCGAAATACCCTCGAC
* * * *
23830217 TTGTGAAATTACTGAAATATCCCT-AAT
1 TTGTAAAATTACCGAAATA-CCCTCGAC
* *
23830244 TTGTAAAATAACCGTAATACCCT
1 TTGTAAAATTACCGAAATACCCT
23830267 TGTAAGGTAA
Statistics
Matches: 81, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
26 24 0.30
27 53 0.65
28 4 0.05
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTCGAC
Found at i:23830307 original size:81 final size:81
Alignment explanation
Indices: 23830139--23830309 Score: 179
Period size: 81 Copynumber: 2.1 Consensus size: 81
23830129 ACCGCGATTT
* ***
23830139 GTAAAATTA-TCGAAATACCCCTAATTTTAAAATTACCGAAATACCCTCGGGTTGTAAAATTGCC
1 GTAAAATTACTCGAAATACCCCTAATTTTAAAATAACCGAAATACCCTCGGAAGGTAAAATTGCC
*
23830203 AAAATACCCTTGACTT
66 AAAATACCCTTGACTG
* * * * *
23830219 GTGAAATTACT-GAAATATCCCTAATTTGTAAAATAACCGTAATACCCTTGTAAGGTAAAA-TGA
1 GTAAAATTACTCGAAATACCCCTAATTT-TAAAATAACCGAAATACCCTCGGAAGGTAAAATTG-
**
23830282 CCGTAATACCCTTGTA-TG
64 CCAAAATACCCTTG-ACTG
23830300 GTAAAATTAC
1 GTAAAATTAC
23830310 GATTATGCCC
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
80 25 0.34
81 48 0.65
82 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (81 bp):
GTAAAATTACTCGAAATACCCCTAATTTTAAAATAACCGAAATACCCTCGGAAGGTAAAATTGCC
AAAATACCCTTGACTG
Found at i:23830321 original size:27 final size:27
Alignment explanation
Indices: 23830246--23830306 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
23830236 TCCCTAATTT
*
23830246 GTAAAATAACCGTAATACCCTTGTAAG
1 GTAAAATGACCGTAATACCCTTGTAAG
*
23830273 GTAAAATGACCGTAATACCCTTGTATG
1 GTAAAATGACCGTAATACCCTTGTAAG
23830300 GTAAAAT
1 GTAAAAT
23830307 TACGATTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCTTGTAAG
Found at i:23830480 original size:27 final size:25
Alignment explanation
Indices: 23830449--23830523 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 25
23830439 AGGAAGTATT
*
23830449 ATACTAGTGACTATGCCACATTCACTG
1 ATACT-GTGGCTATGCCACATT-ACTG
*
23830476 TTACTGTTGGCTATGCCACAATTACTG
1 ATACTG-TGGCTATGCCAC-ATTACTG
23830503 ATACTGGTGGCT-TGCCACATT
1 ATACT-GTGGCTATGCCACATT
23830524 TACTATTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 3 0.07
26 7 0.17
27 28 0.67
28 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (25 bp):
ATACTGTGGCTATGCCACATTACTG
Found at i:23830757 original size:33 final size:33
Alignment explanation
Indices: 23830714--23830798 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 33
23830704 TTAGGCCCAC
*
23830714 ACTGTTACTGTATAGGGCTAAAGCCCAGATTGT
1 ACTGTTACTGTATAGGGCTAAAGCCCAGACTGT
* **
23830747 TCTGTTACTGTATAGGGCTAGGGCCCAGACTGT
1 ACTGTTACTGTATAGGGCTAAAGCCCAGACTGT
* *
23830780 ACTGATACTGGATAGGGCT
1 ACTGTTACTGTATAGGGCT
23830799 CAGGTCTAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (33 bp):
ACTGTTACTGTATAGGGCTAAAGCCCAGACTGT
Found at i:23835415 original size:17 final size:19
Alignment explanation
Indices: 23835389--23835425 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
23835379 AACCGATCCG
23835389 ATACGCTCT-AT-AATCTC
1 ATACGCTCTAATAAATCTC
*
23835406 ATACGGTCTAATAAATCTC
1 ATACGCTCTAATAAATCTC
23835425 A
1 A
23835426 GACTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (19 bp):
ATACGCTCTAATAAATCTC
Found at i:23842699 original size:38 final size:38
Alignment explanation
Indices: 23842654--23842814 Score: 184
Period size: 38 Copynumber: 4.2 Consensus size: 38
23842644 GGCTTAAAGA
*
23842654 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGAATTATATCCGGGTTAAAT
23842692 CCCGCAGGCTTCGTGCTGGTAA-TATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGG-AATTATATCCGGGTTAAAT
* *
23842730 CCCGCAGGCTTCGTACTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
* * * * * *
23842768 CCTGCA-GCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 CCCGCAGGCTTCGTGCTGGAATTATATCCG-GGTTAAA-T
23842807 CCCGCAGG
1 CCCGCAGG
23842815 TTTTGTGTTG
Statistics
Matches: 107, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
37 21 0.20
38 77 0.72
39 8 0.07
40 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
Found at i:23842755 original size:76 final size:77
Alignment explanation
Indices: 23842645--23842814 Score: 211
Period size: 76 Copynumber: 2.2 Consensus size: 77
23842635 GTGTATTCGG
* * * * *
23842645 GCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCT
1 GCTTAAAGTCCCGCAGGCT-TCGTACTGGAATTATATCCGGGTTAAATCCCGCA-GCCTAGTGCT
23842709 GGTAATATATCCG-
64 GGTAATATATCCGA
* * *
23842722 GGTTAAA-TCCCGCAGGCTTCGTACTGGTATTATATCCGGGTTAAATCCTGCAGCCTAGTGCTGG
1 GCTTAAAGTCCCGCAGGCTTCGTACTGGAATTATATCCGGGTTAAATCCCGCAGCCTAGTGCTGG
* *
23842786 TATTATATCTGA
66 TAATATATCCGA
23842798 GCTTAAAGTCCCGCAGG
1 GCTTAAAGTCCCGCAGG
23842815 TTTTGTGTTG
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
75 20 0.25
76 44 0.56
77 15 0.19
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (77 bp):
GCTTAAAGTCCCGCAGGCTTCGTACTGGAATTATATCCGGGTTAAATCCCGCAGCCTAGTGCTGG
TAATATATCCGA
Found at i:23857639 original size:90 final size:90
Alignment explanation
Indices: 23857528--23857789 Score: 416
Period size: 90 Copynumber: 2.9 Consensus size: 90
23857518 ATCGAGGAAG
* * * *
23857528 CAGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
**
23857593 TTACATTGAAGCAGATCGAAGATGA
66 TTACATCAAAGCAGATCGAAGATGA
*
23857618 CAGATTTTGCATCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
23857683 TTACATCAAAGTAGATCGAAGATGA
66 TTACATCAAAGCAGATCGAAGATGA
* * *
23857708 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGACCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
23857773 TTACATCAAAGTAGATC
66 TTACATCAAAGCAGATC
23857790 AGGGGACAAT
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 160 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (90 bp):
CAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
TTACATCAAAGCAGATCGAAGATGA
Found at i:23857699 original size:45 final size:45
Alignment explanation
Indices: 23857650--23857789 Score: 126
Period size: 45 Copynumber: 3.1 Consensus size: 45
23857640 GACGGGGAGC
23857650 AGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGT
1 AGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGT
* * * * * * ** *
23857695 AGATCGAAGAT-GACAGATTTGGCGTCTC-TGT-ATTAGA-CGGGGAGC
1 AGATCGAAGATAG-TAGATCTGACAT-TCGTGTGTTTACATC--AAAGT
*
23857740 AGACCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGT
1 AGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGT
23857785 AGATC
1 AGATC
23857790 AGGGGACAAT
Statistics
Matches: 67, Mismatches: 20, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
43 1 0.01
44 7 0.10
45 51 0.76
46 7 0.10
47 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (45 bp):
AGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGT
Found at i:23857969 original size:90 final size:90
Alignment explanation
Indices: 23857858--23858879 Score: 1375
Period size: 90 Copynumber: 11.2 Consensus size: 90
23857848 ATCGAGGAAG
* *
23857858 CAGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
23857923 TTACATTGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * * * *
23857948 CAGATTTTGCATCTCTATATTAGTCGGGGAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
23858013 TTACATCGAAGCAGATTGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * * *
23858038 CAGATTTGGTGTCTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTGATATTCATGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
23858103 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * * * **
23858128 TAGATTTGGCGTCTCTGTATTAGATGGGGAACAGATCGAAGATAGTAGATTTGGTATTCGTGTG-
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
* ** * * *
23858192 TTGCATCTCTGTATTGACGGGGAACAAATCGAGGAA
66 TTACA--TC-G-A---A-GCAGATCGAA--GATG-A
* *
23858228 GCAGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTGTG
1 -CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTG
*
23858293 TTTACATTGAAGCAGATCGAAGATGA
65 TTTACATCGAAGCAGATCGAAGATGA
* * * * *
23858319 CAGATTTTGCATCTCTATATTAGTCGGGGAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
23858384 TTACATCGAAGCAGATTGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
23858409 CAGATTTGGTGTCTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
23858474 TTACATCGAAGCAGATTGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
23858499 CAGATTTGGTGTCTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCATGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
23858564 TTACATCGAAGCAAATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
23858589 CAGATTTGGCGTCTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCATGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
23858654 TTACATCGAAGCAAATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
23858679 CAGATTTGGCGTCTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTGATATTCATGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
23858744 TTACATCGAAGCAGATC-ACAGATGA
66 TTACATCGAAGCAGATCGA-AGATGA
* * * * ** *
23858769 TAGATTTGGCGTCTCTGTTTTAGACCGGGAGCAGATCGAAGATAGCAGATCAAACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
* *
23858834 TTACATTGAAGCTGATCGAAGAT-A
66 TTACATCGAAGCAGATCGAAGATGA
*
23858858 GCAGATTTGGCGTCTCTATATT
1 -CAGATTTGGCGTCTCTGTATT
23858880 TGATAAGGAG
Statistics
Matches: 831, Mismatches: 85, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
89 6 0.01
90 735 0.88
91 4 0.00
92 4 0.00
93 1 0.00
94 6 0.01
95 1 0.00
96 1 0.00
97 6 0.01
98 1 0.00
99 4 0.00
100 2 0.00
101 56 0.07
102 4 0.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (90 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
TTACATCGAAGCAGATCGAAGATGA
Found at i:23858026 original size:45 final size:45
Alignment explanation
Indices: 23857887--23858125 Score: 152
Period size: 45 Copynumber: 5.3 Consensus size: 45
23857877 TTAGACGGGG
* *
23857887 AGCAGATTGAAGATAGTAGATCTGACA-TTCGTGTGTTTACATTGA
1 AGCAGATCGAAGATAGTAGATCTGACATTTC-TGTGTTTACATCGA
* * * * * * *
23857932 AGCAGATCGAAGAT-GACAGATTTTG-CATCTCTAT-ATTA-GTCGGGG
1 AGCAGATCGAAGATAG-TAGA-TCTGACATTTCTGTGTTTACATC--GA
*
23857977 AGCAGATCGAAGATAGTAGATCTGACATTTGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGTAGATCTGACATTTCTGTGTTTACATCGA
* * * *** * * ** *
23858022 AGCAGATTGAAGAT-GACAGATTTGGTGTCTCTGTATTATAC-GGGG
1 AGCAGATCGAAGATAG-TAGATCTGACATTTCTGTGTT-TACATCGA
*
23858067 AGCAGATCGAAGATAGTAGATCTGATA-TTCATGTGTTTACATCGA
1 AGCAGATCGAAGATAGTAGATCTGACATTTC-TGTGTTTACATCGA
23858112 AGCAGATCGAAGAT
1 AGCAGATCGAAGAT
23858126 GATAGATTTG
Statistics
Matches: 141, Mismatches: 39, Indels: 28
