Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 95 of 279
Found at i:30781562 original size:13 final size:13
Alignment explanation
Indices: 30781546--30781571 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30781536 ATTTTCCTTA
30781546 ATATTTATTTATT
1 ATATTTATTTATT
30781559 ATATTTATTTATT
1 ATATTTATTTATT
30781572 TATCCCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTATTTATT
Found at i:30781601 original size:3 final size:3
Alignment explanation
Indices: 30781593--30781623 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
30781583 TCACATACAC
30781593 ATT ATT ATT ATT ATT ATT ATT ATT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
30781624 TGTTTACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:30793074 original size:59 final size:59
Alignment explanation
Indices: 30792982--30793219 Score: 449
Period size: 59 Copynumber: 4.0 Consensus size: 59
30792972 GTGGAGGAGA
30792982 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTTAAAACAGGCTTGTTGCTTTAAGC
1 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTTAAAACAGGCTTGTTGCTTTAAGC
30793041 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTTAAAACAGGCTTGTTGCTTTAAGC
1 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTTAAAACAGGCTTGTTGCTTTAAGC
30793100 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTTAAAACAGGCTTGTTGCTTTAAGC
1 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTTAAAACAGGCTTGTTGCTTTAAGC
* * *
30793159 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTCAAAACACGCTTATTGCTTTAAGC
1 CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTTAAAACAGGCTTGTTGCTTTAAGC
30793218 CT
1 CT
30793220 AGAAGCAACA
Statistics
Matches: 176, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 176 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (59 bp):
CTCCTGTATTTTTAGAGCTAATCTAGAGTAACATTTAAAACAGGCTTGTTGCTTTAAGC
Found at i:30794221 original size:6 final size:6
Alignment explanation
Indices: 30794205--30794239 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
30794195 GCGCTATATT
* *
30794205 GCAAAG CCAAAG GCAAAG GCAAAG CCAAAG GCAAA
1 GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAAA
30794240 AAAAAAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (6 bp):
GCAAAG
Found at i:30794228 original size:18 final size:18
Alignment explanation
Indices: 30794205--30794239 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
30794195 GCGCTATATT
30794205 GCAAAGCCAAAGGCAAAG
1 GCAAAGCCAAAGGCAAAG
30794223 GCAAAGCCAAAGGCAAA
1 GCAAAGCCAAAGGCAAA
30794240 AAAAAAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (18 bp):
GCAAAGCCAAAGGCAAAG
Found at i:30796000 original size:64 final size:64
Alignment explanation
Indices: 30795927--30796054 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
30795917 CCATTCATAA
* * *
30795927 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * *
30795991 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGTATCTTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
30796055 AGGCCTATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:30796403 original size:45 final size:45
Alignment explanation
Indices: 30796079--30796554 Score: 183
Period size: 45 Copynumber: 10.8 Consensus size: 45
30796069 GATTCTACAG
* * *
30796079 ATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACGGCGA
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * ** ** *
30796124 ATCTAGTCTTCCTGAAGTTGCAGTGAAACAGATTTTAG-CCAC-C
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * ** * ** *
30796167 ATCCTA-TCTCCCT-AAGTCGTAGTGGAGTAGGCTGAAAATTG-TA
1 AT-CTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * *
30796210 GATCTTGTCTCCCTGAAGTTACAGTGGAGCA-AGTCGAAGATGGCGA
1 -ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGACGGCGA
* * * * ** *
30796256 ATCCT-GCCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG-CCAC-C
1 AT-CTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * ** * ** *
30796299 ATCCTA-TCTCCCTG-AGTCGTAGTGGAGTAGGCTAAAGATTG-TA
1 AT-CTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * *
30796342 GACCTTGTCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGACGGCGA
1 -ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * ** *
30796388 ATCTAGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG-CCAC-C
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * * * ** *
30796431 ATCCTAG-CTCCCTAAAGTTGTAGTGGAGTAGACTGAAAATTG-TA
1 AT-CTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * * *
30796475 GACCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
* * *
30796521 ATCTAGTCTTCCTGAAGTTGCAGTGAAACAGATT
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATT
30796555 TTAGCCACCA
Statistics
Matches: 296, Mismatches: 112, Indels: 46
0.65 0.25 0.10
Matches are distributed among these distances:
42 30 0.10
43 48 0.16
44 33 0.11
45 179 0.60
46 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (45 bp):
ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGGCGA
Found at i:30796522 original size:133 final size:133
Alignment explanation
Indices: 30796081--30797705 Score: 2388
Period size: 133 Copynumber: 12.2 Consensus size: 133
30796071 TTCTACAGAT
* * *
30796081 CTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
* * * * * * *
30796146 GTGAAACAGATTTTAGCCACCATCCTATCTCCCT-AAGTCGTAGTGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
*
30796210 GAT
131 GAC
* * * * *
30796213 CTTGTCTCCCTGAAGTTACAGTGGAGCA-AGTCGAAGATGGCGAATCCT-GCCTTCCTGAAGTTG
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGA-TCGAAGACGGCGAAT-CTAGTCTTCCTAAAGTTG
* * * * * *
30796276 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCT-GAGTCGTAGTGGAGTAGGCT-AAAGATT
64 CAGTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAA-ATT
30796339 GTAGAC
128 GTAGAC
* * *
30796345 CTTGTCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
* * * * * *
30796410 GTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGACTGAAAATTGTA
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
30796475 GAC
131 GAC
* * *
30796478 CTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTGAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
* * * * * * *
30796543 GTGAAACAGATTTTAGCCACCATCCTATCTCCCT-AAGTCGTAGTGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
*
30796607 GAT
131 GAC
* * * * *
30796610 CTTGTCTCCCTGAAGTTACAGTGGAGCA-AGTCGAAGATGGCGAATCCT-GCCTTCCTGAAGTTG
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGA-TCGAAGACGGCGAAT-CTAGTCTTCCTAAAGTTG
30796673 CAGTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTG
64 CAGTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTG
30796738 TAGAC
129 TAGAC
* *
30796743 CTTCTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGTGAATCTAGTCTTCCTAAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
30796808 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
30796873 GAC
131 GAC
* *
30796876 CTTCTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGTGAATCTAGTCTTCCTAAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
30796941 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
30797006 GAC
131 GAC
* *
30797009 CTTCTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGTGAATCTAGTCTTCCTAAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
30797074 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
30797139 GAC
131 GAC
* *
30797142 CTTCTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGTGAATCTAGTCTTCCTAAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
30797207 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
30797272 GAC
131 GAC
* *
30797275 CTTCTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGTGAATCTAGTCTTCCTAAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
30797340 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
30797405 GAC
131 GAC
* *
30797408 CTTCTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGTGAATCTAGTCTTCCTAAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
*
30797473 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGTGGAGTAGGCTGAAAATTGTA
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
*
30797538 GAT
131 GAC
* * * * * * *
30797541 CTTGTCTCCCTGAAGTTGTAGTGGAGCAGATCAAAGACAGCGAATCTTGTCTTCTTGAAGTTGCA
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
* * * * * * ** * *
30797606 GTGAAGCAGATTTAAGCTACCATCCTATCTCCCT-AAGTTGTAGTGGAATAGTTTAAAAAATTAT
66 GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCT-GAAAATTGT
30797670 AGATC
130 AGA-C
* * *
30797675 C-TGTCTCTCTGAAGTTGCAGTAGAGCAGATC
1 CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATC
30797706 AAAACACACC
Statistics
Matches: 1410, Mismatches: 69, Indels: 27
0.94 0.05 0.02
Matches are distributed among these distances:
131 7 0.00
132 338 0.24
133 1060 0.75
134 5 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (133 bp):
CTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTTGCA
GTGAAGCAGATTTAAACCACCATCCTATCTCTCTAAAATTGTAGCGGAGTAGGCTGAAAATTGTA
GAC
Found at i:30805599 original size:25 final size:25
Alignment explanation
Indices: 30805565--30805614 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
30805555 CACAAACTCA
*
30805565 TAATTCAGGTAGATGTCTATTTAGT
1 TAATTCAGGTAGATGCCTATTTAGT
30805590 TAATTCAGGTAGATGCCTATTTAGT
1 TAATTCAGGTAGATGCCTATTTAGT
30805615 ATTGAACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (25 bp):
TAATTCAGGTAGATGCCTATTTAGT
Found at i:30814632 original size:97 final size:94
Alignment explanation
Indices: 30814509--30814737 Score: 229
Period size: 90 Copynumber: 2.4 Consensus size: 94
30814499 GTGGCGAATG
* * * *
30814509 AAAGTATGGTTGTGATTAGCTG-TATTGTTTAGAAGTATGATTGTGA-TTAGGGCTTGAATTTTG
1 AAAGTATGATTGTGATTAG-TGATATTGTTTA-AAGTA-GATTGTGATTTA-GAC-TCAAATTTG
* * * *
30814572 ATTGTGATAATAGT-GGCAATGTGTTCATTGTTTA
61 ATTGTGACAATAGTAGGAAAT-TGTGCAGTGTTTA
30814606 AAAGTATGATTGTGATTAGTGATATTGTTTAAA--A-A-TGTGATTTAGACTCAAATTTGATTGT
1 AAAGTATGATTGTGATTAGTGATATTGTTTAAAGTAGATTGTGATTTAGACTCAAATTTGATTGT
* *
30814667 GACAATGGTAGTAAATTGTGCAGTGTTTA
66 GACAATAGTAGGAAATTGTGCAGTGTTTA
* *