0.68 0.19 0.13
Matches are distributed among these distances:
43 1 0.01
44 13 0.09
45 112 0.79
46 13 0.09
47 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (45 bp):
AGCAGATCGAAGATAGTAGATCTGACATTTCTGTGTTTACATCGA
Found at i:23858067 original size:330 final size:330
Alignment explanation
Indices: 23857460--23858119 Score: 1212
Period size: 330 Copynumber: 2.0 Consensus size: 330
23857450 TATGTCCTTT
23857460 AGGGGACAATGTAGATCACTGATAGCAGATTTGACATCTCTGTATTGACGGGGAACAAATCGAGG
1 AGGGGACAATGTAGATCACTGATAGCAGATTTGACATCTCTGTATTGACGGGGAACAAATCGAGG
23857525 AAGCAGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTG
66 AAGCAGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTG
23857590 TGTTTACATTGAAGCAGATCGAAGATGACAGATTTTGCATCTCTATATTAGACGGGGAGCAGATC
131 TGTTTACATTGAAGCAGATCGAAGATGACAGATTTTGCATCTCTATATTAGACGGGGAGCAGATC
*
23857655 GAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGTAGATCGAAGATGACAGATTTGGCGT
196 GAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCGT
* *
23857720 CTCTGTATTAGACGGGGAGCAGACCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGT
261 CTCTGTATTAGACGGGGAGCAGACCGAAGATAGTAGATCTGACATTCATGTGTTTACATCAAAGC
23857785 AGATC
326 AGATC
23857790 AGGGGACAATGTAGATCACTGATAGCAGATTTGACATCTCTGTATTGACGGGGAACAAATCGAGG
1 AGGGGACAATGTAGATCACTGATAGCAGATTTGACATCTCTGTATTGACGGGGAACAAATCGAGG
23857855 AAGCAGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTG
66 AAGCAGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTG
*
23857920 TGTTTACATTGAAGCAGATCGAAGATGACAGATTTTGCATCTCTATATTAGTCGGGGAGCAGATC
131 TGTTTACATTGAAGCAGATCGAAGATGACAGATTTTGCATCTCTATATTAGACGGGGAGCAGATC
* * * *
23857985 GAAGATAGTAGATCTGACATTTGTGTGTTTACATCGAAGCAGATTGAAGATGACAGATTTGGTGT
196 GAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCGT
* * * *
23858050 CTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTGATATTCATGTGTTTACATCGAAGC
261 CTCTGTATTAGACGGGGAGCAGACCGAAGATAGTAGATCTGACATTCATGTGTTTACATCAAAGC
23858115 AGATC
326 AGATC
23858120 GAAGATGATA
Statistics
Matches: 318, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
330 318 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (330 bp):
AGGGGACAATGTAGATCACTGATAGCAGATTTGACATCTCTGTATTGACGGGGAACAAATCGAGG
AAGCAGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTG
TGTTTACATTGAAGCAGATCGAAGATGACAGATTTTGCATCTCTATATTAGACGGGGAGCAGATC
GAAGATAGTAGATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGCGT
CTCTGTATTAGACGGGGAGCAGACCGAAGATAGTAGATCTGACATTCATGTGTTTACATCAAAGC
AGATC
Found at i:23859731 original size:31 final size:27
Alignment explanation
Indices: 23859700--23859760 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
23859690 TTCCGCATTT
* *
23859700 TTTATATTT-ATAATTTATA-AT-TTA
1 TTTATTTTTAATATTTTATATATATTA
*
23859724 TTTATTTTAAATATTTTATATATATTA
1 TTTATTTTTAATATTTTATATATATTA
23859751 TTTATTTTTA
1 TTTATTTTTA
23859761 TAAATATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 9 0.30
26 2 0.07
27 12 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTATTTTTAATATTTTATATATATTA
Found at i:23859761 original size:19 final size:19
Alignment explanation
Indices: 23859737--23859774 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23859727 ATTTTAAATA
*
23859737 TTTTATATATATTATTTAT
1 TTTTATAAATATTATTTAT
23859756 TTTTATAAATATTATTTAT
1 TTTTATAAATATTATTTAT
23859775 ACATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATAAATATTATTTAT
Found at i:23859840 original size:11 final size:11
Alignment explanation
Indices: 23859801--23859854 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
23859791 TATATAATAT
*
23859801 TTTTATTTATG
1 TTTTATTTATA
*
23859812 TATTATTTATCA
1 TTTTATTTAT-A
*
23859824 TGTTATTTATA
1 TTTTATTTATA
23859835 TTTTA--TATA
1 TTTTATTTATA
23859844 TTTTATTTATA
1 TTTTATTTATA
23859855 GCTTTTGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 9 0.25
11 18 0.50
12 9 0.25
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (11 bp):
TTTTATTTATA
Found at i:23859842 original size:47 final size:51
Alignment explanation
Indices: 23859734--23859853 Score: 119
Period size: 47 Copynumber: 2.5 Consensus size: 51
23859724 TTTATTTTAA
23859734 ATATTTTATAT-ATATTATTTATTTTTATAAATATTATTTATACATGTAAAAT
1 ATATTTTATATAATATTATTTA-TTTTAT-AATATTATTTATACATGTAAAAT
* * * **
23859786 -TATTATATATAATATT-TTTA-TTTAT-GTATTATTTAT-CATGTTATTT
1 ATATTTTATATAATATTATTTATTTTATAATATTATTTATACATGTAAAAT
*
23859832 ATATTTTATAT-ATTTTATTTAT
1 ATATTTTATATAATATTATTTAT
23859854 AGCTTTTGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
46 11 0.19
47 23 0.40
49 5 0.09
51 13 0.23
52 5 0.09
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (51 bp):
ATATTTTATATAATATTATTTATTTTATAATATTATTTATACATGTAAAAT
Found at i:23859905 original size:7 final size:7
Alignment explanation
Indices: 23859891--23859926 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
23859881 TTATCTTCAT
23859891 TTTATTA
1 TTTATTA
*
23859898 TATATTA
1 TTTATTA
23859905 TTTTATTA
1 -TTTATTA
23859913 TTTATTA
1 TTTATTA
23859920 TTTATTA
1 TTTATTA
23859927 GTACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTATTA
Found at i:23862165 original size:56 final size:56
Alignment explanation
Indices: 23862104--23862284 Score: 272
Period size: 56 Copynumber: 3.2 Consensus size: 56
23862094 GCCCAGACAG
* *
23862104 GGTCTTACTCACACACATAAATCAGAATCACATATCAATGTCAATGTATTAAACGT
1 GGTCTTACTCACACACATATATCAGAATCACATATCAATGCCAATGTATTAAACGT
* *
23862160 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCACACACATATATCAGAATCACATATCAATGCCAATGTATTAAACGT
** * * *
23862216 GGTCTTACTCGTACACATATATCAAAATCACATATCAATGCCAACGTATTAAACAT
1 GGTCTTACTCACACACATATATCAGAATCACATATCAATGCCAATGTATTAAACGT
*
23862272 GGTCTTACACACA
1 GGTCTTACTCACA
23862285 TATATCGATG
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 113 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCAGAATCACATATCAATGCCAATGTATTAAACGT
Found at i:23864410 original size:40 final size:40
Alignment explanation
Indices: 23864355--23864537 Score: 264
Period size: 40 Copynumber: 4.6 Consensus size: 40
23864345 GATGATAACG
*
23864355 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA-TCC
23864395 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA-TCC
* *
23864435 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
* * *
23864475 GAGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTATATCC
23864515 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
23864538 AGCGAGTAGC
Statistics
Matches: 134, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 131 0.98
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
Found at i:23864551 original size:40 final size:40
Alignment explanation
Indices: 23864355--23864570 Score: 248
Period size: 40 Copynumber: 5.4 Consensus size: 40
23864345 GATGATAACG
* *
23864355 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTATA-TCC
*
23864395 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTATA-TCC
23864435 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC
* *
23864475 GAGCTAAGTCCCGAAGGCATTTGTGCGAACTA-CTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTAGCTATATCC
* *
23864515 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCC
* *
23864555 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
23864571 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 10, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
39 17 0.11
40 141 0.88
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCC
Found at i:23866610 original size:91 final size:91
Alignment explanation
Indices: 23866455--23866637 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
23866445 ACTATCTTGC
*
23866455 ACACCCGATGAATGCTTAAAGTGTACTATCTCTTTGCTACGTGATTCTGCCTACTATTGGTGGAA
1 ACACCCGATGAATGCTTAAAGTGTACTATCTCCTTGCTACGTGATTCTGCCTACTATTGGTGGAA
23866520 TACGTTGATTTCTGTTGTGCCCAGAG
66 TACGTTGATTTCTGTTGTGCCCAGAG
23866546 ACACCCGATGAATGCTTAAAGTGTACTATCTCCTTGCTACGTGATTCTGCCTACTATTGGTGGAA
1 ACACCCGATGAATGCTTAAAGTGTACTATCTCCTTGCTACGTGATTCTGCCTACTATTGGTGGAA
23866611 TACGTTGATTTCTGTTGTGCCCAGAG
66 TACGTTGATTTCTGTTGTGCCCAGAG
23866637 A
1 A
23866638 GCAAGTAACT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (91 bp):
ACACCCGATGAATGCTTAAAGTGTACTATCTCCTTGCTACGTGATTCTGCCTACTATTGGTGGAA
TACGTTGATTTCTGTTGTGCCCAGAG
Found at i:23870324 original size:27 final size:27
Alignment explanation
Indices: 23870271--23870349 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
23870261 AGGAAGTATT
* *
23870271 ATACTAGTGACTATGCCAC-ATTCACTG
1 ATACTGGTGGCTATGCCACAATT-ACTG
* *
23870298 TTACTGTTGGCTATGCCACAATTACTG
1 ATACTGGTGGCTATGCCACAATTACTG
* *
23870325 ATACTGGTGGCT-TACCACATTTACT
1 ATACTGGTGGCTATGCCACAATTACT
23870350 ATTTCTGCGA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
26 11 0.26
27 29 0.67
28 3 0.07
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (27 bp):
ATACTGGTGGCTATGCCACAATTACTG
Found at i:23870576 original size:32 final size:33
Alignment explanation
Indices: 23870536--23870619 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 33
23870526 TTAGGCCCAC
*
23870536 ACTGTTACTGTATAGGGCTAAAG-CCAGATTGT
1 ACTGTTACTGTATAGGGCTAAAGCCCAGACTGT
* *
23870568 TCTGTTACTGTATAGGGCTAAGGCCCAGACTGT
1 ACTGTTACTGTATAGGGCTAAAGCCCAGACTGT
* *
23870601 ACTGATACTGGATAGGGCT
1 ACTGTTACTGTATAGGGCT
23870620 CAGGTCTAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
32 21 0.47
33 24 0.53
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (33 bp):
ACTGTTACTGTATAGGGCTAAAGCCCAGACTGT
Found at i:23870610 original size:33 final size:33
Alignment explanation
Indices: 23870503--23870638 Score: 113
Period size: 33 Copynumber: 4.3 Consensus size: 33
23870493 ATTGCATTAC
* * *
23870503 ACTGTATTGATACTGTATTGGGCTTAGGCCC--
1 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
* *
23870534 AC---ACTGTTACTGTATAGGGCTAAAG-CCAG
1 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
* * *
23870563 ATTGTTCTGTTACTGTATAGGGCTAAGGCCCAG
1 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
* * * *
23870596 ACTGTACTGATACTGGATAGGGCTCAGGTCTAG
1 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
23870629 ACTGTTACTG
1 ACTG-TACTG
23870639 CATGCGTTTT
Statistics
Matches: 83, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.02
28 18 0.22
29 1 0.01
31 2 0.02
32 21 0.25
33 34 0.41
34 5 0.06
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (33 bp):
ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