30814696 AAAGTGTGATTGTGATTAGTTATATTGTTTAAAAGTACGATT
1 AAAGTATGATTGTGATTAGTGATATTGTTT-AAAGTA-GATT
30814738 TGGGATTGAA
Statistics
Matches: 111, Mismatches: 12, Indels: 19
0.78 0.08 0.13
Matches are distributed among these distances:
90 58 0.52
91 14 0.13
92 4 0.04
93 1 0.01
94 1 0.01
95 1 0.01
96 5 0.05
97 27 0.24
ACGTcount: A:0.30, C:0.04, G:0.24, T:0.42
Consensus pattern (94 bp):
AAAGTATGATTGTGATTAGTGATATTGTTTAAAGTAGATTGTGATTTAGACTCAAATTTGATTGT
GACAATAGTAGGAAATTGTGCAGTGTTTA
Found at i:30815023 original size:81 final size:81
Alignment explanation
Indices: 30814730--30815010 Score: 562
Period size: 81 Copynumber: 3.5 Consensus size: 81
30814720 TTGTTTAAAA
30814730 GTACGATTTGGGATTGAATTCGATCATGATAATGGTAGTGAATTGTGCATTATTTAAAGGTATAG
1 GTACGATTTGGGATTGAATTCGATCATGATAATGGTAGTGAATTGTGCATTATTTAAAGGTATAG
30814795 ATGCGAATAGTGATTG
66 ATGCGAATAGTGATTG
30814811 GTACGATTTGGGATTGAATTCGATCATGATAATGGTAGTGAATTGTGCATTATTTAAAGGTATAG
1 GTACGATTTGGGATTGAATTCGATCATGATAATGGTAGTGAATTGTGCATTATTTAAAGGTATAG
30814876 ATGCGAATAGTGATTG
66 ATGCGAATAGTGATTG
30814892 GTACGATTTGGGATTGAATTCGATCATGATAATGGTAGTGAATTGTGCATTATTTAAAGGTATAG
1 GTACGATTTGGGATTGAATTCGATCATGATAATGGTAGTGAATTGTGCATTATTTAAAGGTATAG
30814957 ATGCGAATAGTGATTG
66 ATGCGAATAGTGATTG
30814973 GTACGATTTGGGATTGAATTCGATCATGATAATGGTAG
1 GTACGATTTGGGATTGAATTCGATCATGATAATGGTAG
30815011 CAAATTATGC
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 200 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (81 bp):
GTACGATTTGGGATTGAATTCGATCATGATAATGGTAGTGAATTGTGCATTATTTAAAGGTATAG
ATGCGAATAGTGATTG
Found at i:30819765 original size:31 final size:30
Alignment explanation
Indices: 30819738--30819823 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 30
30819728 TATTGTTACT
* *
30819738 TTTTTTTATTATTTTAAAGGTATTTGTTAA
1 TTTTTTTATTATTTTAGAGGCATTTGTTAA
*
30819768 ATTTTTTATTATTTTAGAGGCATTTGTTAAA
1 TTTTTTTATTATTTTAGAGGCATTTGTT-AA
30819799 TTTTTTTATTATTTTAGAGGCATTT
1 TTTTTTTATTATTTTAGAGGCATTT
30819824 ACTTATTAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 25 0.49
31 26 0.51
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (30 bp):
TTTTTTTATTATTTTAGAGGCATTTGTTAA
Found at i:30819775 original size:30 final size:31
Alignment explanation
Indices: 30819738--30819823 Score: 147
Period size: 30 Copynumber: 2.8 Consensus size: 31
30819728 TATTGTTACT
* *
30819738 TTTTTTTATTATTTTAAAGGTATTTGTTAAA
1 TTTTTTTATTATTTTAGAGGCATTTGTTAAA
30819769 -TTTTTTATTATTTTAGAGGCATTTGTTAAA
1 TTTTTTTATTATTTTAGAGGCATTTGTTAAA
30819799 TTTTTTTATTATTTTAGAGGCATTT
1 TTTTTTTATTATTTTAGAGGCATTT
30819824 ACTTATTAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 28 0.54
31 24 0.46
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (31 bp):
TTTTTTTATTATTTTAGAGGCATTTGTTAAA
Found at i:30824431 original size:26 final size:26
Alignment explanation
Indices: 30824402--30824508 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
30824392 TGGTACAAAT
*
30824402 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
30824428 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30824454 TGATAATGGGTTAGGTAAATG-TCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
30824479 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30824505 TGAT
1 TGAT
30824509 GGGCATTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 24 0.33
26 48 0.67
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:30824504 original size:51 final size:52
Alignment explanation
Indices: 30824402--30824508 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 52
30824392 TGGTACAAAT
*
30824402 TGATAATGGGTTAGGTAAATGTTTCATGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
* * *
30824454 TGATAATGGGTTAGGTAAATG-TCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
30824505 TGAT
1 TGAT
30824509 GGGCATTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 30 0.59
52 21 0.41
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
Found at i:30825959 original size:27 final size:28
Alignment explanation
Indices: 30825929--30825981 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
30825919 AGAATATGCA
30825929 TGAAAAACC-TTAAAA-TAGATAAATTAC
1 TGAAAAACCTTTAAAAGTAGA-AAATTAC
*
30825956 TGAAATACCTTTAAAAGTAGAAAATT
1 TGAAAAACCTTTAAAAGTAGAAAATT
30825982 TACAGTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 11 0.48
29 4 0.17
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (28 bp):
TGAAAAACCTTTAAAAGTAGAAAATTAC
Found at i:30826019 original size:26 final size:26
Alignment explanation
Indices: 30825944--30826024 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
30825934 AACCTTAAAA
*
30825944 TAGATAAATTACTGAAATACCTTTAAAAG
1 TAGATAAATTACTGAAATACCTCT---AG
* ***
30825973 TAGA-AAATTTACAGTTTTACCTCTAG
1 TAGATAAA-TTACTGAAATACCTCTAG
*
30825999 TAGATAAATTACTGAAATACCCCTAG
1 TAGATAAATTACTGAAATACCTCTAG
30826025 GGTTAAATTG
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
26 19 0.47
27 3 0.08
28 3 0.08
29 15 0.38
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (26 bp):
TAGATAAATTACTGAAATACCTCTAG
Found at i:30838493 original size:26 final size:27
Alignment explanation
Indices: 30838463--30838515 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 27
30838453 GTAAACATAT
30838463 AATTT-TA-TAATATATGAGAATGACTC
1 AATTTATATTAAT-TATGAGAATGACTC
30838489 AATTTCAATATTAATTATGAGAATGAC
1 AATTT--ATATTAATTATGAGAATGAC
30838516 CTGAAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 5 0.22
29 14 0.61
30 4 0.17
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (27 bp):
AATTTATATTAATTATGAGAATGACTC
Found at i:30838752 original size:38 final size:38
Alignment explanation
Indices: 30838710--30838861 Score: 304
Period size: 38 Copynumber: 4.0 Consensus size: 38
30838700 GTAGAAAGAA
30838710 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
1 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
30838748 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
1 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
30838786 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
1 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
30838824 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
1 AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
30838862 GGCACTAGTG
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 114 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (38 bp):
AGAAAAATTTTAATTTTGGTGACAGCTCCAAATATGAT
Found at i:30838998 original size:2 final size:2
Alignment explanation
Indices: 30838991--30839018 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30838981 GGCGGCACCA
30838991 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30839019 TACTTTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30841408 original size:41 final size:42
Alignment explanation
Indices: 30841324--30841520 Score: 213
Period size: 41 Copynumber: 4.7 Consensus size: 42
30841314 CGTGTTTTAC
* * * * *
30841324 TTTCTGTTTAGCTCTTATGAA-CTTCTGTTTAACTCATACGAG
1 TTTCTGTTCAGCTCTTA-CAAGCTTCTGTTCAACTCTTATGAG
* * *
30841366 TTTTTGTTCAGTTC-TACGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACTCTTATGAG
* * *
30841407 TTTCTATTCAGCTC-TACAAGCTTTTGTTCAACTCCTATGAG
1 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACTCTTATGAG
* * *
30841448 TTTCTACTT-AGCTCTTATAAGCTTCTGTTCAACTCTTAAGAG
1 TTTCT-GTTCAGCTCTTACAAGCTTCTGTTCAACTCTTATGAG
*
30841490 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCA
1 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCA
30841521 GCTTTCGAGC
Statistics
Matches: 129, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.01
41 67 0.52
42 61 0.47
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACTCTTATGAG
Found at i:30841531 original size:19 final size:21
Alignment explanation
Indices: 30841325--30841537 Score: 148
Period size: 21 Copynumber: 10.3 Consensus size: 21
30841315 GTGTTTTACT
* * *
30841325 TTCTGTTTAGCTCTTATGAAC
1 TTCTGTTCAGCTCTTACGAGC
* * * *
30841346 TTCTGTTTAACTCATACGAGT
1 TTCTGTTCAGCTCTTACGAGC
* *
30841367 TTTTGTTCAGTTC-TACGAGC
1 TTCTGTTCAGCTCTTACGAGC
* * *
30841387 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
* *
30841408 TTCTATTCAGCTC-TACAAGC
1 TTCTGTTCAGCTCTTACGAGC
* * * * *
30841428 TTTTGTTCAACTCCTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
* **
30841449 TTCTACTT-AGCTCTTATAAGC
1 TTCT-GTTCAGCTCTTACGAGC
* * *
30841470 TTCTGTTCAACTCTTAAGAGT
1 TTCTGTTCAGCTCTTACGAGC
30841491 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
30841512 TTCTGTTCAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTACGAGC
*
30841531 TCCTGTT
1 TTCTGTT
30841538 AATGATGTAC
Statistics
Matches: 147, Mismatches: 41, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
19 11 0.07
20 34 0.23
21 100 0.68
22 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:30843088 original size:19 final size:18
Alignment explanation
Indices: 30843053--30843101 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
30843043 ACAATAGTAA
*
30843053 AGTATAATAA-TAGTGAT
1 AGTATAATAACAAGTGAT
30843070 GAGTATAATAACAAGTGAT
1 -AGTATAATAACAAGTGAT
*
30843089 AATAATAATAACA
1 AGT-ATAATAACA
30843102 GTAACAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (18 bp):
AGTATAATAACAAGTGAT
Found at i:30843312 original size:3 final size:3
Alignment explanation
Indices: 30843306--30843392 Score: 50
Period size: 3 Copynumber: 28.3 Consensus size: 3
30843296 AAATAAAACA
* * * * * *
30843306 AAT AAT AAT AAT AAT AAT AATT AA- AAA AAT GAT GAT AGT AAA AAA
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
30843351 AAT AAA AAT AAT AGT AAT GAT AAT ACATT AAG AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT A
30843393 TGTTAATAAC
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
2 2 0.03
3 56 0.86
4 5 0.08
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:30848631 original size:24 final size:21
Alignment explanation
Indices: 30848615--30848659 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
30848605 ATTGAAAGTG
30848615 ATTGTCGAATGGCTATTG--A
1 ATTGTCGAATGGCTATTGAAA
30848634 ATTGTCGAATGGCTATTGAAA
1 ATTGTCGAATGGCTATTGAAA
30848655 TATTG
1 -ATTG
30848660 AAGGAGACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 18 0.78
21 1 0.04
22 4 0.17
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (21 bp):
ATTGTCGAATGGCTATTGAAA
Found at i:30848639 original size:19 final size:19
Alignment explanation
Indices: 30848615--30848653 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30848605 ATTGAAAGTG
30848615 ATTGTCGAATGGCTATTGA
1 ATTGTCGAATGGCTATTGA
30848634 ATTGTCGAATGGCTATTGA
1 ATTGTCGAATGGCTATTGA
30848653 A
1 A
30848654 ATATTGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (19 bp):
ATTGTCGAATGGCTATTGA
Found at i:30850423 original size:90 final size:90
Alignment explanation
Indices: 30850270--30850434 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 90
30850260 GGTGGGAATT
* ** * *
30850270 AGTTATATTGTTTAAAAGTGTGATTTAAATTCGATTTTGATATTGATAATGGTAATAAATTGTGT
1 AGTTATATTGTTTAAAAGTGTAATTTAAATTCGATTCAGATATTCATAATGGTAACAAATTGTGT
30850335 AGTGTTTAAAAATACAATTGTGATA
66 AGTGTTTAAAAATACAATTGTGATA
* * * *
30850360 AGTTATATTGTTTAAAAGTGTAATTTGAGATT-GAATTCAG-TCTTCATAATGGTAGCGAATTGT
1 AGTTATATTGTTTAAAAGTGTAATTT-AAATTCG-ATTCAGATATTCATAATGGTAACAAATTGT
*
30850423 GTATTGTTTAAA
64 GTAGTGTTTAAA
30850435 GGTATGGATG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
90 55 0.87
91 8 0.13
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.43
Consensus pattern (90 bp):
AGTTATATTGTTTAAAAGTGTAATTTAAATTCGATTCAGATATTCATAATGGTAACAAATTGTGT
AGTGTTTAAAAATACAATTGTGATA
Found at i:30857220 original size:3 final size:3
Alignment explanation
Indices: 30857212--30857243 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
30857202 ACTAAAATAA
30857212 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
30857244 AAGAGTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:30858383 original size:34 final size:34
Alignment explanation
Indices: 30858309--30858404 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 34
30858299 ACATGCACTT
* *
30858309 ATACAAATATCATATCAGAATGTCACATTACCAA
1 ATACATATATCATATCAGAATGTCATATTACCAA
* * * * *
30858343 AAACATATATCATATCAGAATATCATATTTCTAG
1 ATACATATATCATATCAGAATGTCATATTACCAA
* * *
30858377 ATACATAAATCAGATCAGGATGTCATAT
1 ATACATATATCATATCAGAATGTCATAT
30858405 CAAATTAAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (34 bp):
ATACATATATCATATCAGAATGTCATATTACCAA
Found at i:30858869 original size:17 final size:17
Alignment explanation
Indices: 30858833--30858883 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
30858823 ATAATTTTTT
* *
30858833 TCACATACTTTAACCATA
1 TCACATACTGTCA-CATA
30858851 TCACATACTGTCACATA
1 TCACATACTGTCACATA
*
30858868 TCGACAGA-TGTCACAT
1 TC-ACATACTGTCACAT
30858884 TTCGAGTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.29
Consensus pattern (17 bp):
TCACATACTGTCACATA
Found at i:30859085 original size:17 final size:19
Alignment explanation
Indices: 30859050--30859090 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
30859040 TACCCAATTT
30859050 ACCTGTGTAATCGCACACG
1 ACCTGTGTAATCGCACACG
*
30859069 -CCTGTGTACTC-CACACG
1 ACCTGTGTAATCGCACACG
30859086 ACCTG
1 ACCTG
30859091 GCACACGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (19 bp):
ACCTGTGTAATCGCACACG
Found at i:30861869 original size:94 final size:93
Alignment explanation
Indices: 30861694--30861904 Score: 246
Period size: 94 Copynumber: 2.2 Consensus size: 93
30861684 TAGACCAACC
* * *
30861694 ACAAATCTTATACCCCTGAAGTCTTAGTGGGACAGATTGAATCTACCATAGCGAATCTTATTTCC
1 ACAAATCTTATACCCCTGAAGT-TTAGTGGGACAGATTGAATCTACCATAGCAAATCATATCTCC
* *
30861759 ATGAACTTGCAATGGAGCAGATTGAAATT
65 ATGAACTTGCAATGGAGCAGACTGAAACT
* * * *
30861788 ACAAATCCTATACCCCTGAAGTTATAGTGGGTCGGATTGAAGT-TATCATAGCAAATCATATCTC
1 ACAAATCTTATACCCCTGAAGTT-TAGTGGGACAGATTGAA-TCTACCATAGCAAATCATATCTC
* * * * *
30861852 CCTGAAGTTGTAGTGGAGCAGACTGAAGCT
64 CATGAACTTGCAATGGAGCAGACTGAAACT
30861882 ACAAATCTTAT-CTCCCTGAAGTT
1 ACAAATCTTATAC-CCCTGAAGTT
30861905 GCGATAAAGC
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
93 2 0.02
94 96 0.97
95 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (93 bp):
ACAAATCTTATACCCCTGAAGTTTAGTGGGACAGATTGAATCTACCATAGCAAATCATATCTCCA
TGAACTTGCAATGGAGCAGACTGAAACT
Found at i:30861902 original size:44 final size:44
Alignment explanation
Indices: 30861747--30862194 Score: 255
Period size: 44 Copynumber: 10.0 Consensus size: 44
30861737 TACCATAGCG
* * * * * **
30861747 AATCTTATTTCCATGAACTTGCAATGGAGCAGATTGAAATTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * *
30861791 AATCCTATAC-CCCTGAAGTTATAGTGG-GTCGGATTGAAGTTATCATAGCA
1 AATCTTAT-CTCCCTGAAGTTGTAGTGGAG-CAGATTGAAG----C-TA-CA
* *
30861841 AATCATATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* **
30861885 AATCTTATCTCCCTGAAGTTG-CGATAAAGCAGATTGAA---ACA
1 AATCTTATCTCCCTGAAGTTGTAG-TGGAGCAGATTGAAGCTACA
* * * * * * *
30861926 AATCTTATCTTCCTGAAGTTGCAGTGAAGCAAATTGAAACGAAA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * * *
30861970 AATCTTATAC-CTCTGAAGTTGTAGTAGG-TCGGATTAAATCTACCA
1 AATCTTAT-CTCCCTGAAGTTGTAGT-GGAGCAGATTGAAGCTA-CA
* * * * * * *
30862015 TAGCGAGTCTCATTTCCTTAAATTTGTAGTGGAGTAAATTGAAGCTACA
1 -A---A-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * * *
30862064 AATCTTATCGCCCTGAAATTGTAGTAGCGCAGATTGAAGCTAAA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * **
30862108 AATCTTATCCCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTATG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* ** * *
30862152 AATCTCATCTCCCTGAAGTTGCGGTGGAGTAGATTGAAACTAC
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTAC
30862195 CTTTGAAGTT
Statistics
Matches: 306, Mismatches: 73, Indels: 50
0.71 0.17 0.12
Matches are distributed among these distances:
41 35 0.11
42 1 0.00
43 2 0.01
44 193 0.63
45 6 0.02
46 2 0.01
48 1 0.00
49 8 0.03
50 57 0.19
51 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
Found at i:30861941 original size:41 final size:41
Alignment explanation
Indices: 30861839--30861965 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 41
30861829 GTTATCATAG
* * ** * *
30861839 CAAATCATATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTAAAGCAAATTGAA---A
*
30861883 CAAATCTTATCTCCCTGAAGTTGC-GATAAAGCAGATTGAAA
1 CAAATCTTATCTCCCTGAAGTTGCAG-TAAAGCAAATTGAAA
* *
30861924 CAAATCTTATCTTCCTGAAGTTGCAGTGAAGCAAATTGAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTAAAGCAAATTGAAA
30861965 C
1 C
30861966 GAAAAATCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
41 38 0.52
42 1 0.01
43 1 0.01
44 33 0.45
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (41 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTAAAGCAAATTGAAA
Found at i:30862098 original size:179 final size:180
Alignment explanation
Indices: 30861747--30862138 Score: 416
Period size: 179 Copynumber: 2.2 Consensus size: 180
30861737 TACCATAGCG
* * * ** *
30861747 AATCTTAT-TTCCATGAACTTGCAATGGAGCAGATTGAAATTACAAATCCTATACCCCTGAAGTT
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAAATTGAAACGAAAAATCCTATACCCCTGAAGTT
* * * * *
30861811 ATAGTGGGTCGGATTGAAGTTATCATAGCAAATCATATCTCCCTGAAGTTGTAGTGGAGCAGACT
65 ATAGTAGGTCGGATTGAAATTACCATAGCAAATCATATCTCCCTAAAGTTGTAGTGGAGCAAACT
* * * *
30861876 GAAGCTACAAATCTTATCTCCCTGAAGTTGCGATAAAGCAGATTGAA-ACA
130 GAAGCTACAAATCTTATCGCCCTGAAATTGAGATAAAGCAGATTGAACAAA
* * * *
30861926 AATCTTATCTTCCTGAAGTTGCAGTGAAGCAAATTGAAACGAAAAATCTTATACCTCTGAAGTTG
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAACGAAAAATCCTATACCCCTGAAGTTA
* * * * * * *
30861991 TAGTAGGTCGGATT-AAATCTACCATAGCGAGTC-TCATTTCCTTAAATTTGTAGTGGAGTAAAT
66 TAGTAGGTCGGATTGAAAT-TACCATAGCAAATCAT-ATCTCCCTAAAGTTGTAGTGGAGCAAAC
**
30862054 TGAAGCTACAAATCTTATCGCCCTGAAATTGTAG-TAGCGCAGATTGAAGCTAAA
129 TGAAGCTACAAATCTTATCGCCCTGAAATTG-AGATAAAGCAGATTGAA-C-AAA
** *
30862108 AATCTTATCCCCCTGAAGTTGTAGTGGAGCA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCA
30862139 GATTAAAGCT
Statistics
Matches: 174, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
178 4 0.02
179 136 0.78
180 5 0.03
182 29 0.17
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (180 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAACGAAAAATCCTATACCCCTGAAGTTA
TAGTAGGTCGGATTGAAATTACCATAGCAAATCATATCTCCCTAAAGTTGTAGTGGAGCAAACTG
AAGCTACAAATCTTATCGCCCTGAAATTGAGATAAAGCAGATTGAACAAA
Found at i:30862702 original size:12 final size:12
Alignment explanation
Indices: 30862687--30862711 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30862677 CAGAAACAAT
30862687 AGCAGAAATAGC
1 AGCAGAAATAGC
30862699 AGCAGAAATAGC
1 AGCAGAAATAGC
30862711 A
1 A
30862712 AAAAAAGGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.24, T:0.08
Consensus pattern (12 bp):
AGCAGAAATAGC
Found at i:30866043 original size:14 final size:14
Alignment explanation
Indices: 30865999--30866046 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
30865989 TGCTTTGTAT
*
30865999 ATTATTTATTTTAA
1 ATTATTTATTTAAA
*
30866013 A-TATTT-TTTATAT
1 ATTATTTATTTA-AA
30866026 ATTATTTATTTAAA
1 ATTATTTATTTAAA
30866040 ATTATTT
1 ATTATTT
30866047 TATATATCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.11
13 7 0.25
14 14 0.50
15 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTTATTTAAA
Found at i:30866047 original size:26 final size:26
Alignment explanation
Indices: 30865727--30866246 Score: 259
Period size: 26 Copynumber: 20.3 Consensus size: 26
30865717 ATATCACCTT
30865727 TTTTAAATTGTTTTAT-TATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
*** * ** *
30865752 TTTTGGGTT-TTTCACCTATTATATA
1 TTTTAAATTGTTTTATATATTATTTA
* * * **
30865777 TTTTAAACTATTTCGA-ACTATTATCCA
1 TTTTAAATTGTTT-TATA-TATTATTTA
*
30865804 TTTTAAATT-TTTTATATATAATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* * *
30865829 TTTTAAACTGTTATATATATTACTTA
1 TTTTAAATTGTTTTATATATTATTTA
* * *
30865855 -TATAGAATCGTTTT-TTTA-TATATT-
1 TTTTA-AATTGTTTTATATATTAT-TTA
* * * *
30865879 TTTTAAACTGTTTTGTACATTCTTTA
1 TTTTAAATTGTTTTATATATTATTTA
* *
30865905 TTTTAAATTTCTTTTTACATATTATTTA
1 TTTTAAA-TT-GTTTTATATATTATTTA
** * *
30865933 CCTTAAA--GTCTTT-TACA-T-GTTA
1 TTTTAAATTGT-TTTATATATTATTTA
*
30865955 TTTTAAAGTGTCTTT-TATATTATTTA