Found at i:23874077 original size:18 final size:18
Alignment explanation
Indices: 23874054--23874095 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
23874044 CGATGGGTCG
23874054 CAATGGGCCATGTGGGCC
1 CAATGGGCCATGTGGGCC
*
23874072 CAAT-GGCCTTGTGGGCC
1 CAATGGGCCATGTGGGCC
23874089 CACATGG
1 CA-ATGG
23874096 ATAACTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 14 0.67
18 6 0.29
19 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.36, T:0.19
Consensus pattern (18 bp):
CAATGGGCCATGTGGGCC
Found at i:23875146 original size:17 final size:19
Alignment explanation
Indices: 23875120--23875156 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
23875110 AGCCGATCCG
23875120 ATACGCTCT-AT-AATCTC
1 ATACGCTCTAATAAATCTC
*
23875137 ATACGGTCTAATAAATCTC
1 ATACGCTCTAATAAATCTC
23875156 A
1 A
23875157 GACTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (19 bp):
ATACGCTCTAATAAATCTC
Found at i:23882519 original size:37 final size:38
Alignment explanation
Indices: 23882394--23882553 Score: 207
Period size: 38 Copynumber: 4.2 Consensus size: 38
23882384 GCAGGCTATA
*
23882394 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
23882432 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
23882470 TGCTGATATTATATCCGGGTTAAATCCTGCA-GCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
23882507 TGCTGGTATTATATCTGAGCTTAAAGTCCCGCAGGTCTT-G
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGG-CTTCG
23882547 TGCTGGT
1 TGCTGGT
23882554 GACTGGATTC
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
37 19 0.18
38 70 0.66
39 6 0.06
40 9 0.08
41 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:23897966 original size:90 final size:90
Alignment explanation
Indices: 23897033--23897950 Score: 1365
Period size: 90 Copynumber: 10.2 Consensus size: 90
23897023 GAGGAAGCAA
* * * *
23897033 ATTTGGTGTTTCTGTATTAGATGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTGTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
23897098 CATCGAAGCAGATCGAAGATGACAG
66 CATCGAAGCAGATCGAAGATGACAG
* * * * * *
23897123 ATTTTGCATCTCTATATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTTGTTTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
*
23897188 CATCGAAGCAGATAGAAGATGACAG
66 CATCGAAGCAGATCGAAGATGACAG
*
23897213 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGA-CTGAAGATAGAAGATCTGACATTCGTGTGTTT
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC-GAAGATAGTAGATCTGACATTCGTGTGTTT
* *
23897277 ACATCGAAGTAGATCAAAGATGACAG
65 ACATCGAAGCAGATCGAAGATGACAG
* *
23897303 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGACCGAAGATAGTAGATCTGACATTCATGTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
*
23897368 CATCGAAGCAGATCGAAGATGATAG
66 CATCGAAGCAGATCGAAGATGACAG
* * * ** *
23897393 ATTTGGCGTCTCTGTATTAGATGGGGAACAGATCGAAGATAGTAGATTTGGTATTCGTGTGTTGA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
*
23897458 CATCGAAGCAGATCGAAGATGATAG
66 CATCGAAGCAGATCGAAGATGACAG
* * *
23897483 ATTTGGCATCTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
23897548 CATCGAAGCAGATCGAAGATGACAG
66 CATCGAAGCAGATCGAAGATGACAG
* * *
23897573 ATTTGGTGTCTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
23897638 CATCGAAGCAGATCGAAGATGACAG
66 CATCGAAGCAGATCGAAGATGACAG
* * * *
23897663 ATTTGGTGTCTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTAACATTCATGTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
*
23897728 CATCGAAGCAAATCGAAGATGACAG
66 CATCGAAGCAGATCGAAGATGACAG
* * *
23897753 ATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGATATTCATGTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
*
23897818 CATCGAAGCAGATC-ACAGATGATAG
66 CATCGAAGCAGATCGA-AGATGACAG
* * * ** *
23897843 ATTTGGCGTCTCTGTTTTAGACCGGGAGCAGATCGAAGATAGCAGATCAAACATTTGTGTGTTTA
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
*
23897908 CATTGAAGCAGATCGAAGAT-AGCAG
66 CATCGAAGCAGATCGAAGATGA-CAG
*
23897933 ATTTGGCGTCTCTATATT
1 ATTTGGCGTCTCTGTATT
23897951 TGATAAGGAG
Statistics
Matches: 755, Mismatches: 68, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
89 2 0.00
90 751 0.99
91 2 0.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (90 bp):
ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTA
CATCGAAGCAGATCGAAGATGACAG
Found at i:23902954 original size:40 final size:39
Alignment explanation
Indices: 23902798--23902973 Score: 221
Period size: 40 Copynumber: 4.4 Consensus size: 39
23902788 GATGATAACG
*
23902798 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-TCC
23902838 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC
*
23902878 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATATCC
* * * *
23902918 GGGCTAAGTCCTGAAGGCATTTGAGTGAGTAGCTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCC
* *
23902958 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
23902974 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 16 0.13
40 103 0.84
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCC
Found at i:23903267 original size:12 final size:12
Alignment explanation
Indices: 23903250--23903275 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23903240 AAAATAGGGC
23903250 TTTAGCGGCGTT
1 TTTAGCGGCGTT
23903262 TTTAGCGGCGTT
1 TTTAGCGGCGTT
23903274 TT
1 TT
23903276 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:23903379 original size:40 final size:41
Alignment explanation
Indices: 23903331--23903427 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
23903321 GTTTTAGTAA
* *
23903331 AAAAACGCCGCGAAAAA-TAAAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGG
* *
23903371 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGG
23903412 AAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
23903428 GTCATATAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.29
41 36 0.71
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGG
Found at i:23903599 original size:7 final size:7
Alignment explanation
Indices: 23903584--23903681 Score: 70
Period size: 7 Copynumber: 13.4 Consensus size: 7
23903574 TTAATTATCA
*
23903584 TTATAGT
1 TTATGGT
23903591 TTATGGT
1 TTATGGT
23903598 TTATGGT
1 TTATGGT
* *
23903605 TTAAGAT
1 TTATGGT
*
23903612 ATATGGT
1 TTATGGT
23903619 TTATGGT
1 TTATGGT
*
23903626 TTAAGGT
1 TTATGGT
23903633 TTATGAGT
1 TTATG-GT
23903641 TAACTATGGT
1 T---TATGGT
* *
23903651 TTAAGAT
1 TTATGGT
*
23903658 ATATGGT
1 TTATGGT
*
23903665 TTAGGGT
1 TTATGGT
*
23903672 TTAAGGT
1 TTATGGT
23903679 TTA
1 TTA
23903682 GGAGTTAACT
Statistics
Matches: 70, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
7 60 0.86
8 3 0.04
10 3 0.04
11 4 0.06
ACGTcount: A:0.27, C:0.01, G:0.24, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:23903616 original size:21 final size:21
Alignment explanation
Indices: 23903592--23903676 Score: 107
Period size: 21 Copynumber: 3.9 Consensus size: 21
23903582 CATTATAGTT
23903592 TATGGTTTATGGTTTAAGATA
1 TATGGTTTATGGTTTAAGATA
* *
23903613 TATGGTTTATGGTTTAAGGTT
1 TATGGTTTATGGTTTAAGATA
23903634 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TATGGTTTAAGATA
*
23903659 TATGGTTTAGGGTTTAAG
1 TATGGTTTATGGTTTAAG
23903677 GTTTAGGAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
21 33 0.60
22 3 0.05
24 3 0.05
25 16 0.29
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (21 bp):
TATGGTTTATGGTTTAAGATA
Found at i:23903651 original size:46 final size:46
Alignment explanation
Indices: 23903599--23903692 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
23903589 GTTTATGGTT
* *
23903599 TATGGTTTAAGATATATGGTTTATGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
23903645 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
23903691 TA
1 TA
23903693 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.44
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:23903654 original size:25 final size:25
Alignment explanation
Indices: 23903620--23903755 Score: 88
Period size: 25 Copynumber: 5.6 Consensus size: 25
23903610 ATATATGGTT
23903620 TATGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGGTTTATGAGTTAAC
* *
23903645 TATGGTTTAAGATATATG-GTT---
1 TATGGTTTAAGGTTTATGAGTTAAC
* *
23903666 TAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGGTTTATGAGTTAAC
* * *
23903691 TA-GTATTTGAAGGTTTATGA-TGAAT
1 TATG-GTTT-AAGGTTTATGAGTTAAC
* * *
23903716 TATGGGTTTAGGGATTATGA-TTAAT
1 TAT-GGTTTAAGGTTTATGAGTTAAC
*
23903741 TAGGGTTTAATGGTT
1 TATGGTTTAA-GGTT
23903756 AGGGTTAGAA
Statistics
Matches: 85, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
21 14 0.16
22 3 0.04
24 10 0.12
25 44 0.52
26 13 0.15
27 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.43
Consensus pattern (25 bp):
TATGGTTTAAGGTTTATGAGTTAAC
Found at i:23904183 original size:115 final size:115
Alignment explanation
Indices: 23903814--23904163 Score: 700
Period size: 115 Copynumber: 3.0 Consensus size: 115
23903804 TAATATTTAT
23903814 AGGATAGGGGTTAAGAGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATGA
1 AGGATAGGGGTTAAGAGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATGA
23903879 TTTCTTATATAATTGTAAAAGAGATACATTACACCAAAACAAGTTTTAAG
66 TTTCTTATATAATTGTAAAAGAGATACATTACACCAAAACAAGTTTTAAG
23903929 AGGATAGGGGTTAAGAGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATGA
1 AGGATAGGGGTTAAGAGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATGA
23903994 TTTCTTATATAATTGTAAAAGAGATACATTACACCAAAACAAGTTTTAAG
66 TTTCTTATATAATTGTAAAAGAGATACATTACACCAAAACAAGTTTTAAG
23904044 AGGATAGGGGTTAAGAGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATGA
1 AGGATAGGGGTTAAGAGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATGA
23904109 TTTCTTATATAATTGTAAAAGAGATACATTACACCAAAACAAGTTTTAAG
66 TTTCTTATATAATTGTAAAAGAGATACATTACACCAAAACAAGTTTTAAG
23904159 AGGAT
1 AGGAT
23904164 TAAGGGGATA
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 235 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (115 bp):
AGGATAGGGGTTAAGAGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATGA
TTTCTTATATAATTGTAAAAGAGATACATTACACCAAAACAAGTTTTAAG
Found at i:23904193 original size:7 final size:7
Alignment explanation
Indices: 23904183--23904286 Score: 59
Period size: 7 Copynumber: 14.7 Consensus size: 7
23904173 AGGGGTTAGG
23904183 GGTTTAT
1 GGTTTAT
23904190 GGTTTAT
1 GGTTTAT
*
23904197 GAGTTAAT
1 G-GTTTAT
** *
23904205 ATTTTAA
1 GGTTTAT
23904212 GGTTTAT
1 GGTTTAT
*
23904219 GGATTAT
1 GGTTTAT
23904226 GGTTTAT
1 GGTTTAT
*
23904233 GGATTAT
1 GGTTTAT