1 TTTTAAATTGT-TTTATATATTATTTA
* *
30865981 TTTTAAATTGCTTTGTATATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
*
30866007 TTTTAAATATTTTTTATATATTATTTA
1 TTTTAAAT-TGTTTTATATATTATTTA
* * * *
30866034 TTTAAAATTATTTTATATATCATCTA
1 TTTTAAATTGTTTTATATATTATTTA
* ** * *
30866060 TCTTAAATT-TTCACATATAATATTCA
1 TTTTAAATTGTT-TTATATATTATTTA
* * * * *
30866086 ATGTAAACTGTTTTATATGTTATTCA
1 TTTTAAATTGTTTTATATATTATTTA
30866112 TTTTAAA-T-TTTT-TATATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* *
30866135 TTTTAAGTTGCTTTAT-TATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* * *
30866160 TTTTAAGTTTTTTTATACATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* * *
30866186 TTTGAAACTGTTTTTTATATACTATTTA
1 TTTTAAA-T-TGTTTTATATATTATTTA
* * * * *
30866214 CTTGAAGTTGTTTCATTTATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
30866240 TTTTAAA
1 TTTTAAA
30866247 CCTTTTATAT
Statistics
Matches: 368, Mismatches: 98, Indels: 57
0.70 0.19 0.11
Matches are distributed among these distances:
22 8 0.02
23 16 0.04
24 30 0.08
25 85 0.23
26 148 0.40
27 43 0.12
28 38 0.10
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (26 bp):
TTTTAAATTGTTTTATATATTATTTA
Found at i:30866222 original size:54 final size:53
Alignment explanation
Indices: 30866146--30866247 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
30866136 TTTAAGTTGC
* * * * *
30866146 TTTATTATTATTTATTTTAAGTTTTTTTATACATTATTTATTTGAAACTGTTT
1 TTTATTACTATTTACTTGAAGTTGTTTCATACATTATTTATTTGAAACTGTTT
** *
30866199 TTTATATACTATTTACTTGAAGTTGTTTCATTTATTATTTATTTTAAAC
1 TTTAT-TACTATTTACTTGAAGTTGTTTCATACATTATTTATTTGAAAC
30866248 CTTTTATATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 5 0.12
54 35 0.88
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (53 bp):
TTTATTACTATTTACTTGAAGTTGTTTCATACATTATTTATTTGAAACTGTTT
Found at i:30866253 original size:79 final size:75
Alignment explanation
Indices: 30866119--30866262 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 75
30866109 TCATTTTAAA
* * ***
30866119 TTTTTTATATTATTTATTTTAAGTTGCTTTATTATTATTTATTTTAAGTTTTTTTATACATTATT
1 TTTTTTATATTATTTACTTGAAGTTGCTTTATTATTATTTATTTTAAGACCTTTTAT--ATTATT
30866184 TATTTGAAACTG
64 TATTTGAAACTG
30866196 TTTTTTATATACTATTTACTTGAAGTTG-TTTCATTTATTATTTATTTTAA-ACCTTTTATATTA
1 TTTTTTATAT--TATTTACTTGAAGTTGCTTT-A-TTATTATTTATTTTAAGACCTTTTATATTA
30866259 TTTA
62 TTTA
30866263 CCCTAAATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
77 18 0.31
78 3 0.05
79 21 0.36
80 16 0.28
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (75 bp):
TTTTTTATATTATTTACTTGAAGTTGCTTTATTATTATTTATTTTAAGACCTTTTATATTATTTA
TTTGAAACTG
Found at i:30875173 original size:36 final size:36
Alignment explanation
Indices: 30875126--30875198 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
30875116 CAATCTCGGA
*
30875126 TGAAGTGATCTAGCGAACCTGATAAACATATTAATT
1 TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
30875162 TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
1 TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
30875198 T
1 T
30875199 ACATGATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (36 bp):
TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
Found at i:30875435 original size:5 final size:5
Alignment explanation
Indices: 30875419--30875477 Score: 73
Period size: 5 Copynumber: 11.0 Consensus size: 5
30875409 TAAGAAGATA
*
30875419 TTATT TTGTT TTATT TTATT TTATTAT TTATTT TTATTT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTA-T-T TTA-TT TTA-TT TTATT TTATT
30875468 TTATT TTATT
1 TTATT TTATT
30875478 AATTTAGGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
5 33 0.66
6 11 0.22
7 6 0.12
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:30875446 original size:23 final size:24
Alignment explanation
Indices: 30875417--30875474 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
30875407 AATAAGAAGA
30875417 TATTATTT-TGTTTTA-TTTTATTT
1 TATTATTTAT-TTTTATTTTTATTT
30875440 TATTATTTATTTTTATTTTTATTT
1 TATTATTTATTTTTATTTTTATTT
30875464 TA-T-TTTATTTT
1 TATTATTTATTTT
30875475 ATTAATTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.24
23 14 0.42
24 11 0.33
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (24 bp):
TATTATTTATTTTTATTTTTATTT
Found at i:30879937 original size:4 final size:4
Alignment explanation
Indices: 30879928--30879954 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
30879918 TTTACACAAA
30879928 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
30879955 AGATTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:30880563 original size:5 final size:5
Alignment explanation
Indices: 30880547--30880606 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
30880537 TAGGAAGATA
* * * *
30880547 TTATT TTGTT TTATT TTATT TTATT ATT-TA TTA-T TTATTT TTAAT TTAAT
1 TTATT TTATT TTATT TTATT TTATT -TTATT TTATT TTA-TT TTATT TTATT
30880597 TTATT TTATT
1 TTATT TTATT
30880607 AATTTAGGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 5 0.11
5 34 0.76
6 6 0.13
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:30880579 original size:30 final size:30
Alignment explanation
Indices: 30880545--30880601 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30880535 AATAGGAAGA
* *
30880545 TATTATTT-TGTTTTATTTTATTTTATTATT
1 TATTATTTAT-TTTTAATTTAATTTATTATT
30880575 TATTATTTATTTTTAATTTAATTTATT
1 TATTATTTATTTTTAATTTAATTTATT
30880602 TTATTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (30 bp):
TATTATTTATTTTTAATTTAATTTATTATT
Found at i:30894494 original size:23 final size:23
Alignment explanation
Indices: 30894468--30894516 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
30894458 CCCTGTTCAC
30894468 TGCTTTTGATTGAGTTAATGTTA
1 TGCTTTTGATTGAGTTAATGTTA
30894491 TGCTTTTGATTGAGTTAATGTTA
1 TGCTTTTGATTGAGTTAATGTTA
30894514 TGC
1 TGC
30894517 ATTAATCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.51
Consensus pattern (23 bp):
TGCTTTTGATTGAGTTAATGTTA
Found at i:30894602 original size:20 final size:18
Alignment explanation
Indices: 30894577--30894614 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
30894567 AAGTAAATTG
30894577 TATTATTTTAATAATATTTT
1 TATTA-TTTAAT-ATATTTT
30894597 TATTATTTAATATATTTT
1 TATTATTTAATATATTTT
30894615 ATATGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 6 0.33
20 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTATTTAATATATTTT
Found at i:30897968 original size:22 final size:23
Alignment explanation
Indices: 30897936--30897978 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
30897926 GAGTATCTAC
*
30897936 AAATCAAATC-TCTAATATTATA
1 AAATCAAATCTTCTAAGATTATA
*
30897958 AAATCATATCTTCTAAGATTA
1 AAATCAAATCTTCTAAGATTA
30897979 CATATCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTATA
Found at i:30897984 original size:17 final size:17
Alignment explanation
Indices: 30897962--30898014 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
30897952 ATTATAAAAT
30897962 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
30897979 CATATCATATCTAATATTG
1 CATATC-T-TCTAAGATTA
*
30897998 CATATCTTCGAAGATTA
1 CATATCTTCTAAGATTA
30898015 TGTTTCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:30903043 original size:22 final size:23
Alignment explanation
Indices: 30903016--30903060 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30903006 GGGTATCTAC
30903016 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
30903038 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
30903061 CATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:30903065 original size:22 final size:22
Alignment explanation
Indices: 30903013--30903070 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
30903003 AAAGGGTATC
*
30903013 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
30903034 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
30903057 TACACATCATATCT
1 TACAAATCATATCT
30903071 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:30903093 original size:17 final size:17
Alignment explanation
Indices: 30903042--30903094 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
30903032 ATTACAAAAT
30903042 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
30903059 CACATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
30903078 CATATCTTCAAAGATTA
1 CATATCTTCTAAGATTA
30903095 TATTTCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:30906578 original size:53 final size:53
Alignment explanation
Indices: 30906422--30906587 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
30906412 GACGAAAAAT
* **
30906422 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCTTCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGTATA
*
30906474 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGTATA
* *
30906527 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCTTCGGTAT-A
30906581 TATGTGA
1 -ATGTGA
30906588 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 80 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGTATA
Found at i:30910456 original size:23 final size:25
Alignment explanation
Indices: 30910416--30910463 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
30910406 TAAAAAAATT
* *
30910416 AATTTATT-AAATATTAAATTAAAA
1 AATTTATTAAAAAATAAAATTAAAA
30910440 AATTT-TTAAAAAATAAAATTAAAA
1 AATTTATTAAAAAATAAAATTAAAA
30910464 TAATATGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATTTATTAAAAAATAAAATTAAAA
Found at i:30915130 original size:10 final size:9
Alignment explanation
Indices: 30915115--30915162 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 9
30915105 TAATTTTAGG
30915115 ATTTATTTT
1 ATTTATTTT
30915124 CATTTATCTTT
1 -ATTTAT-TTT
*
30915135 AATTATCTTT
1 ATTTAT-TTT
30915145 ATTTATTTAT
1 ATTTATTT-T
30915155 ATTTATTT
1 ATTTATTT
30915163 GTTAGAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.85
11 3 0.09
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTATTTT
Found at i:30916055 original size:10 final size:10
Alignment explanation
Indices: 30916033--30916068 Score: 58
Period size: 9 Copynumber: 3.8 Consensus size: 10
30916023 CCCTTATACT
30916033 ATTATTTTT-
1 ATTATTTTTA
30916042 ATTATTTTTA
1 ATTATTTTTA
30916052 ATTATTTTTA
1 ATTATTTTTA
30916062 A-TATTTT
1 ATTATTTT
30916069 ATAGGGATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 15 0.58
10 11 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTATTTTTA
Found at i:30918803 original size:3 final size:3
Alignment explanation
Indices: 30918795--30918948 Score: 100
Period size: 3 Copynumber: 52.0 Consensus size: 3
30918785 AGTTTTATAT
* *
30918795 TTA TTA TTA TTA TTA -TA TTTA TTA TTA TTT TTA GTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
30918839 TCTG TTA TTA CTG TTA CTA CTA TTT TTA TTA GTA TTG TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
30918885 TTA TT- TTA TCA CTA CTG TCA TTA TTA TTA -TA GTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
30918931 TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
30918949 CTATAATTTT
Statistics
Matches: 115, Mismatches: 30, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
2 7 0.06
3 105 0.91
4 3 0.03
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:30918810 original size:18 final size:18
Alignment explanation
Indices: 30918789--30918838 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
30918779 AAATTAAGTT
30918789 TTATATTTATTATTATTA
1 TTATATTTATTATTATTA
*
30918807 TTATATTTATTATTATTT
1 TTATATTTATTATTATTA
30918825 TTAGTA-TTATTATT
1 TTA-TATTTATTATT
30918839 TCTGTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 28 0.93
19 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATATTTATTATTATTA
Found at i:30919048 original size:25 final size:25
Alignment explanation
Indices: 30919018--30919068 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
30919008 TCACTTTCAA
30919018 TTTAAATTAAATTCTCGCTAGAATT
1 TTTAAATTAAATTCTCGCTAGAATT
30919043 TTTAAATTAAATTCTCGCTAGAATT
1 TTTAAATTAAATTCTCGCTAGAATT
30919068 T
1 T
30919069 CCTTTGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (25 bp):
TTTAAATTAAATTCTCGCTAGAATT
Found at i:30919099 original size:21 final size:20
Alignment explanation
Indices: 30919075--30919116 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
30919065 ATTTCCTTTG
30919075 TTATTTCATTAATTATTTTAT
1 TTATTTCATT-ATTATTTTAT
*
30919096 TTATTTCATTTTTATTTTAT
1 TTATTTCATTATTATTTTAT
30919116 T
1 T
30919117 CTTGTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTTCATTATTATTTTAT
Found at i:30919149 original size:15 final size:14
Alignment explanation
Indices: 30919121--30919159 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
30919111 TTTATTCTTG
30919121 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
30919136 TCTTATTATATATTA
1 TCCTATTAT-TATTA
30919151 TCCTATTAT
1 TCCTATTAT
30919160 GTAGGTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:30922241 original size:41 final size:41
Alignment explanation
Indices: 30922196--30922278 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
30922186 GAGAGAGAGA
30922196 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
1 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
30922237 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
1 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
30922278 T
1 T
30922279 TAAATTGATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (41 bp):
TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
Found at i:30925954 original size:24 final size:26
Alignment explanation
Indices: 30925924--30925973 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
30925914 TGACAAATTT
30925924 TTAAA-TTTTAAAAATAAAAA-AAAA
1 TTAAATTTTTAAAAATAAAAATAAAA
30925948 TTAAATTTTTAAAAATAAAAATAAAA
1 TTAAATTTTTAAAAATAAAAATAAAA
30925974 ATAATAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.21
25 15 0.62
26 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAATTTTTAAAAATAAAAATAAAA
Found at i:30925969 original size:21 final size:21
Alignment explanation
Indices: 30925939--30926003 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
30925929 TTTTAAAAAT
*
30925939 AAAA-AAAAATTAAATTTTTA
1 AAAATAAAAATTAAATTTATA
* * *
30925959 AAAATAAAAATAAAAATAATA
1 AAAATAAAAATTAAATTTATA
* *
30925980 AAACTAAAATTTAAATTTATA
1 AAAATAAAAATTAAATTTATA
30926001 AAA
1 AAA
30926004 TACATAAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATAAAAATTAAATTTATA
Found at i:30931343 original size:18 final size:18
Alignment explanation
Indices: 30931320--30931354 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30931310 ATTAAAACTC
30931320 TCTTGAATACACCAACCT
1 TCTTGAATACACCAACCT
*
30931338 TCTTGAATACTCCAACC
1 TCTTGAATACACCAACC
30931355 ATCAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.34, G:0.06, T:0.29
Consensus pattern (18 bp):
TCTTGAATACACCAACCT
Found at i:30941152 original size:99 final size:99
Alignment explanation
Indices: 30941023--30941218 Score: 288
Period size: 99 Copynumber: 2.0 Consensus size: 99
30941013 TTTTTGAAGC
* ** *
30941023 ATCAATGACTCGTTCTGTTAAGGTGTGGTGGTAACTATGACACAAAATCAAATTTAAAA-AA-TT
1 ATCAACGACTCGTTCTGTTAAGGTGTGGTGGTAACTACAACAAAAAATCAAA-TTAAAAGAATTT
30941086 AAAAATAATAAAAGCAACTAAAAACAATAAAAAAAA
65 AAAAA-AATAAAAGCAACTAAAAACAATAAAAAAAA
* * *
30941122 ATCAACGACTCTTTCTGTTAAGGTGTGGTGGTACCTACAACAAAAAATCAAATTAAAAGAATTTT
1 ATCAACGACTCGTTCTGTTAAGGTGTGGTGGTAACTACAACAAAAAATCAAATTAAAAGAATTTA
*
30941187 AAAAAATAAAAGCAACTAAACACAATAAAAAA
66 AAAAAATAAAAGCAACTAAAAACAATAAAAAA
30941219 TATAATTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 6 0.07
99 75 0.86
100 6 0.07
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.24
Consensus pattern (99 bp):
ATCAACGACTCGTTCTGTTAAGGTGTGGTGGTAACTACAACAAAAAATCAAATTAAAAGAATTTA
AAAAAATAAAAGCAACTAAAAACAATAAAAAAAA
Found at i:30948429 original size:19 final size:20
Alignment explanation
Indices: 30948405--30948442 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30948395 AAAATGAAAT
30948405 AAAAT-GAATAAATA-AATAC
1 AAAATGGAA-AAATATAATAC
30948424 AAAATGGAAAAATATAATA
1 AAAATGGAAAAATATAATA
30948443 ATAATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAATGGAAAAATATAATAC
Found at i:30948513 original size:20 final size:20
Alignment explanation
Indices: 30948477--30948514 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30948467 AATAGGACAA
*
30948477 TAATAATAGTAATAATAAAG
1 TAATAATAGTAAAAATAAAG
30948497 TAATAA-AGTAGAAAATAA
1 TAATAATAGTA-AAAATAA
30948515 TAATGGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (20 bp):
TAATAATAGTAAAAATAAAG
Found at i:30948723 original size:15 final size:16
Alignment explanation
Indices: 30948626--30948724 Score: 55
Period size: 15 Copynumber: 6.3 Consensus size: 16
30948616 GATAGGAAAC
* *
30948626 AATAATGATAAAAGAA
1 AATAATAATAATAGAA
* *
30948642 AATAATAATACTA-AT
1 AATAATAATAATAGAA
* *
30948657 AATGGA-AGTAAT-GAA
1 AAT-AATAATAATAGAA
30948672 AATAATAATAATAG-A
1 AATAATAATAATAGAA
* *
30948687 AACAATAGTAATA-AA
1 AATAATAATAATAGAA
*
30948702 AGTAATAATAAAATAGAA
1 AATAATAAT--AATAGAA
30948720 AATAA
1 AATAA
30948725 CAATGATACA
Statistics
Matches: 59, Mismatches: 16, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
14 1 0.02
15 36 0.61
16 12 0.20
17 4 0.07
18 6 0.10
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (16 bp):
AATAATAATAATAGAA
Found at i:30949411 original size:24 final size:24
Alignment explanation
Indices: 30949379--30949427 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
30949369 CTTTTTGCAA
30949379 GCAAGTGGGGTGATGGAGTTAGTG
1 GCAAGTGGGGTGATGGAGTTAGTG
*
30949403 GCAAGTGGGTTGATGGAGTTAGTG
1 GCAAGTGGGGTGATGGAGTTAGTG
30949427 G
1 G
30949428 TTGGTTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (24 bp):
GCAAGTGGGGTGATGGAGTTAGTG
Found at i:30949438 original size:12 final size:12
Alignment explanation
Indices: 30949421--30949451 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
30949411 GTTGATGGAG
30949421 TTAGTGGTTGGT
1 TTAGTGGTTGGT
30949433 TTAGTGGTTGGT
1 TTAGTGGTTGGT
30949445 TTAGTGG
1 TTAGTGG
30949452 GGTGCTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (12 bp):
TTAGTGGTTGGT
Found at i:30950097 original size:132 final size:132
Alignment explanation
Indices: 30949806--30950789 Score: 1321
Period size: 132 Copynumber: 7.5 Consensus size: 132
30949796 CACTACATGG
* * * * *
30949806 AGATAAGATTCGCCATCTTCGATCTGATCCACTACTACTTAGGGAGATAAGATCTACAATTTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* ** * ** *
30949871 GTATGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTAACTTAAATCTGC-TCCATTGC--CGCT
66 GTCTGCTCCACTGCTGC-TTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCC-CTGCTAC-CT
*
30949933 AC-ATGG
128 -CGA-GA
* *
30949939 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * ** * * * ** *
30950004 GTCTACTCTACTGCAACTCAGGGAGATGAGGCTAGTGGCCTAAATCTGCTTCTTTACTACCTCGA
66 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTCGA
30950069 GA
131 GA
* * * * *
30950071 AGATAAGATTCACTGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* *
30950136 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTTGG
66 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTCGA
30950201 GA
131 GA
* * *
30950203 AGATAAGATTCGCCGTCTTCGATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* *
30950268 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTTGG
66 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTCGA
30950333 GA
131 GA
* * *
30950335 AGATAAGATTCGCCGTCTTCGATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* *
30950400 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTTGG
66 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTCGA
30950465 GA
131 GA
* * *
30950467 AGATAAGATTCGCCGTCTTCGATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
*
30950532 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGA
66 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTCGA
*
30950597 AA
131 GA
* * * * * *
30950599 AGATAATATTCACCGTCTTCGATATACTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * * *
30950664 GCCTGC-ACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGA
66 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTCGA
*
30950728 AA
131 GA
* * * *