*
23904240 -GTGTTAG
1 GGT-TTAT
*
23904247 GGTTTAA
1 GGTTTAT
*
23904254 GGTTTAG
1 GGTTTAT
*
23904261 GGGTTAT
1 GGTTTAT
* *
23904268 GTGTTAAG
1 G-GTTTAT
23904276 GGTTTA-
1 GGTTTAT
23904282 GGTTT
1 GGTTT
23904287 TAAGGGTTAA
Statistics
Matches: 72, Mismatches: 21, Indels: 9
0.71 0.21 0.09
Matches are distributed among these distances:
6 6 0.08
7 55 0.76
8 11 0.15
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (7 bp):
GGTTTAT
Found at i:23904262 original size:14 final size:14
Alignment explanation
Indices: 23904207--23904360 Score: 50
Period size: 14 Copynumber: 10.9 Consensus size: 14
23904197 GAGTTAATAT
*
23904207 TTTAAGGTTTATGG
1 TTTAAGGTTTAGGG
* * *
23904221 ATTATGGTTTATGG
1 TTTAAGGTTTAGGG
* *
23904235 ATT-ATGTGTTAGGG
1 TTTAAGGT-TTAGGG
23904249 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
* * *
23904263 GTTATGTGTTAAGGG
1 TTTAAG-GTTTAGGG
23904278 TTT-AGGTTTTAAGGG
1 TTTAAGG-TTT-AGGG
**
23904293 -TTAAGGGATATGGG
1 TTTAAGGTTTA-GGG
* *
23904307 -TTATGGGTTTAGGA
1 TTTA-AGGTTTAGGG
23904321 TTT-AGGATTTAGGG
1 TTTAAGG-TTTAGGG
* *
23904335 ATAAAGG-TTAGAGG
1 TTTAAGGTTTAG-GG
*
23904349 TTTAGGGTTTAG
1 TTTAAGGTTTAG
23904361 ATTAATTAGT
Statistics
Matches: 101, Mismatches: 26, Indels: 25
0.66 0.17 0.16
Matches are distributed among these distances:
13 10 0.10
14 59 0.58
15 32 0.32
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:23904267 original size:28 final size:28
Alignment explanation
Indices: 23904226--23904295 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
23904216 TATGGATTAT
* *
23904226 GGTTTATGGATTATGTGTT-AGGGTTTAA
1 GGTTTAAGGGTTATGTGTTAAGGGTTT-A
*
23904254 GGTTTAGGGGTTATGTGTTAAGGGTTTA
1 GGTTTAAGGGTTATGTGTTAAGGGTTTA
23904282 GGTTTTAAGGGTTA
1 GG-TTTAAGGGTTA
23904296 AGGGATATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (28 bp):
GGTTTAAGGGTTATGTGTTAAGGGTTTA
Found at i:23904277 original size:15 final size:15
Alignment explanation
Indices: 23904236--23904294 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 15
23904226 GGTTTATGGA
23904236 TTATGTGTT-AGGGT
1 TTATGTGTTAAGGGT
* * *
23904250 TTAAG-GTTTAGGGG
1 TTATGTGTTAAGGGT
23904264 TTATGTGTTAAGGGT
1 TTATGTGTTAAGGGT
* *
23904279 TTAGGTTTTAAGGGT
1 TTATGTGTTAAGGGT
23904294 T
1 T
23904295 AAGGGATATG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 3 0.08
14 12 0.33
15 21 0.58
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.46
Consensus pattern (15 bp):
TTATGTGTTAAGGGT
Found at i:23904289 original size:36 final size:36
Alignment explanation
Indices: 23904243--23904359 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 36
23904233 GGATTATGTG
* * *
23904243 TTAGGGTTTAAGGTTTAGGGGTTATGTGTTAAGGGT
1 TTAGGATTTAAGGTTTAGGGGATATGGGTTAAGGGT
* * * *
23904279 TTAGGTTTTAAGGGTTAAGGGATATGGGTTATGGGT
1 TTAGGATTTAAGGTTTAGGGGATATGGGTTAAGGGT
**
23904315 TTAGGATTT-AGGATTTA-GGGATAAAGGTT-AGAGGT
1 TTAGGATTTAAGG-TTTAGGGGATATGGGTTAAG-GGT
*
23904350 TTAGGGTTTA
1 TTAGGATTTA
23904360 GATTAATTAG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 1 0.02
35 24 0.36
36 41 0.62
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (36 bp):
TTAGGATTTAAGGTTTAGGGGATATGGGTTAAGGGT
Found at i:23904344 original size:35 final size:34
Alignment explanation
Indices: 23904274--23904365 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 34
23904264 TTATGTGTTA
* * **
23904274 AGGGTTTAGGTTTTAAGGGTTAAGGGATATGGGTT
1 AGGGTTTAGGATTT-AGGATTAAGGGATAAAGGTT
*
23904309 ATGGGTTTAGGATTTAGGATTTAGGGATAAAGGTT
1 A-GGGTTTAGGATTTAGGATTAAGGGATAAAGGTT
*
23904344 AGAGGTTTAGGGTTTA-GATTAA
1 AG-GGTTTAGGATTTAGGATTAA
23904366 TTAGTATTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
34 6 0.12
35 30 0.62
36 12 0.25
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.37
Consensus pattern (34 bp):
AGGGTTTAGGATTTAGGATTAAGGGATAAAGGTT
Found at i:23904357 original size:7 final size:7
Alignment explanation
Indices: 23904243--23904360 Score: 62
Period size: 7 Copynumber: 16.6 Consensus size: 7
23904233 GGATTATGTG
23904243 TTAGGGT
1 TTAGGGT
*
23904250 TTAAGGT
1 TTAGGGT
*
23904257 TTAGGGG
1 TTAGGGT
*
23904264 TTATGTGT
1 TTA-GGGT
*
23904272 TAAGGGT
1 TTAGGGT
*
23904279 TTAGGTT
1 TTAGGGT
23904286 TTAAGGGT
1 TT-AGGGT
*
23904294 TAAGGG-
1 TTAGGGT
*
23904300 ATATGGG-
1 TTA-GGGT
23904307 TTATGGGT
1 TTA-GGGT
*
23904315 TTAGGAT
1 TTAGGGT
*
23904322 TTAGGAT
1 TTAGGGT
*
23904329 TTAGGGA
1 TTAGGGT
* *
23904336 TAAAGG-
1 TTAGGGT
23904342 TTAGAGGT
1 TTAG-GGT
23904350 TTAGGGT
1 TTAGGGT
23904357 TTAG
1 TTAG
23904361 ATTAATTAGT
Statistics
Matches: 84, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
6 3 0.04
7 65 0.77
8 16 0.19
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (7 bp):
TTAGGGT
Found at i:23904630 original size:77 final size:76
Alignment explanation
Indices: 23904543--23904693 Score: 250
Period size: 77 Copynumber: 2.0 Consensus size: 76
23904533 GCTTCCAAAT
*
23904543 TATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTAAAAAAATAC-CACAA
1 TATAACAAATAAAAATAAATATAAAAATTAAGAGATTAGTGGCGTTTTTAAAAAAA-ACAC-CAA
23904607 AAAAACACTATTA
64 AAAAACACTATTA
**
23904620 TATAACAAATAAAAATAAATATAAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACACCAAAA
1 TATAACAAATAAAAATAAATATAAAAATTAAGAGATTAGTGGCGTTTTTAAAAAAAACACCAAAA
23904685 AAACACTAT
66 AAACACTAT
23904694 GAAAACGACA
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
76 16 0.23
77 54 0.77
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (76 bp):
TATAACAAATAAAAATAAATATAAAAATTAAGAGATTAGTGGCGTTTTTAAAAAAAACACCAAAA
AAACACTATTA
Found at i:23904846 original size:18 final size:18
Alignment explanation
Indices: 23904823--23904866 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23904813 CCCAAAATTG
* *
23904823 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
23904841 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
23904859 ATTTCCCC
1 ATTTCCCC
23904867 CAAAATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:23906831 original size:23 final size:22
Alignment explanation
Indices: 23906776--23906831 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
23906766 CTATTACGTA
*
23906776 GATATAACTGC-TTGGAGACAC
1 GATATAACTGCAGTGGAGACAC
***
23906797 GATATGTTTGCAAGTGGAGACAC
1 GATATAACTGC-AGTGGAGACAC
23906820 GATATAACTGCA
1 GATATAACTGCA
23906832 TAATTTGGCT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
21 8 0.31
22 1 0.04
23 17 0.65
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (22 bp):
GATATAACTGCAGTGGAGACAC
Found at i:23909095 original size:17 final size:18
Alignment explanation
Indices: 23909073--23909106 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23909063 TACTTGTGGG
23909073 GGAATATGGAG-TCAACT
1 GGAATATGGAGTTCAACT
23909090 GGAATATGGAGTTCAAC
1 GGAATATGGAGTTCAAC
23909107 ATTTTGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (18 bp):
GGAATATGGAGTTCAACT
Found at i:23912442 original size:27 final size:26
Alignment explanation
Indices: 23912386--23912442 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
23912376 CAACCTTAAC
* * *
23912386 CCTAGGGGTATATCAATAATTTTGCT
1 CCTAGGGGTAAATCAATAATTTTCCA
**
23912412 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAAT-AATTTTCCA
23912439 CCTA
1 CCTA
23912443 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAATAATTTTCCA
Found at i:23914418 original size:13 final size:13
Alignment explanation
Indices: 23914400--23914424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23914390 TAAACCTATG
23914400 AAATAATAATAAT
1 AAATAATAATAAT
23914413 AAATAATAATAA
1 AAATAATAATAA
23914425 CAATAACATC
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:23919701 original size:27 final size:26
Alignment explanation
Indices: 23919645--23919701 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
23919635 CAACCTTAAC
* * *
23919645 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
23919671 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
23919698 CCTA
1 CCTA
23919702 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:23920007 original size:20 final size:21
Alignment explanation
Indices: 23919979--23920017 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
23919969 TGGGCCCGCA
23919979 AGCCCATTGA-GCCCAATTTT
1 AGCCCATTGAGGCCCAATTTT
*
23919999 AGCCTATTGAGGCCCAATT
1 AGCCCATTGAGGCCCAATT
23920018 ACCGAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (21 bp):
AGCCCATTGAGGCCCAATTTT
Found at i:23923942 original size:27 final size:26
Alignment explanation
Indices: 23923886--23923942 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
23923876 CAACCTTAAC
* * *
23923886 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
23923912 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
23923939 CCTA
1 CCTA
23923943 TAAAGGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:23927391 original size:28 final size:29
Alignment explanation
Indices: 23927360--23927460 Score: 118
Period size: 28 Copynumber: 3.6 Consensus size: 29
23927350 ATGTGATTTA
*
23927360 GGCCTAAT-GGCCATATGAATGTGGTTTG
1 GGCCTAATGGGCCATATGAATGTGGATTG
* *
23927388 GGCCTAATGGGCCACATAAATGT-GATTG
1 GGCCTAATGGGCCATATGAATGTGGATTG
* * * *
23927416 GGCCTAATAGGTCATATGAAAG-AGATTG
1 GGCCTAATGGGCCATATGAATGTGGATTG
23927444 GGCCTAATGGGCCATAT
1 GGCCTAATGGGCCATAT
23927461 ACAGGTATGT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
28 49 0.80
29 12 0.20
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATGAATGTGGATTG
Found at i:23927449 original size:56 final size:57
Alignment explanation
Indices: 23927347--23927457 Score: 154
Period size: 56 Copynumber: 2.0 Consensus size: 57
23927337 AGCATGATTG
* * *
23927347 TAAATGTGATTTAGGCCTAATGGCCATATGAATGTGGTTTGGGCCTAATGGGCCACA
1 TAAATGTGATTTAGGCCTAATGGCCATATGAAAGTAGATTGGGCCTAATGGGCCACA
* *
23927404 TAAATGTGA-TTGGGCCTAATAGGTCATATGAAAG-AGATTGGGCCTAATGGGCCA
1 TAAATGTGATTTAGGCCTAAT-GGCCATATGAAAGTAGATTGGGCCTAATGGGCCA
23927458 TATACAGGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 28 0.58
57 20 0.42
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (57 bp):
TAAATGTGATTTAGGCCTAATGGCCATATGAAAGTAGATTGGGCCTAATGGGCCACA
Found at i:23929756 original size:49 final size:49
Alignment explanation
Indices: 23929631--23929770 Score: 189
Period size: 47 Copynumber: 2.9 Consensus size: 49
23929621 CCCTTCGGGA
* * * * *
23929631 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23929678 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23929725 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
23929771 CGCCATACTA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
46 1 0.01
47 43 0.54
49 36 0.45
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23933529 original size:40 final size:39
Alignment explanation
Indices: 23933424--23933584 Score: 137
Period size: 40 Copynumber: 4.1 Consensus size: 39
23933414 GCACGAAGGC
* * * **
23933424 CCGAATACACGTCACCAGCATGATTGCTCTTCGGGACCTAG
1 CCGAATACA--TCACTAGCACGAATGCTCTTCGGGATTTAG
* * * *
23933465 CCCGGATA-A-CACCAGCACAAATGCTCTTCGGGGTTTAG
1 -CCGAATACATCACTAGCACGAATGCTCTTCGGGATTTAG
* * *
23933503 CACGAATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 C-CGAATACATCACTAGCACGAATGCTCTTCGGGATTTAG
* *
23933543 TCCGGATACATCACTAGCACGAATGCTCTTCGAGATTTAG
1 -CCGAATACATCACTAGCACGAATGCTCTTCGGGATTTAG
23933583 CC
1 CC
23933585 CGGACATTTC
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
37 1 0.01
38 28 0.29
39 3 0.03
40 57 0.59
41 2 0.02
42 6 0.06
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
CCGAATACATCACTAGCACGAATGCTCTTCGGGATTTAG
Found at i:23933588 original size:40 final size:39
Alignment explanation
Indices: 23933448--23933588 Score: 158
Period size: 40 Copynumber: 3.6 Consensus size: 39
23933438 CCAGCATGAT
* * *
23933448 TGCTCTTCGGGACCTAGCCCGGATAA-CACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATAATCACTAGCACGAA
** * *
23933486 TGCTCTTCGGGGTTTAGCACGAATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATA-ATCACTAGCACGAA
* *
23933526 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATA-ATCACTAGCACGAA
* *
23933566 TGCTCTTCGAGATTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
23933589 CATTTCACTC
Statistics
Matches: 83, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
38 20 0.24
39 1 0.01
40 62 0.75
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
TGCTCTTCGGGACTTAGCCCGGATAATCACTAGCACGAA
Found at i:23933597 original size:80 final size:78
Alignment explanation
Indices: 23933448--23933597 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 78
23933438 CCAGCATGAT
* * * *
23933448 TGCTCTTCGGGACCTAGCCCGGATAACACCAGCACAAATGCTCTTCGGGGTTTAGCACGAATATA
1 TGCTCTTCGGAACCTAGCCCGGATAACACCAGCACAAATGCTCTTCGAGATTTAGCACGAACATA
23933513 TCACTAGCACGAA
66 TCACTAGCACGAA
* * * * * *
23933526 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGATTTAGCCCGGACA
1 TGCTCTTCGGAACCTAGCCCGGATA-A-CACCAGCACAAATGCTCTTCGAGATTTAGCACGAACA
*
23933591 TTTCACT
64 TATCACT
23933598 CTCAATTCTC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 22 0.37
79 1 0.02
80 36 0.61
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCTCTTCGGAACCTAGCCCGGATAACACCAGCACAAATGCTCTTCGAGATTTAGCACGAACATA
TCACTAGCACGAA
Found at i:23934733 original size:20 final size:20
Alignment explanation
Indices: 23934708--23934746 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23934698 TATTTCATGT
23934708 TTATTTTA-TTTTATTACTAA
1 TTATTTTACTTTT-TTACTAA
23934728 TTATTTTACTTTTTTACTA
1 TTATTTTACTTTTTTACTA
23934747 TTTTAATCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTACTTTTTTACTAA
Found at i:23940216 original size:86 final size:85
Alignment explanation
Indices: 23940101--23940260 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
23940091 ATATGTGTTA
*
23940101 TCGTGTAAGAGCACGTCTGGGACGTTGGCATC-A-ACTTATGATTTACATGTAAGACCATGTCTA
1 TCGTGTAAGAGCACGTCTGGGACGTTGGCATCTATA-TT-TGA-TTACATGTAAGACCACGTCTA
23940164 GGACATTGGCATCGTATTTGATT
63 GGACATTGGCATCGTATTTGATT
* *
23940187 TCGTGTAAGA-CCCTGTCTGGGACAG-TGGCATCTATATTTGATTACATGTAAGACCACGTCTGG
1 TCGTGTAAGAGCAC-GTCTGGGAC-GTTGGCATCTATATTTGATTACATGTAAGACCACGTCTAG
*
23940250 GACGTTGGCAT
64 GACATTGGCAT
23940261 TGTAAGAGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
85 32 0.48
86 29 0.44
87 4 0.06
88 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (85 bp):
TCGTGTAAGAGCACGTCTGGGACGTTGGCATCTATATTTGATTACATGTAAGACCACGTCTAGGA
CATTGGCATCGTATTTGATT
Found at i:23940225 original size:43 final size:41
Alignment explanation
Indices: 23940104--23940260 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 41
23940094 TGTGTTATCG
*
23940104 TGTAAGAGCACGTCTGGGACGTTGGCATCA-ACTTATGATTTACA
1 TGTAAGA-CCCGTCTGGGACGTTGGCATCATA-TT-TGATTT-CA
* * * * *
23940148 TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACC-CGTCTGGGACGTTGGCATCATATTTGATTTCA
*
23940190 TGTAAGACCCTGTCTGGGACAG-TGGCATCTATATTTGATTACA
1 TGTAAGACCC-GTCTGGGAC-GTTGGCATC-ATATTTGATTTCA
23940233 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACC-CGTCTGGGACGTTGGCAT
23940261 TGTAAGAGCT
Statistics
Matches: 94, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
42 26 0.28
43 41 0.44
44 26 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (41 bp):
TGTAAGACCCGTCTGGGACGTTGGCATCATATTTGATTTCA
Found at i:23942621 original size:44 final size:43
Alignment explanation
Indices: 23942571--23942729 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
23942561 TATGTGTTAT
*
23942571 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTAGGACATTGGCATCGACTT-TGATTTA
* ** *
23942615 CGTGTAAGACCACGTCTGGGATGTTCGCATCGTAC-TTGATTT-
1 CGTGTAAGACCACGTCTAGGACATTGGCATCG-ACTTTGATTTA
* * *
23942657 CGTGTAAGACC-CTGTCTAGGACAGTGGCATTGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTAGGACATTGGCATCGA-CTTTGATTTA
* *
23942700 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACATTGGCAT
23942730 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 26 0.27
43 35 0.36
44 31 0.32
45 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACATTGGCATCGACTTTGATTTA
Found at i:23948379 original size:28 final size:28
Alignment explanation
Indices: 23948336--23948399 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
23948326 TGGGAAGTAG
* * *
23948336 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
*
23948364 TTGGGCCTGATAGGCCATGTGAACGAGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
23948392 TTGGGCCT
1 TTGGGCCT
23948400 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAACGAGA
Found at i:23948850 original size:81 final size:81
Alignment explanation
Indices: 23948715--23948921 Score: 333
Period size: 81 Copynumber: 2.6 Consensus size: 81
23948705 TAATAAAGAG
* * *
23948715 AAATTACTGAAAGACCCCCGATTTGTAAAATTATCAAAACACCCTCGATTTGTAAAATTACCGAA
1 AAATTACCGAAACACCCCCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAA
23948780 ACACCCTCGATTTGTA
66 ACACCCTCGATTTGTA
* *
23948796 AAATTACCGAAACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATCGAA
1 AAATTACCGAAACACCCCCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAA
* * *
23948861 ATACCTTTGATTTGTA
66 ACACCCTCGATTTGTA
*
23948877 AAATTACCAAAACACCCCCGATTTGTAAAATTATCAAAATACCCT
1 AAATTACCGAAACACCCCCGATTTGTAAAATTATCAAAATACCCT
23948922 TGCAGTGTAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 116 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAATTACCGAAACACCCCCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAA
ACACCCTCGATTTGTA
Found at i:23948914 original size:27 final size:27
Alignment explanation
Indices: 23948728--23948921 Score: 271
Period size: 27 Copynumber: 7.2 Consensus size: 27
23948718 TTACTGAAAG
*
23948728 ACCCCCGATTTGTAAAATTATCAAAAC
1 ACCCTCGATTTGTAAAATTATCAAAAC
* *
23948755 ACCCTCGATTTGTAAAATTACCGAAAC
1 ACCCTCGATTTGTAAAATTATCAAAAC
* *
23948782 ACCCTCGATTTGTAAAATTACCGAAAC
1 ACCCTCGATTTGTAAAATTATCAAAAC
*
23948809 ACCCTCGATTTGTAAAATTATCAAAAT
1 ACCCTCGATTTGTAAAATTATCAAAAC
* *
23948836 ACCCTCGATTTGTAAAATTATCGAAAT
1 ACCCTCGATTTGTAAAATTATCAAAAC
* * *
23948863 ACCTTTGATTTGTAAAATTACCAAAAC
1 ACCCTCGATTTGTAAAATTATCAAAAC
* *
23948890 ACCCCCGATTTGTAAAATTATCAAAAT
1 ACCCTCGATTTGTAAAATTATCAAAAC
23948917 ACCCT
1 ACCCT
23948922 TGCAGTGTAA
Statistics
Matches: 149, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
ACCCTCGATTTGTAAAATTATCAAAAC
Found at i:23948946 original size:81 final size:81
Alignment explanation
Indices: 23948728--23948947 Score: 325
Period size: 81 Copynumber: 2.7 Consensus size: 81
23948718 TTACTGAAAG
* *
23948728 ACCCCCGATTTGTAAAATTATCAAAACACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTT
1 ACCCCCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTT
*
23948793 GTAAAATTACCGAAAC
66 GTAAAATTACCAAAAC
* * * *
23948809 ACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATCGAAATACCTTTGATTT
1 ACCCCCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTT
23948874 GTAAAATTACCAAAAC
66 GTAAAATTACCAAAAC
* * * *
23948890 ACCCCCGATTTGTAAAATTATCAAAATACCCTTGCA-GTGTAAAATGACCGACATACCC
1 ACCCCCGATTTGTAAAATTATCAAAATACCCTCG-ATTTGTAAAATTACCGAAATACCC
23948948 CTGTAGTGTA
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 123 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (81 bp):
ACCCCCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTT
GTAAAATTACCAAAAC
Found at i:23950596 original size:33 final size:34
Alignment explanation
Indices: 23950527--23950600 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
23950517 TGCATTTATG
*
23950527 GATAATGTTACTATAATAGGCTAAGGCCCACACT
1 GATACTGTTACTATAATAGGCTAAGGCCCACACT
* *
23950561 GATACTGTTACTGTAATGGGCTAAGG-CCACACT
1 GATACTGTTACTATAATAGGCTAAGGCCCACACT
23950594 GATACTG
1 GATACTG
23950601 GGCTGTCACT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 14 0.38
34 23 0.62
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (34 bp):
GATACTGTTACTATAATAGGCTAAGGCCCACACT
Found at i:23955744 original size:43 final size:41
Alignment explanation
Indices: 23955647--23955764 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 41
23955637 GACTTATAAT
*
23955647 TTACATGTAAGACCAC-GTCTAGGACGTTGGCATTGTACTTGA
1 TTACATGTAAGACC-CTGTCT-GGACGTTGGCATCGTACTTGA
* * *
23955689 TTTCGTGTAAGACCCTGTCTGGAACAG-TGGCATCGATAGTTGA
1 TTACATGTAAGACCCTGTCTGG-AC-GTTGGCATCG-TACTTGA
*
23955732 TTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 TTACATGTAAGACCCTGTCT-GGACGTTGGCAT
23955765 TGTATGAGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
41 3 0.05
42 26 0.41
43 32 0.51
44 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
TTACATGTAAGACCCTGTCTGGACGTTGGCATCGTACTTGA
Found at i:23960013 original size:40 final size:40
Alignment explanation
Indices: 23959956--23960260 Score: 337
Period size: 40 Copynumber: 7.7 Consensus size: 40
23959946 CTAACGGGGT
* * * ** *
23959956 TAAGTCCCGAAGACATTTGTGCTAGTAATTAATTCCGAGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
*
23959996 TAAGTCCCAAAGGCATTTGTGCGAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