30950730 AGATAATATTCACCGTCTTCGATATACTCCACTACTGCTTAGGGAGATAAGATCTGCAAT
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT
30950790 TTTCTCCAGT
Statistics
Matches: 787, Mismatches: 60, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
131 115 0.15
132 592 0.75
133 79 0.10
134 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (132 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTGCTACCTCGA
GA
Found at i:30950121 original size:44 final size:44
Alignment explanation
Indices: 30950093--30950561 Score: 281
Period size: 44 Copynumber: 10.7 Consensus size: 44
30950083 CTGTCTTTGA
*
30950093 TCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
* * ** * *
30950137 TCTGCTCCACTGCTGCTTAGGGAGATAAG-GCTAGT-GGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTAATCTTCAG
* * ***
30950180 TCTGCTTCC-CTGCTACCTT-GGGAAGATAAGAT-TCGCCGTCTTC-G
1 TCTGC-TCCACTACT-GCTTAGGG-AGATAAGATCT-GTAATCTTCAG
* *
30950224 ATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
* * ** * *
30950269 TCTGCTCCACTGCTGCTTAGGGAGATAAG-GCTAGT-GGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTAATCTTCAG
* * ***
30950312 TCTGCTTCC-CTGCTACCTT-GGGAAGATAAGAT-TCGCCGTCTTC-G
1 TCTGC-TCCACTACT-GCTTAGGG-AGATAAGATCT-GTAATCTTCAG
* *
30950356 ATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
* * ** * *
30950401 TCTGCTCCACTGCTGCTTAGGGAGATAAG-GCTAGT-GGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTAATCTTCAG
* * ***
30950444 TCTGCTTCC-CTGCTACCTT-GGGAAGATAAGAT-TCGCCGTCTTC-G
1 TCTGC-TCCACTACT-GCTTAGGG-AGATAAGATCT-GTAATCTTCAG
* *
30950488 ATTTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
*
30950533 TCTGCTCCACTGCTGCTTAGGGAGATAAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAG
30950562 GCTAGTGGCT
Statistics
Matches: 324, Mismatches: 68, Indels: 66
0.71 0.15 0.14
Matches are distributed among these distances:
43 57 0.18
44 219 0.68
45 48 0.15
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
Found at i:30950559 original size:88 final size:89
Alignment explanation
Indices: 30949889--30950561 Score: 302
Period size: 88 Copynumber: 7.7 Consensus size: 89
30949879 CACTGCAACT
* * * * * * * *
30949889 TTAGGGAGATAAG-GCTGGTAA-CTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGC
1 TTAGGGAGATAAGATCTAGTAATCTTCAGTCTGCTCCACTGCTGCT-TAGGGAGATAAGATTCGC
*
30949952 CGTCTTCGATCTGCTCCACTACTGC
65 CGTCTTCGATCTGCTCCATTACTGC
* * * * * ** * * ** * *
30949977 TTAGGGAGATAAGATCT-GCAATTTTTAGTCTACTCTACTGCAACTCAGGGAGATGAGGCTAG-T
1 TTAGGGAGATAAGATCTAGTAATCTTCAGTCTGCTCCACTGCTGCTTAGGGAGATAAGATTCGCC
* * ** * * *
30950040 GGCCTAAATCTGCTTCTTTACTAC
66 GTCTTCGATCTGCTCCATTACTGC
* * * * * * * *
30950064 CTCGAGAAGATAAGAT-TCACT-GTCTT-TGATCTGCTCTACTACTGCTTAGGGAGATAAGA-TC
1 TTAG-GGAGATAAGATCT-AGTAATCTTCAG-TCTGCTCCACTGCTGCTTAGGGAGATAAGATTC
*** * *
30950125 TGTAATCTTC-AGTCTGCTCCACTGCTGC
63 -GCCGTCTTCGA-TCTGCTCCATTACTGC
* ** * * *
30950153 TTAGGGAGATAAG-GCTAGT-GGCTTAAATCTGCTTCC-CTGCTACCTT-GGGAAGATAAGATTC
1 TTAGGGAGATAAGATCTAGTAATCTTCAGTCTGC-TCCACTGCT-GCTTAGGG-AGATAAGATTC
*
30950214 GCCGTCTTCGATTTGCTCCATTACTGC
63 GCCGTCTTCGATCTGCTCCATTACTGC
** * *
30950241 TTAGGGAGATAAGATCT-GTAATCTTCAGTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAG-T
1 TTAGGGAGATAAGATCTAGTAATCTTCAGTCTGCTCCACTGCTGCTTAGGGAGATAAGATTCGCC
* ** *
30950304 GGCTTAAATCTGCTTCCCTGCTAC--C
66 GTCTTCGATCTGC-TCCAT--TACTGC
* *** * * *
30950329 TT-GGGAAGATAAGAT-TCGCCGTCTTC-GATTTGCTCCATTACTGCTTAGGGAGATAAGA-TCT
1 TTAGGG-AGATAAGATCTAGTAATCTTCAG-TCTGCTCCACTGCTGCTTAGGGAGATAAGATTC-
*** * *
30950390 GTAATCTTC-AGTCTGCTCCACTGCTGC
63 GCCGTCTTCGA-TCTGCTCCATTACTGC
* ** * * *
30950417 TTAGGGAGATAAG-GCTAGT-GGCTTAAATCTGCTTCC-CTGCTACCTT-GGGAAGATAAGATTC
1 TTAGGGAGATAAGATCTAGTAATCTTCAGTCTGC-TCCACTGCT-GCTTAGGG-AGATAAGATTC
*
30950478 GCCGTCTTCGATTTGCTCCATTACTGC
63 GCCGTCTTCGATCTGCTCCATTACTGC
30950505 TTAGGGAGATAAGATCT-GTAATCTTCAGTCTGCTCCACTGCTGCTTAGGGAGATAAG
1 TTAGGGAGATAAGATCTAGTAATCTTCAGTCTGCTCCACTGCTGCTTAGGGAGATAAG
30950562 GCTAGTGGCT
Statistics
Matches: 423, Mismatches: 119, Indels: 86
0.67 0.19 0.14
Matches are distributed among these distances:
86 2 0.00
87 68 0.16
88 263 0.62
89 87 0.21
90 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (89 bp):
TTAGGGAGATAAGATCTAGTAATCTTCAGTCTGCTCCACTGCTGCTTAGGGAGATAAGATTCGCC
GTCTTCGATCTGCTCCATTACTGC
Found at i:30951396 original size:25 final size:25
Alignment explanation
Indices: 30951359--30951418 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
30951349 TTAAGTTGGG
30951359 TAAGTT-CTAAACAATAGTCCTGTTT
1 TAAGTTCCT-AACAATAGTCCTGTTT
*
30951384 TAAGTTCCTAACAATAGTCTTGTTT
1 TAAGTTCCTAACAATAGTCCTGTTT
*
30951409 CAAGTTCCTA
1 TAAGTTCCTA
30951419 CACTGTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (25 bp):
TAAGTTCCTAACAATAGTCCTGTTT
Found at i:30951905 original size:20 final size:19
Alignment explanation
Indices: 30951882--30951925 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
30951872 TGGCCTCTCC
* *
30951882 TTTTTCTTTTTTCTTTTCTT
1 TTTTTCTGTTTTCTCTT-TT
*
30951902 TTTTTGTGTTTTCTCTTTT
1 TTTTTCTGTTTTCTCTTTT
30951921 TTTTT
1 TTTTT
30951926 GAAACTACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (19 bp):
TTTTTCTGTTTTCTCTTTT
Found at i:30956445 original size:50 final size:50
Alignment explanation
Indices: 30956370--30956545 Score: 188
Period size: 50 Copynumber: 3.7 Consensus size: 50
30956360 CCATGGCAAC
* * *
30956370 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGGACAAATGG
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
30956420 AAGTGATAAGTAATAGCTTGGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
30956470 AAGTG---A-T-A-A-CTTCGGCTACATTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * ** *
30956513 CAATTGAAAAGTGGTAGCTTCTGCTAC-CTTATC
1 -AAGTGATAAGTAATAGCTTCGGCTACACTTATC
30956546 AGTGAAAAGT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 31 0.29
44 5 0.05
45 1 0.01
46 1 0.01
47 2 0.02
48 1 0.01
50 56 0.53
51 9 0.08
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:30956544 original size:93 final size:94
Alignment explanation
Indices: 30956368--30956545 Score: 243
Period size: 93 Copynumber: 1.9 Consensus size: 94
30956358 GACCATGGCA
* * * *
30956368 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGGACAAATGGAAGTGATAAGTAA
1 ACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATGCAAGTGAAAAGTAA
*
30956433 TAGCTTGGGCTACACTTATCTGATCAAGG
66 TAGCTTCGGCTACACTTATCTGATCAAGG
* * *
30956462 ACAAGTGA-AAGTGATAACTTCGGCTACATTTATCTGATCAAGGACAAATGACAATTGAAAAGTG
1 ACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATG-CAAGTGAAAAGTA
* *
30956526 GTAGCTTCTGCTAC-CTTATC
65 ATAGCTTCGGCTACACTTATC
30956546 AGTGAAAAGT
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
93 45 0.62
94 28 0.38
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (94 bp):
ACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATGCAAGTGAAAAGTAA
TAGCTTCGGCTACACTTATCTGATCAAGG
Found at i:30956555 original size:31 final size:31
Alignment explanation
Indices: 30956517--30956601 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
30956507 AAATGACAAT
* *
30956517 TGAAAAGTGGTAGCTTCTGCTACCTTATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
30956548 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
30956579 TGAATAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
30956602 AAGTGACAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:30956742 original size:46 final size:47
Alignment explanation
Indices: 30956627--30956742 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 47
30956617 TCCGTATAAA
* * *
30956627 ACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTATACG
1 ACCATATCTGGGATATGGCATCAGTGAGATATATGATACTGTATACG
* *
30956674 ACTATATCTGGGATATGGCATCAGTGAGATATATGATTCGTGTA-A-G
1 ACCATATCTGGGATATGGCATCAGTGAGATATATGATAC-TGTATACG
* *
30956720 ACCATAGCTGGGCTATGGCATCA
1 ACCATATCTGGGATATGGCATCA
30956743 TTATGTGAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
46 21 0.35
47 35 0.58
48 4 0.07
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (47 bp):
ACCATATCTGGGATATGGCATCAGTGAGATATATGATACTGTATACG
Found at i:30958423 original size:12 final size:12
Alignment explanation
Indices: 30958403--30958440 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30958393 TCTTAGCCAG
30958403 TTGTTCTTGCAT
1 TTGTTCTTGCAT
*
30958415 TTGTGCTTGC-T
1 TTGTTCTTGCAT
30958426 TCTGTTCTTGCAT
1 T-TGTTCTTGCAT
30958439 TT
1 TT
30958441 CCTTTTGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.05, C:0.18, G:0.18, T:0.58
Consensus pattern (12 bp):
TTGTTCTTGCAT
Found at i:30959419 original size:65 final size:65
Alignment explanation
Indices: 30959315--30959544 Score: 451
Period size: 65 Copynumber: 3.5 Consensus size: 65
30959305 ATTTCCTTAT
30959315 GGCCATGCGGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGAAAGCAGTTCACTA
1 GGCCATGCGGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGAAAGCAGTTCACTA
30959380 GGCCATGCGGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGAAAGCAGTTCACTA
1 GGCCATGCGGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGAAAGCAGTTCACTA
30959445 GGCCATGCGGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGAAAGCAGTTCACTA
1 GGCCATGCGGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGAAAGCAGTTCACTA
*
30959510 GGCCATGCGGAGGTGAAAACCTCACGAAGGCATAG
1 GGCCATGCGGAGGTGAAAACCTCACGAAGACATAG
30959545 TTTCTCACTC
Statistics
Matches: 164, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 164 1.00
ACGTcount: A:0.32, C:0.23, G:0.29, T:0.16
Consensus pattern (65 bp):
GGCCATGCGGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGAAAGCAGTTCACTA
Found at i:30961002 original size:3 final size:3
Alignment explanation
Indices: 30960987--30961283 Score: 83
Period size: 3 Copynumber: 99.7 Consensus size: 3
30960977 ATGTTATGTA
* * * *
30960987 AAT AAT GAT AAT AAT AA- AAT AA- AA- AAT AGT AAT AAT AGT -AT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
30961031 TAT AAT AAT AGGA- AAC AAT AAT GAT AA- AAG AA- AAT AAT AGT AAT
1 AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
30961075 AAT GGAAGT AAT GAA- AAT AAT AAT AAT AGA- AAC AAT AGT AAT AA-