* * *
23960036 TAAGTCCCGAAGGCATTTTTGCGAGTTACTAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
* *
23960076 TAAGTCCCGAAGGCTTTTGTGCAAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
* * *
23960116 TAAGCCCCGAAGGCTTTTGTGCGAGTTACAAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
* * **
23960156 TAAGCCCCGAAGGCATTTGTGCAAGTTA-TTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAAT-TCCGGGC
* * * * *
23960196 TAAGTCCCGAAGGCATCTGTGCTAGTGAC-CATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAAT-TCCGGGC
* *
23960236 TAAGACCCGAAGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
23960261 GGTTATATCC
Statistics
Matches: 229, Mismatches: 34, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.04
40 219 0.96
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
Found at i:23960269 original size:39 final size:38
Alignment explanation
Indices: 23960153--23960285 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 38
23960143 ACAAATTCTG
* *
23960153 GGCTAAGCCCCGAAGGCATTTGTGCAAGTTATTATATCC
1 GGCTAAGACCCGAAGGCA-TTGTGCAAGTGATTATATCC
* * **
23960192 GGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCC
1 -GGCTAAGACCCGAAGGCAT-TGTGCAAGTGATTATATCC
* * *
23960232 GGACTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC
1 GG-CTAAGACCCGAAGGCATTGTGCAAGTGATTATATCC
23960271 GGCTAA-ATCCCGAAG
1 GGCTAAGA-CCCGAAG
23960286 ATAATTGGGT
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.01
38 11 0.14
39 20 0.25
40 47 0.59
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (38 bp):
GGCTAAGACCCGAAGGCATTGTGCAAGTGATTATATCC
Found at i:23966657 original size:40 final size:41
Alignment explanation
Indices: 23966515--23966662 Score: 176
Period size: 40 Copynumber: 3.7 Consensus size: 41
23966505 CAAACACATT
* * * * *
23966515 TGCCTTCGGGTCTTAACCCGGA-CATATCAACTTGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATAAAATCAACTAGCATAAA
* * *
23966555 TGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATAAAATCAACTAGCATAAA
* *
23966595 TGCCTTCAGGTCTTAGCCCGGATAAAATC-ACTAGTATAAA
1 TGCCTTCGGGTCTTAGCCCGGATAAAATCAACTAGCATAAA
*
23966635 TGCCTTCGGGACTTAGCCCGGATAAAAT
1 TGCCTTCGGGTCTTAGCCCGGATAAAAT
23966663 AGTAAGCTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 91 0.96
41 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
TGCCTTCGGGTCTTAGCCCGGATAAAATCAACTAGCATAAA
Found at i:23985112 original size:79 final size:81
Alignment explanation
Indices: 23985010--23985194 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
23985000 GCTCCTCGTT
* * *
23985010 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
23985073 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
23985090 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
23985154 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
23985170 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23985195 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:23985194 original size:40 final size:40
Alignment explanation
Indices: 23985010--23985194 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
23985000 GCTCCTCGTT
* *
23985010 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
23985050 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
23985090 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
23985129 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
23985170 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23985195 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:23988252 original size:8 final size:8
Alignment explanation
Indices: 23988230--23988259 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
23988220 GTGCAAAGAA
23988230 ATTTTGTG
1 ATTTTGTG
23988238 TATTTTGTG
1 -ATTTTGTG
23988247 ATTTTGTG
1 ATTTTGTG
23988255 ATTTT
1 ATTTT
23988260 ATGAATTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (8 bp):
ATTTTGTG
Found at i:23988795 original size:43 final size:42
Alignment explanation
Indices: 23988688--23988821 Score: 139
Period size: 43 Copynumber: 3.1 Consensus size: 42
23988678 CGACCACATC
* * *
23988688 TGGGACATTGGCATCGACT-TATGATTTACGTGTAAGACCATGTT
1 TGGGACA-TGGCATCGA-TATTTGATTT-CATGTAAGACCCTGTT
* *
23988732 TGGGACATCGACATCG-TATTTGATTTCTTGTAAGACCCTGTT
1 TGGGACAT-GGCATCGATATTTGATTTCATGTAAGACCCTGTT
*
23988774 TGGGACAGTGGCATCGATATTTGATTACATGTAAGACCAC-GTT
1 TGGGACA-TGGCATCGATATTTGATTTCATGTAAGACC-CTGTT
23988817 TGGGA
1 TGGGA
23988822 TGTTGGCAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
42 28 0.36
43 36 0.46
44 14 0.18
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
TGGGACATGGCATCGATATTTGATTTCATGTAAGACCCTGTT
Found at i:23994650 original size:40 final size:40
Alignment explanation
Indices: 23994595--23994772 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
23994585 CGGATGATAA
* *
23994595 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
23994635 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23994675 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23994715 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
23994755 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
23994773 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 17 0.13
40 112 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:24018218 original size:29 final size:29
Alignment explanation
Indices: 24018176--24018233 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
24018166 CGATGTAAGT
24018176 TCATATGTAAATAATGCAATATTATGATC
1 TCATATGTAAATAATGCAATATTATGATC
24018205 TCATATGTAAATAATGCAATATTATGATC
1 TCATATGTAAATAATGCAATATTATGATC
24018234 ATATTATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (29 bp):
TCATATGTAAATAATGCAATATTATGATC
Found at i:24030822 original size:22 final size:22
Alignment explanation
Indices: 24030779--24030833 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
24030769 CCAATCAATT
*
24030779 TCATACTCAATTTCATATCAAAG
1 TCATAC-CAATTTCATAACAAAG
24030802 -CATACCAATTTCATGAACAAAG
1 TCATACCAATTTCAT-AACAAAG
*
24030824 TCATGCCAAT
1 TCATACCAAT
24030834 CCATTTGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 8 0.29
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (22 bp):
TCATACCAATTTCATAACAAAG
Found at i:24031567 original size:42 final size:43
Alignment explanation
Indices: 24031497--24031643 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 43
24031487 TATGCTAGAT
* * * *
24031497 ATGGTCTTACATGATATCAAATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGAC
* *
24031540 AGGGTCTTACACGAAATCATATA-CGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGAC
* * * *
24031582 ATGGTCTTACATGTAATC-TCAGATCGATACCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAT-ATATCGATGCCAATGTCCCAGAC
* *
24031625 ATAGTCTTACACGATATCA
1 ATGGTCTTACACGAAATCA
24031644 CATCTCAGAA
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 34 0.40
43 50 0.59
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGAC
Found at i:24034964 original size:235 final size:235
Alignment explanation
Indices: 24034544--24035014 Score: 816
Period size: 235 Copynumber: 2.0 Consensus size: 235
24034534 GCCTAAAAAG
*
24034544 CTTCTAACCTCGGATACGTTTCTCAGTGGTTTCCAATCAACAATGGCCGAAATCTTACTCGGATC
1 CTTCTAACCTCGGATACCTTTCTCAGTGGTTTCCAATCAACAATGGCCGAAATCTTACTCGGATC
* * *
24034609 AACTCAGATCCCTTCCCCCGACACAATATGCCCTAAAAATCTGACTTCTCTAAGCCAGAACTCCC
66 AACTCAGATCCCTTCCCCCGACACAATATACCATAAAAATCTGACTTCTCTAAGCCAGAACTCAC
*
24034674 TTTTGCTAAACTTAGCATACAACTACCTATCTCTCAAGGTTTACAAAATAGTCCTCAGATGATCG
131 TTTTGCTAAACTTAGCATACAACTACCTATCTCTCAAGGTTTACAAAACAGTCCTCAGATGATCG
*
24034739 GTATGTTCAGACTCGTCACGAGAATAAATCAGGATATCAT
196 GCATGTTCAGACTCGTCACGAGAATAAATCAGGATATCAT
*
24034779 CTTCTAACCTCGGATACCTTTCTTAGTGGTTTCCAATCAACAATGGCCGAAATCTTACTCGGATC
1 CTTCTAACCTCGGATACCTTTCTCAGTGGTTTCCAATCAACAATGGCCGAAATCTTACTCGGATC
** *
24034844 AACTTGGATCCCTTCCCCCGACATAATATACCATAAAAATCTGACTTCTCTAAGCCAGAACTCAC
66 AACTCAGATCCCTTCCCCCGACACAATATACCATAAAAATCTGACTTCTCTAAGCCAGAACTCAC
* * *
24034909 TTTTGCTAAACTTAGCATACAACTACCTATCTCTTAAGGTTTGCAAAACAGTCCTCAGATTATCG
131 TTTTGCTAAACTTAGCATACAACTACCTATCTCTCAAGGTTTACAAAACAGTCCTCAGATGATCG
*
24034974 GCATGTTTAGACTCGTCACGAGAATAAATCAGGATATCAT
196 GCATGTTCAGACTCGTCACGAGAATAAATCAGGATATCAT
24035014 C
1 C
24035015 GATAAACACC
Statistics
Matches: 222, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
235 222 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (235 bp):
CTTCTAACCTCGGATACCTTTCTCAGTGGTTTCCAATCAACAATGGCCGAAATCTTACTCGGATC
AACTCAGATCCCTTCCCCCGACACAATATACCATAAAAATCTGACTTCTCTAAGCCAGAACTCAC
TTTTGCTAAACTTAGCATACAACTACCTATCTCTCAAGGTTTACAAAACAGTCCTCAGATGATCG
GCATGTTCAGACTCGTCACGAGAATAAATCAGGATATCAT
Found at i:24039784 original size:48 final size:48
Alignment explanation
Indices: 24039641--24039784 Score: 180
Period size: 48 Copynumber: 3.0 Consensus size: 48
24039631 GCAGTACATG
* * *
24039641 TGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGAAATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATT
* **
24039689 TGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTAATATT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATT
* * * * * *
24039737 TGATCTCATGTAAGACCATATTTGGGATATGACATTGGTATCGATATT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATT
24039785 ATAACATCTT
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATT
Found at i:24043936 original size:27 final size:27
Alignment explanation
Indices: 24043905--24044035 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
24043895 GACCCCTAAT
*
24043905 TGGTAAAATGACTATTTTGCCCTTACG
1 TGGTAAAATGACTATTTTGCCCTTATG
* *
24043932 TGGTAAAATGATTATTTTACCCTTATG
1 TGGTAAAATGACTATTTTGCCCTTATG
* *
24043959 TGGTAAAATGACTTTTTTGCCTTTATG
1 TGGTAAAATGACTATTTTGCCCTTATG
* *
24043986 TGGTAAAATGACTGTTTTGCCCTTATA
1 TGGTAAAATGACTATTTTGCCCTTATG
* *
24044013 TGGTAAGATGATTATTTTGCCCT
1 TGGTAAAATGACTATTTTGCCCT
24044036 AGGTGATGTA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (27 bp):
TGGTAAAATGACTATTTTGCCCTTATG
Found at i:24044384 original size:18 final size:18
Alignment explanation
Indices: 24044357--24044391 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24044347 AGGATTTGTA
24044357 CACTGATTACTATTACTG
1 CACTGATTACTATTACTG
* *
24044375 CACTGTTTACTGTTACT
1 CACTGATTACTATTACT
24044392 ACAATAGGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (18 bp):
CACTGATTACTATTACTG
Found at i:24051398 original size:29 final size:29
Alignment explanation
Indices: 24051335--24051471 Score: 152
Period size: 29 Copynumber: 4.8 Consensus size: 29
24051325 TTCATATACC
* * * *
24051335 TGTATCTGGCCCATTAAGCTC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
24051363 T-TCATATGGCCCATTAGGCCTAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
24051392 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
24051421 TTTATATGTCCCAATAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
24051450 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
24051472 GTCACATTCA
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
27 1 0.01
28 15 0.16
29 75 0.82
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:24051446 original size:58 final size:57
Alignment explanation
Indices: 24051332--24051484 Score: 189
Period size: 58 Copynumber: 2.7 Consensus size: 57
24051322 AAATTCATAT
* * * * * *
24051332 ACCTGTATCTGGCCCATTAAGCTCAATCATATTCATATGGCCCATTAGGCCTAAATC
1 ACCTGTATATGGCCCATTAGGCCCAATCACATTCATATGGCCCAATAGGCCCAAATC
* *
24051389 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGTCCCAATAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCC-AATCACATTCATATGGCCCAATAGGCCCAAATC
* * * *
24051447 ACATTTATATGGCCCGTTAGGCCCAGTCACATTCATAT
1 ACCTGTATATGGCCCATTAGGCCCAATCACATTCATAT
24051485 TCATGCTCAC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
57 33 0.40
58 49 0.60
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAGGCCCAATCACATTCATATGGCCCAATAGGCCCAAATC
Found at i:24055849 original size:14 final size:14
Alignment explanation
Indices: 24055830--24055856 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24055820 AACTCGAACT
24055830 TTGTTTCTTACGAC
1 TTGTTTCTTACGAC
24055844 TTGTTTCTTACGA
1 TTGTTTCTTACGA
24055857 TTTCGATGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (14 bp):
TTGTTTCTTACGAC
Found at i:24058198 original size:36 final size:36
Alignment explanation
Indices: 24058151--24058220 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
24058141 AATCTACATT
24058151 TTTCAACTATTGATAATCTAAGCGTACATACTTATA
1 TTTCAACTATTGATAATCTAAGCGTACATACTTATA
24058187 TTTCAACTATTGATAATCTAAGCGTACATACTTA
1 TTTCAACTATTGATAATCTAAGCGTACATACTTA
24058221 CCTTCCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.39
Consensus pattern (36 bp):
TTTCAACTATTGATAATCTAAGCGTACATACTTATA
Found at i:24076613 original size:42 final size:43
Alignment explanation
Indices: 24076516--24076627 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
24076506 AGCTCGTACA
*
24076516 ATGCTAATGTCCCAGAC-GTGGTCTTACATGTAAACAAATATCG
1 ATGCTAATGTCCCAGACAG-GGTCTTACATGTAAACAAATATCC
*
24076559 ATGCCACA--TCCCAGACAGGGTCTTACATG-AAATCAAATA-CC
1 ATGCTA-ATGTCCCAGACAGGGTCTTACATGTAAA-CAAATATCC
* *
24076600 ATGCTGATGTCCCAGACATGGTCTTACA
1 ATGCTAATGTCCCAGACAGGGTCTTACA
24076628 CATAAATCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
40 1 0.02
41 8 0.14
42 43 0.73
43 6 0.10
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCTAATGTCCCAGACAGGGTCTTACATGTAAACAAATATCC
Found at i:24079714 original size:49 final size:49
Alignment explanation
Indices: 24079660--24079756 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
24079650 TGCTTGTCTA
24079660 AGACATTGCACACCATAGTAAGTCACATACTCAAATCACATGAAATTTG
1 AGACATTGCACACCATAGTAAGTCACATACTCAAATCACATGAAATTTG
*
24079709 AGACATTGTACACCATAGTAAGTCACATACTCAAATCACATGAAATTT
1 AGACATTGCACACCATAGTAAGTCACATACTCAAATCACATGAAATTT
24079757 TTAAGCTTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (49 bp):
AGACATTGCACACCATAGTAAGTCACATACTCAAATCACATGAAATTTG
Found at i:24081494 original size:17 final size:18
Alignment explanation
Indices: 24081472--24081505 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24081462 CACATTGAAG
24081472 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
24081489 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
24081506 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:24082782 original size:28 final size:28
Alignment explanation
Indices: 24082745--24082838 Score: 125
Period size: 28 Copynumber: 3.4 Consensus size: 28
24082735 AAGTCTACAT
* *
24082745 ACATGCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
* * *
24082773 TCATTCATATGGCCCATCGGGCCTAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
* *
24082801 ACTTTCATATGGCCCGTCAGGCCCAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
24082829 ACATTCATAT
1 ACATTCATAT
24082839 TCATGTAATC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCCAATC
Found at i:24097172 original size:13 final size:13
Alignment explanation
Indices: 24097150--24097196 Score: 85
Period size: 13 Copynumber: 3.6 Consensus size: 13
24097140 CAGACACACA
24097150 CCCGTGTCAATGG
1 CCCGTGTCAATGG
*
24097163 CCCATGTCAATGG
1 CCCGTGTCAATGG
24097176 CCCGTGTCAATGG
1 CCCGTGTCAATGG
24097189 CCCGTGTC
1 CCCGTGTC
24097197 CCTTACACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (13 bp):
CCCGTGTCAATGG
Found at i:24098863 original size:39 final size:39
Alignment explanation
Indices: 24098728--24098912 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 39
24098718 TCGGATGATA
* * **
24098728 ACCGGGCTAAGTCCCGATA-GCATTTGAGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGTTACT-AT
* * * * *
24098768 TCTGGGCTAAGTCCCGAAGGAATTCGTGCGAGCTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
24098807 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
24098847 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
24098886 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
24098913 AGCTAGTGGC
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 39 0.31
40 86 0.69
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:24098926 original size:40 final size:40
Alignment explanation
Indices: 24098725--24098935 Score: 216
Period size: 40 Copynumber: 5.3 Consensus size: 40
24098715 TGTTCGGATG
* * *
24098725 ATAACCGGGCTAAGTCCCGATA-GCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGTGACT
* * * *
24098765 A-ATTCTGGGCTAAGTCCCGAAGGAATTCGTGCGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* * *
24098805 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
24098845 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * *
24098884 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
24098924 ATATCC-GGCTAA
1 ATAACCGGGCTAA
24098936 ACTCCGAAGG
Statistics
Matches: 146, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 45 0.31
40 99 0.68
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:24098945 original size:79 final size:79
Alignment explanation
Indices: 24098725--24098935 Score: 266
Period size: 79 Copynumber: 2.7 Consensus size: 79
24098715 TGTTCGGATG
*
24098725 ATAACCGGGCTAAGTCCCGATA-GCATTTGAGCTAGTGGCTA-ATTCTGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGA-AGGCATTTGAGCTAGTGGCTATA-TC-CGGCTAAGTCCCGAAGG
*
24098788 AATTCGTGCGAGCTACT
63 AATTCGTGCAAGCTACT
* * * *** *
24098805 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAAGTCCCGAAGGAA
* *
24098869 TTTGTGCAAGTTACT
65 TTCGTGCAAGCTACT
24098884 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
24098936 ACTCCGAAGG
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
79 74 0.67
80 35 0.32
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAAGTCCCGAAGGAAT
TCGTGCAAGCTACT
Found at i:24108655 original size:23 final size:23
Alignment explanation
Indices: 24108603--24108647 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
24108593 TTTAATCAAG
24108603 AAGCTCACGAAGAGCCTATCAGA
1 AAGCTCACGAAGAGCCTATCAGA
24108626 AAGCTCACGAAGAGCCTATCAG
1 AAGCTCACGAAGAGCCTATCAG
24108648 GATGCTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.13
Consensus pattern (23 bp):
AAGCTCACGAAGAGCCTATCAGA
Found at i:24108661 original size:23 final size:23
Alignment explanation
Indices: 24108603--24108664 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
24108593 TTTAATCAAG
*
24108603 AAGCTCACGAAGAGCCTATCAGA
1 AAGCTCAAGAAGAGCCTATCAGA
* *
24108626 AAGCTCACGAAGAGCCTATCAGG
1 AAGCTCAAGAAGAGCCTATCAGA
* *
24108649 ATGCTCAATAAGAGCC
1 AAGCTCAAGAAGAGCC
24108665 ATTTAATGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.37, C:0.26, G:0.23, T:0.15
Consensus pattern (23 bp):
AAGCTCAAGAAGAGCCTATCAGA
Found at i:24110436 original size:55 final size:53
Alignment explanation
Indices: 24110349--24110582 Score: 201
Period size: 55 Copynumber: 4.4 Consensus size: 53
24110339 ATTAGGGTTT
* *
24110349 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGAC-ATTGGTAA-GTTTCTAAGGA
* * * *
24110404 GAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTT--TCTAAGG-A
* * * * * *
24110460 AAGG-TCCCCTGTAAGACCATGCCAAGGCATGGCGTTGGTGAG-TTCATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTTC-TAAGGA
* * * * *
24110512 AATGATACCATGTAAGACCATGTCGAGACCTGACAATGGTAAGTTTC--A--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTTCTAAGGA
* *
24110561 AACGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
24110583 AAAATTCATG
Statistics
Matches: 144, Mismatches: 29, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
49 21 0.15
51 1 0.01
52 5 0.03
53 36 0.25
54 11 0.08
55 67 0.47
56 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTTCTAAGGA
Found at i:24110555 original size:108 final size:110
Alignment explanation
Indices: 24110359--24110556 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 110
24110349 AAGGATACCA
**
24110359 TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGTGAGGATACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGAAAGGATACCATGTAAGACCA
*
24110424 TGTCAAGACATGACATTGATAAGTTACTATAAGGCAAAGGTCCCC
66 TGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTCCCC
* * * *
24110469 TGTAAGACCATGCCAAGGCATGGC-GTTGGTGA-G-TTCATAAGGAAATGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGAAAGGATACCATGTAAGACC
* * *
24110531 ATGTCGAGACCTGACAATGGTAAGTT
65 ATGTCAAGACATGACAATGATAAGTT
24110557 TCAAAACGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.58
109 6 0.08
110 23 0.30
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGAAAGGATACCATGTAAGACCA
TGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTCCCC
Found at i:24115435 original size:27 final size:28
Alignment explanation
Indices: 24115404--24115457 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
24115394 TCAAAATCCA
* *
24115404 TACTTTAATTA-TAAAATATTTAATTTG
1 TACTTAAATTATTAAAATATTGAATTTG
24115431 TACTTAAATTATTAAAATATTGAATTT
1 TACTTAAATTATTAAAATATTGAATTT