1 AAT --AA-T AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* *
30961119 AAGT AAT AAT AA- AAT AGA- AAT AAC AAT GAT ACATT AAT AAT AAT AAT
1 AA-T AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT
* ** * * *
30961166 -AT ACGT GCT AAT AAT AAT AAC AAT -AT AA- AAA AAG AA- AAT AA-
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
30961207 AACT -AT ATT AAT AAA AAT AAT AAT AAT AGGTT AAT AAT AAT AGT AAT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT
* *
30961254 AAA AAGGT AAA AAT AAT AAT AA- AAT AAT AA
1 AAT AA--T AAT AAT AAT AAT AAT AAT AAT AA
30961284 AAACACTATT
Statistics
Matches: 217, Mismatches: 42, Indels: 70
0.66 0.13 0.21
Matches are distributed among these distances:
2 33 0.15
3 162 0.75
4 12 0.06
5 9 0.04
6 1 0.00
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:30961115 original size:30 final size:29
Alignment explanation
Indices: 30961032--30961130 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 29
30961022 TAGTATATTT
* * *
30961032 ATAATAATAGGAAACAATAATGATAAAAGA
1 ATAATAATA-GAAACAATAGTAATAAAATA
* *
30961062 A-AATAATAGTAATAATGGAAGTAATGAAAATA
1 ATAATAATAGAAACAAT---AGTAAT-AAAATA
30961094 ATAATAATAGAAACAATAGTAATAAAAGTA
1 ATAATAATAGAAACAATAGTAATAAAA-TA
30961124 ATAATAA
1 ATAATAA
30961131 AATAGAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
28 6 0.11
29 11 0.20
30 16 0.29
31 4 0.07
32 6 0.11
33 13 0.23
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (29 bp):
ATAATAATAGAAACAATAGTAATAAAATA
Found at i:30961240 original size:23 final size:23
Alignment explanation
Indices: 30961214--30961279 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
30961204 TAAAACTATA
30961214 TTAATAAAAATAATAATAATAGG
1 TTAATAAAAATAATAATAATAGG
* * *
30961237 TTAATAATAATAGTAATAAAAAGG
1 TTAATAAAAATAATAAT-AATAGG
30961261 -TAA-AAATAATAATAA-AATA
1 TTAATAAA-AATAATAATAATA
30961280 ATAAAAACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 2 0.06
23 25 0.71
24 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.29
Consensus pattern (23 bp):
TTAATAAAAATAATAATAATAGG
Found at i:30961284 original size:20 final size:20
Alignment explanation
Indices: 30961215--30961286 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
30961205 AAAACTATAT
*
30961215 TAATAAAAATAATAATAATAGGT
1 TAATAAAAATAATAATAA-A--A
* *
30961238 TAATAATAATAGTAATAAAA
1 TAATAAAAATAATAATAAAA
*
30961258 -AGGTAAAAATAATAATAAAA
1 TA-ATAAAAATAATAATAAAA
30961278 TAATAAAAA
1 TAATAAAAA
30961287 CACTATTACG
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 21 0.52
21 1 0.03
22 1 0.03
23 16 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
TAATAAAAATAATAATAAAA
Found at i:30961365 original size:21 final size:21
Alignment explanation
Indices: 30961319--30961371 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 21
30961309 ATAATAAAAA
*
30961319 AGAA-AATAGTAATAGTATAT
1 AGAATAATAGTAAAAGTATAT
30961339 AGAATAATAGTAAAAGTA-AT
1 AGAATAATAGTAAAAGTATAT
*
30961359 --AATAATATTAAAA
1 AGAATAATAGTAAAA
30961372 ATAACACACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 12 0.40
20 6 0.20
21 12 0.40
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (21 bp):
AGAATAATAGTAAAAGTATAT
Found at i:30961553 original size:5 final size:5
Alignment explanation
Indices: 30961543--30961584 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
30961533 CTTTCGTATG
30961543 TAAAA TAAAA TAAAA TAAAA TTGAAAGA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA -T-AAA-A TAAAA TAAAA TAAA
30961585 CAAAGAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 25 0.74
6 4 0.12
7 4 0.12
8 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:30966026 original size:20 final size:20
Alignment explanation
Indices: 30965989--30966028 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30965979 CATAATTTTT
**
30965989 TATATTTAAAATGTAATTTA
1 TATATTTAAAATAAAATTTA
*
30966009 TATATTTAAATTAAAATTTA
1 TATATTTAAAATAAAATTTA
30966029 CTAATAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TATATTTAAAATAAAATTTA
Found at i:30967195 original size:94 final size:96
Alignment explanation
Indices: 30967017--30967199 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 96
30967007 GCACCTGCAT
* * *
30967017 TTTTCGTGTAAAAATTTCGATTCCAGAAAAGAGAAAAAAGATACATTTTTACCCAAAAGAATAGG
1 TTTTCGTGTAAAAATTTCAATTCCAGAAAAGAGAAAAAAGACACATTTATACCCAAAAGAATAGG
*
30967082 TTAGAGAAAGTAGTGTCAAATATAAGTCATA
66 TTAGAGAAAGCAGTGTCAAATATAAGTCATA
*
30967113 TTTTC-TGTAAAAATTTCAATTCCAGAAAGAGGGAAAAAA-ACACATTTAT-CCCAAAAGAATAG
1 TTTTCGTGTAAAAATTTCAATTCCAGAAA-AGAGAAAAAAGACACATTTATACCCAAAAGAATAG
30967175 GTTAGAGAAAGCAGAT-TCAAATATA
65 GTTAGAGAAAGCAG-TGTCAAATATA
30967200 TTAGAGGGAT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
94 35 0.44
95 31 0.39
96 14 0.17
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (96 bp):
TTTTCGTGTAAAAATTTCAATTCCAGAAAAGAGAAAAAAGACACATTTATACCCAAAAGAATAGG
TTAGAGAAAGCAGTGTCAAATATAAGTCATA
Found at i:30969985 original size:6 final size:6
Alignment explanation
Indices: 30969974--30970008 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
30969964 CTTTTCTCGG
* *
30969974 TCCCTA TCCCTA TCCTTA TCTCTA TCCCTA TCCCT
1 TCCCTA TCCCTA TCCCTA TCCCTA TCCCTA TCCCT
30970009 GTGGCGATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.14, C:0.46, G:0.00, T:0.40
Consensus pattern (6 bp):
TCCCTA
Found at i:30969995 original size:24 final size:24
Alignment explanation
Indices: 30969961--30970008 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30969951 CACGATCACG
* *
30969961 ATCCTTTTCTCGGTCCCTATCCCT
1 ATCCTTATCTCGATCCCTATCCCT
*
30969985 ATCCTTATCTCTATCCCTATCCCT
1 ATCCTTATCTCGATCCCTATCCCT
30970009 GTGGCGATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.12, C:0.42, G:0.04, T:0.42
Consensus pattern (24 bp):
ATCCTTATCTCGATCCCTATCCCT
Found at i:30972311 original size:20 final size:19
Alignment explanation
Indices: 30972264--30972311 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
30972254 ATTTGGTTAA
30972264 AATTAAA-ACATATAATTT
1 AATTAAATACATATAATTT
* *
30972282 ATAATAAATACTATGTAATTT
1 A-ATTAAATAC-ATATAATTT
30972303 AATTAAATA
1 AATTAAATA
30972312 TTTAATAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 5 0.21
20 9 0.38
21 9 0.38
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTAAATACATATAATTT
Found at i:30972438 original size:21 final size:21
Alignment explanation
Indices: 30972415--30972454 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30972405 TTAAAAACAA
30972415 AAAATA-TA-TATCTAAAAATT
1 AAAATATTATTAT-TAAAAATT
30972435 AAAATATTATTATTAAAAAT
1 AAAATATTATTATTAAAAAT
30972455 AACTTCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 9 0.50
22 3 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATATTATTATTAAAAATT
Found at i:30975559 original size:30 final size:30
Alignment explanation
Indices: 30975525--30975657 Score: 92
Period size: 30 Copynumber: 4.2 Consensus size: 30
30975515 TAAACTAAAA
30975525 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGTT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAG-T
*
30975556 GAGCTGAGGCTAAACTTTAGCTCGTGAGCTAAAGT
1 ----TGA-GCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
30975591 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
30975621 TGAGCTAAAG-TTTAGCTCGTGAGTTGAAAG-
1 TGAGCT-AAGCTTTAGCTCGTGAGCT-AAAGT
30975651 TGAGCTA
1 TGAGCTA
30975658 GGAGTGAGCT
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
29 1 0.01
30 40 0.51
31 8 0.10
35 4 0.05
36 25 0.32
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:30975569 original size:17 final size:17
Alignment explanation
Indices: 30975547--30975605 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
30975537 TAGCTCGTGA
30975547 GCTAAAGTTGAGCTGAG
1 GCTAAAGTTGAGCTGAG
* * *
30975564 GCTAAACTTTAGCTCGTG
1 GCTAAAGTTGAGCT-GAG
30975582 AGCTAAAGTTGAGCTGAG
1 -GCTAAAGTTGAGCTGAG
30975600 GCTAAA
1 GCTAAA
30975606 CTCCTAAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 12 0.35
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (17 bp):
GCTAAAGTTGAGCTGAG
Found at i:30975575 original size:36 final size:36
Alignment explanation
Indices: 30975528--30975607 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
30975518 ACTAAAATGA
*
30975528 GCTAAGCTTTAGCTCGTGAGCTAAAGTTGAGCTGAG
1 GCTAAACTTTAGCTCGTGAGCTAAAGTTGAGCTGAG
30975564 GCTAAACTTTAGCTCGTGAGCTAAAGTTGAGCTGAG
1 GCTAAACTTTAGCTCGTGAGCTAAAGTTGAGCTGAG
30975600 GCTAAACT
1 GCTAAACT
30975608 CCTAAGCTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (36 bp):
GCTAAACTTTAGCTCGTGAGCTAAAGTTGAGCTGAG
Found at i:30975596 original size:19 final size:19
Alignment explanation
Indices: 30975525--30975596 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 19
30975515 TAAACTAAAA
*
30975525 TGAGCT-AAGCTTTAGCTCG
1 TGAGCTAAAG-TTGAGCTCG
30975544 TGAGCTAAAGTTGAGCT-G
1 TGAGCTAAAGTTGAGCTCG
* * *
30975562 AG-GCTAAACTTTAGCTCG
1 TGAGCTAAAGTTGAGCTCG
30975580 TGAGCTAAAGTTGAGCT
1 TGAGCTAAAGTTGAGCT
30975597 GAGGCTAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
17 12 0.28
18 4 0.09
19 24 0.56
20 3 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (19 bp):
TGAGCTAAAGTTGAGCTCG
Found at i:30976799 original size:33 final size:34
Alignment explanation
Indices: 30976740--30976805 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
30976730 ATCAATCTCC
*
30976740 CTCATTTAAATGCCGTCCATTACATGTGGAACAT
1 CTCATTTAAATGCCGTCCATTACATGTAGAACAT
* *
30976774 CTCA-TTAATTGCCGTTCCA-TGCATGTAGAACA
1 CTCATTTAAATGCCG-TCCATTACATGTAGAACA
30976806 ACATCTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (34 bp):
CTCATTTAAATGCCGTCCATTACATGTAGAACAT
Found at i:30976816 original size:34 final size:33
Alignment explanation
Indices: 30976744--30976816 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
30976734 ATCTCCCTCA
* * *
30976744 TTTAAATGCCGTCCATTACATGTGGAACATCTC
1 TTTAATTGCCGTCCATTACATGTAGAACAACTC
* *
30976777 ATTAATTGCCGTTCCA-TGCATGTAGAACAACATC
1 TTTAATTGCCG-TCCATTACATGTAGAACAAC-TC
30976811 TTTAAT
1 TTTAAT
30976817 GCATGTCTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (33 bp):