24115458 TAATTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (28 bp):
TACTTAAATTATTAAAATATTGAATTTG
Found at i:24122087 original size:20 final size:20
Alignment explanation
Indices: 24122045--24122087 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
24122035 TTATCTATGA
* *
24122045 ATAAATTTTCATTTTCTACC
1 ATAAATTTTAATTTTCTAAC
24122065 ATAAATTTTTAATTTTC-AAC
1 ATAAA-TTTTAATTTTCTAAC
24122085 ATA
1 ATA
24122088 TTCATCCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAAATTTTAATTTTCTAAC
Found at i:24124836 original size:7 final size:7
Alignment explanation
Indices: 24124826--24124870 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
24124816 AAGAGAGAAT
*
24124826 GATGATG
1 GATGAGG
24124833 GATGAGG
1 GATGAGG
24124840 GATGAGG
1 GATGAGG
*
24124847 GATAAGG
1 GATGAGG
**
24124854 GATGAAT
1 GATGAGG
24124861 GATGAGG
1 GATGAGG
24124868 GAT
1 GAT
24124871 CAAATGAGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.47, T:0.20
Consensus pattern (7 bp):
GATGAGG
Found at i:24125836 original size:16 final size:16
Alignment explanation
Indices: 24125815--24125848 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24125805 TATATGAGTA
24125815 TGCATGAATCCAGGTC
1 TGCATGAATCCAGGTC
24125831 TGCATGAATCCAGGTC
1 TGCATGAATCCAGGTC
24125847 TG
1 TG
24125849 AAATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (16 bp):
TGCATGAATCCAGGTC
Found at i:24127646 original size:21 final size:19
Alignment explanation
Indices: 24127622--24127666 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
24127612 TGTGAATTCG
*
24127622 ATTAAATTTTTGTTGAAAATA
1 ATTAAATTTTT-AT-AAAATA
24127643 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTATAAAATA
24127661 ATTAAA
1 ATTAAA
24127667 GTGCACTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
20 7 0.32
21 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
ATTAAATTTTTATAAAATA
Found at i:24137566 original size:39 final size:39
Alignment explanation
Indices: 24137466--24137650 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 39
24137456 TTGAATGATG
* * *
24137466 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAT
** *
24137505 ATCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTGAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-AT
* *
24137546 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-TAT
*
24137585 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
24137624 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24137651 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:24137602 original size:79 final size:82
Alignment explanation
Indices: 24137461--24137650 Score: 248
Period size: 79 Copynumber: 2.4 Consensus size: 82
24137451 GTTATTTGAA
* * *
24137461 TGATGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAG
1 TGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAG
24137525 GCATTTGTGCGAGATAC
66 GCATTTGTGCGAGATAC
* * *
24137542 TGAT-TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACAAAATCCGGGTTAAG-TCCCGAA
1 TGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAATCCGGATTAAGAT-CCGAA
*
24137603 GGCATTTGTGCGAGTTAC
65 GGCATTTGTGCGAGATAC
* *
24137621 T-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 TGATATCCGGGCTAAGTCCCGAAGGCATTTG
24137651 AACGAGGAGC
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.60
80 32 0.33
81 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
TGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAG
GCATTTGTGCGAGATAC
Found at i:24137672 original size:79 final size:77
Alignment explanation
Indices: 24137467--24137683 Score: 197
Period size: 79 Copynumber: 2.7 Consensus size: 77
24137457 TGAATGATGT
** * * *
24137467 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACAAAATCCGG-TTAAG-TCCGAAGGCATTT
*
24137531 GTGCGAGATACTGATT
62 GTGCGAGATACTGATA
** *
24137547 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACAAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACAAAATCC-GGTTAAGT-CCGAAGGCATTTGT
*
24137612 GCGAGTTACT-ATAA
64 GCGAGATACTGAT-A
* * * *
24137626 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTACATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CAAAATCCGGTT-AAGTCCGAAGG
24137684 TACGTGATTT
Statistics
Matches: 117, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACAAAATCCGGTTAAGTCCGAAGGCATTTGTGC
GAGATACTGATA
Found at i:24145750 original size:39 final size:39
Alignment explanation
Indices: 24145650--24145834 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 39
24145640 TTGAATGATG
* * *
24145650 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAT
** *
24145689 ATCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTGAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-AT
* *
24145730 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-TAT
* * *
24145769 TCCAGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
24145808 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24145835 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:24145786 original size:79 final size:82
Alignment explanation
Indices: 24145645--24145834 Score: 232
Period size: 79 Copynumber: 2.4 Consensus size: 82
24145635 GTTATTTGAA
* * *
24145645 TGATGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAG
1 TGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAG
*
24145709 GCATTTGTGCGAGATAC
66 GCATTTGTACGAGATAC
* *
24145726 TGAT-TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACAAAATCCAGG-TTAAG-TCCCGA
1 TGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAATCC-GGATTAAGAT-CCGA
*
24145786 AGGCATTTGTACGAGTTAC
64 AGGCATTTGTACGAGATAC
* *
24145805 T-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 TGATATCCGGGCTAAGTCCCGAAGGCATTTG
24145835 AACGAGGAGC
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 3 0.03
79 55 0.57
80 34 0.35
81 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (82 bp):
TGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAG
GCATTTGTACGAGATAC
Found at i:24145856 original size:79 final size:77
Alignment explanation
Indices: 24145651--24145867 Score: 188
Period size: 79 Copynumber: 2.7 Consensus size: 77
24145641 TGAATGATGT
** * * *
24145651 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACAAAATCCGG-TTAAG-TCCGAAGGCATTT
* *
24145715 GTGCGAGATACTGATT
62 GTACGAGATACTGATA
** *
24145731 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACAAAATCCAGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACAAAATCC-GGTTAAGT-CCGAAGGCATTTGT
*
24145796 ACGAGTTACT-ATAA
64 ACGAGATACTGAT-A
* * * *
24145810 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTACATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CAAAATCCGGTT-AAGTCCGAAGG
24145868 TACGTGATTT
Statistics
Matches: 116, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 3 0.03
79 67 0.58
80 46 0.40
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACAAAATCCGGTTAAGTCCGAAGGCATTTGTAC
GAGATACTGATA
Found at i:24153695 original size:39 final size:40
Alignment explanation
Indices: 24153600--24153861 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
24153590 TTGAATGATG
*
24153600 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
24153638 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
24153679 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
24153718 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
24153757 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
24153796 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
24153835 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24153862 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24162232 original size:28 final size:29
Alignment explanation
Indices: 24162201--24162260 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
24162191 GTTGTCCCGT
24162201 AAAT-ATTTTTAATGATTTTT-AATTTTAA
1 AAATAATTTTT-ATGATTTTTAAATTTTAA
*
24162229 AAATAATTTTTATGTTTTTTAAAATTTTAA
1 AAATAATTTTTATGATTTTT-AAATTTTAA
24162259 AA
1 AA
24162261 TTTTAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 12 0.43
29 6 0.21
30 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (29 bp):
AAATAATTTTTATGATTTTTAAATTTTAA
Found at i:24162505 original size:17 final size:17
Alignment explanation
Indices: 24162485--24162519 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24162475 TTTATATATT
*
24162485 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
24162502 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
24162519 A
1 A
24162520 CGAGTCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:24188068 original size:46 final size:46
Alignment explanation
Indices: 24187998--24188174 Score: 257
Period size: 46 Copynumber: 3.8 Consensus size: 46
24187988 GACGGGTNAT
* * *
24187998 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACCTGAC
* *
24188044 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACCTGAC
* *
24188090 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACCTGAC
* *
24188136 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAGTAAGACCATAGTTGAAAGATACCATGGCA
24188175 TTACGTCAAA
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACCTGAC
Found at i:24192780 original size:40 final size:40
Alignment explanation
Indices: 24192725--24193043 Score: 575
Period size: 40 Copynumber: 8.0 Consensus size: 40
24192715 NNNNNNNNGA
24192725 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
24192765 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
24192805 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
24192845 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
24192885 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
24192925 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
24192965 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
24193005 TACATCCGGGCTAAGTCCTGAAGGGCATTCGTGCCGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
24193044 ATGTGTAATC
Statistics
Matches: 269, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 269 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:24193248 original size:25 final size:25
Alignment explanation
Indices: 24193207--24193261 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
24193197 TGTGTAATAA
24193207 CGAATGAATATAAGCACTATGTGTG
1 CGAATGAATATAAGCACTATGTGTG
* *
24193232 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AAGCACTATGTGTG
24193257 CGAAT
1 CGAAT
24193262 TCTTTAACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAAGCACTATGTGTG
Done.