TTTAATTGCCGTCCATTACATGTAGAACAACTC
Found at i:30979372 original size:30 final size:30
Alignment explanation
Indices: 30979338--30979434 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
30979328 TAAACTAAAA
*
30979338 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
30979368 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
30979398 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
30979427 ATGAGCTA
1 -TGAGCTA
30979435 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:30981608 original size:30 final size:29
Alignment explanation
Indices: 30981546--30981630 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 29
30981536 TTCTTTTGTT
**
30981546 TCAATTTCTTTTTCATCTTCTTTTTCGCTC
1 TCAATTTC-TTTTCATCTTCTTTTTCAATC
*
30981576 TCAAATTTCTTTTCGTTCTT-TTTTTCAATC
1 TC-AATTTCTTTTC-ATCTTCTTTTTCAATC
* *
30981606 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTC-TTTTCATCTTCTTTTT
30981631 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
29 8 0.18
30 27 0.60
31 10 0.22
ACGTcount: A:0.12, C:0.21, G:0.02, T:0.65
Consensus pattern (29 bp):
TCAATTTCTTTTCATCTTCTTTTTCAATC
Found at i:30981637 original size:12 final size:12
Alignment explanation
Indices: 30981606--30981630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30981596 TTTTTCAATC
30981606 TCATTTTCTTTT
1 TCATTTTCTTTT
30981618 TCATTTTCTTTT
1 TCATTTTCTTTT
30981630 T
1 T
30981631 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:30981648 original size:12 final size:12
Alignment explanation
Indices: 30981633--30981663 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
30981623 TTCTTTTTGC
30981633 TTTTCAAAGGCT
1 TTTTCAAAGGCT
30981645 TTTTCAAAGGCT
1 TTTTCAAAGGCT
30981657 TTTTCAA
1 TTTTCAA
30981664 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:30981765 original size:21 final size:20
Alignment explanation
Indices: 30981732--30981775 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
30981722 TATTTCATTT
30981732 TTTTCTTCTTTTGCTTTT-TC
1 TTTTCTTCTTTTG-TTTTCTC
*
30981752 TTTTCTTTTCTTTGTTTTCTC
1 TTTTCTTCT-TTTGTTTTCTC
30981773 TTT
1 TTT
30981776 ACAAGAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTCTTCTTTTGTTTTCTC
Found at i:30982724 original size:11 final size:11
Alignment explanation
Indices: 30982694--30982739 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
30982684 TCAGATTTTT
30982694 TTTTCTTTTCGAA
1 TTTT-TTTT-GAA
*
30982707 ATTTTTTTGAA
1 TTTTTTTTGAA
30982718 TTTTTTTTTGAA
1 -TTTTTTTTGAA
30982730 TTTTTTTTGA
1 TTTTTTTTGA
30982740 CTTGTATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 13 0.43
12 14 0.47
13 3 0.10
ACGTcount: A:0.17, C:0.04, G:0.09, T:0.70
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:30984351 original size:30 final size:30
Alignment explanation
Indices: 30984317--30984413 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
30984307 TAAACTAAAA
30984317 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * *
30984347 TGAGCTGAGGC-TAAACT-GCTAAGCTAAAGT
1 TGAGCT-AAGCTTTAGCTCG-TGAGCTAAAGT
* *
30984377 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
30984407 TGAGCTA
1 TGAGCTA
30984414 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
29 3 0.06
30 41 0.79
31 8 0.15
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:30990029 original size:6 final size:6
Alignment explanation
Indices: 30989997--30990104 Score: 67
Period size: 6 Copynumber: 17.7 Consensus size: 6
30989987 AGAGAAATTG
* * ** *
30989997 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* ** * * *
30990044 AAAGAA ATCA-AA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
30990095 AAAGAA AAAG
1 AAAGAA AAAG
30990105 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 22, Indels: 11
0.69 0.20 0.10
Matches are distributed among these distances:
5 4 0.05
6 59 0.79
7 8 0.11
8 4 0.05
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:30990084 original size:14 final size:13
Alignment explanation
Indices: 30990065--30990102 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
30990055 AAAAGTGAGA
30990065 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
30990077 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
30990092 GAAAAAGAAAA
1 GAAAAAGAAAA
30990103 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:30990139 original size:12 final size:12
Alignment explanation
Indices: 30990108--30990139 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30990098 GAAAAAGCGA
*
30990108 AAAAAGAATTTG
1 AAAAAGAGTTTG
30990120 AAAAAGAGTTTG
1 AAAAAGAGTTTG
30990132 AAAAAGAG
1 AAAAAGAG
30990140 AAGAGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (12 bp):
AAAAAGAGTTTG
Found at i:30997052 original size:19 final size:19
Alignment explanation
Indices: 30997028--30997067 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30997018 AGCTCCCATG
30997028 TAGCTCCAAACCAGCTCAT
1 TAGCTCCAAACCAGCTCAT
***
30997047 TAGCTCGGGACCAGCTCAT
1 TAGCTCCAAACCAGCTCAT
30997066 TA
1 TA
30997068 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCAAACCAGCTCAT
Found at i:30999567 original size:6 final size:6
Alignment explanation
Indices: 30999556--30999617 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
30999546 AAGAGAAAAG
* ** * * *
30999556 AAAGAA AAAGAA AACGAA AGTGAA AAAGAA ATAGAG AAAGAA AAAGAG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
30999604 AATGAA AAAGAA AA
1 AAAGAA AAAGAA AA
30999618 TGTGATACGA
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:30999575 original size:20 final size:19
Alignment explanation
Indices: 30999532--30999602 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
30999522 TTCAAGTTGT
* *
30999532 AAAGAAATAAAAAGAAGAG
1 AAAGAAAGAAAAAGAAAAG
30999551 AAAAGAAAGAAAAAGAAAACG
1 -AAAGAAAGAAAAAGAAAA-G
*
30999572 AAAG--TGAAAAAGAAATAG
1 AAAGAAAGAAAAAGAAA-AG
30999590 --AGAAAGAAAAAGA
1 AAAGAAAGAAAAAGA
30999603 GAATGAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 2 0.05
18 19 0.44
19 1 0.02
20 20 0.47
21 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.04
Consensus pattern (19 bp):
AAAGAAAGAAAAAGAAAAG
Found at i:30999619 original size:12 final size:11
Alignment explanation
Indices: 30999540--30999617 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 11
30999530 GTAAAGAAAT
*
30999540 AAAAAGAAGAG
1 AAAAAGAAAAG
30999551 -AAAAG-AAAG
1 AAAAAGAAAAG
30999560 AAAAAGAAAACG
1 AAAAAGAAAA-G
**
30999572 AAAGTGAAAAAG
1 AAAAAG-AAAAG
*
30999584 AAATAGAGAAAG
1 AAAAAGA-AAAG
*
30999596 AAAAAGAGAATG
1 AAAAAGA-AAAG
30999608 AAAAAGAAAA
1 AAAAAGAAAA
30999618 TGTGATACGA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
9 3 0.06
10 10 0.19
11 6 0.11
12 31 0.57
13 4 0.07
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.04
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:30999761 original size:14 final size:14
Alignment explanation
Indices: 30999744--30999782 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
30999734 CGAATGGAAT
*
30999744 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
*
30999758 GGTAGGAACAAAAT
1 GGTAGGAACAAAAG
*
30999772 GGTATGAACAA
1 GGTAGGAACAA
30999783 TTTGGTCGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.33, T:0.13
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:31000139 original size:48 final size:48
Alignment explanation
Indices: 31000068--31000169 Score: 170
Period size: 48 Copynumber: 2.1 Consensus size: 48
31000058 CGAAATATAA
*
31000068 GAAAAGTATGCCTCACAATTTCGGCAGCATAACATTAACAAAAGTTTC
1 GAAAAGTATGACTCACAATTTCGGCAGCATAACATTAACAAAAGTTTC
* *
31000116 GAAAAGTTTGACTCACAATTTCGGCAGCATAACATTAACATAAGTTTC
1 GAAAAGTATGACTCACAATTTCGGCAGCATAACATTAACAAAAGTTTC
31000164 -AAAAGT
1 GAAAAGT
31000170 CCTTTACATG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
47 6 0.12
48 45 0.88
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (48 bp):
GAAAAGTATGACTCACAATTTCGGCAGCATAACATTAACAAAAGTTTC
Found at i:31001025 original size:57 final size:58
Alignment explanation
Indices: 31000956--31001069 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
31000946 TATTAATTAA
31000956 CTAATTATTGAACTTATTAATT-AAAAAGTCAATAGTAGTCAAATGAATTCAAAGTGG
1 CTAATTATTGAACTTATTAATTAAAAAAGTCAATAGTAGTCAAATGAATTCAAAGTGG
31001013 CTAATTATTGAACTTATTAATTAAAAAAGTCAATAGTAGTCAAATGAATTCAAAGTG
1 CTAATTATTGAACTTATTAATTAAAAAAGTCAATAGTAGTCAAATGAATTCAAAGTG
31001070 AACTCCACGA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 22 0.39
58 34 0.61
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (58 bp):
CTAATTATTGAACTTATTAATTAAAAAAGTCAATAGTAGTCAAATGAATTCAAAGTGG
Found at i:31001430 original size:75 final size:75
Alignment explanation
Indices: 31001307--31001455 Score: 271
Period size: 75 Copynumber: 2.0 Consensus size: 75
31001297 ACACATGCTG
31001307 AACTAAAGCTATAACAGCTTCTTTAAATTGTTTTGCACGAGCCCTTGTGATCGGCCCTTGAGGTA
1 AACTAAAGCTATAACAGCTTCTTTAAATTGTTTTGCACGAGCCCTTGTGATCGGCCCTTGAGGTA
31001372 GCACCATCGA
66 GCACCATCGA
* *
31001382 AACTAAAGCTATAACGGCTTTTTTAAATTGTTTTGCACGAGCCCTTGTGATCGGCCCTTGAGGTA
1 AACTAAAGCTATAACAGCTTCTTTAAATTGTTTTGCACGAGCCCTTGTGATCGGCCCTTGAGGTA
*
31001447 GCATCATCG
66 GCACCATCG
31001456 GATCTCGGCT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (75 bp):
AACTAAAGCTATAACAGCTTCTTTAAATTGTTTTGCACGAGCCCTTGTGATCGGCCCTTGAGGTA
GCACCATCGA
Found at i:31006189 original size:72 final size:73
Alignment explanation
Indices: 31006106--31006253 Score: 192
Period size: 72 Copynumber: 2.0 Consensus size: 73
31006096 TTTAATGCTA
* * *
31006106 TCCCAAGTCCCATGCACACACTAAATTCGGCTG-GTTGGGAAAATACAACAG-CAACTTTCGCTT
1 TCCCAAGTCCCATGCACACAATAAATTCGGCAGCGTTGGAAAAATACAACAGCCAACTTT-GCTT
31006169 TAAATGCCG
65 TAAATGCCG
* * * * * *
31006178 TCCCAAGTCCCATGCACTCAATAAATTCGGCAGCTTTGGAAAAATGCAGCAGCCACCTTTTCTTT
1 TCCCAAGTCCCATGCACACAATAAATTCGGCAGCGTTGGAAAAATACAACAGCCAACTTTGCTTT
31006243 AAATGCCG
66 AAATGCCG
31006251 TCC
1 TCC
31006254 ATGTACCTGC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
72 30 0.46
73 29 0.45
74 6 0.09
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (73 bp):
TCCCAAGTCCCATGCACACAATAAATTCGGCAGCGTTGGAAAAATACAACAGCCAACTTTGCTTT
AAATGCCG
Done.