Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 169 of 172
Found at i:55421055 original size:6 final size:6
Alignment explanation
Indices: 55421020--55421055 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
55421010 AAAAACCCGC
* *
55421020 CCTGCC CCTGCT CCTGCC CCTGCT CCTGCT CCTGCT
1 CCTGCT CCTGCT CCTGCT CCTGCT CCTGCT CCTGCT
55421056 ACAACATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.56, G:0.17, T:0.28
Consensus pattern (6 bp):
CCTGCT
Found at i:55423412 original size:15 final size:15
Alignment explanation
Indices: 55423394--55423426 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
55423384 ACTCAAAAGG
55423394 TAAGTATTGAAAAAT
1 TAAGTATTGAAAAAT
*
55423409 TAAGTGTTGAAAAAT
1 TAAGTATTGAAAAAT
55423424 TAA
1 TAA
55423427 ATACTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (15 bp):
TAAGTATTGAAAAAT
Found at i:55427574 original size:14 final size:14
Alignment explanation
Indices: 55427555--55427584 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
55427545 TATCATATTA
55427555 ATCTATAATACTAT
1 ATCTATAATACTAT
55427569 ATCTATAATACTAT
1 ATCTATAATACTAT
55427583 AT
1 AT
55427585 TTATTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
ATCTATAATACTAT
Found at i:55433705 original size:10 final size:10
Alignment explanation
Indices: 55433676--55433756 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
55433666 AATGAAAAAA
55433676 AAATATT-TT
1 AAATATTATT
55433685 AAATAATTATT
1 AAAT-ATTATT
55433696 AAATATTATTT
1 AAATATTA-TT
55433707 AAAATATT-TT
1 -AAATATTATT
* *
55433717 AAA-ATTGTA
1 AAATATTATT
*
55433726 AAAGAGTTATT
1 AAATA-TTATT
* *
55433737 AAAAATTATA
1 AAATATTATT
*
55433747 AAATAATATT
1 AAATATTATT
55433757 TAACTTTTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
8 3 0.05
9 11 0.19
10 21 0.37
11 15 0.26
12 7 0.12
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (10 bp):
AAATATTATT
Found at i:55433759 original size:21 final size:21
Alignment explanation
Indices: 55433709--55433759 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
55433699 TATTATTTAA
* *
55433709 AATATTTTAAAATTGTAAAAG
1 AATATTTAAAAATTATAAAAG
* *
55433730 AGT-TATTAAAAATTATAAAAT
1 AATAT-TTAAAAATTATAAAAG
55433751 AATATTTAA
1 AATATTTAA
55433760 CTTTTGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (21 bp):
AATATTTAAAAATTATAAAAG
Found at i:55433811 original size:19 final size:19
Alignment explanation
Indices: 55433781--55433831 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
55433771 TTTGAAAATT
55433781 TTATTAAAAAATT-CAAATAA
1 TTATT-AAAAATTGCAAA-AA
*
55433801 TTATTAAAAATTGTAAAAA
1 TTATTAAAAATTGCAAAAA
*
55433820 TTATTTAAAATT
1 TTATTAAAAATT
55433832 TGTGAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
TTATTAAAAATTGCAAAAA
Found at i:55433827 original size:20 final size:21
Alignment explanation
Indices: 55433781--55433834 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
55433771 TTTGAAAATT
* *
55433781 TTATTAAAAAATT-CAAATAA
1 TTATTTAAAAATTGTAAATAA
55433801 TTA-TTAAAAATTGTAAA-AA
1 TTATTTAAAAATTGTAAATAA
*
55433820 TTATTTAAAATTTGT
1 TTATTTAAAAATTGT
55433835 GAATTGGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
TTATTTAAAAATTGTAAATAA
Found at i:55434095 original size:19 final size:19
Alignment explanation
Indices: 55434061--55434123 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
55434051 TTTTGTTAAT
55434061 TATTTACAACTTTTAATAA
1 TATTTACAACTTTTAATAA
*
55434080 GTATTTACTA-TTTTAATAA
1 -TATTTACAACTTTTAATAA
* *
55434099 TATTTAAAAATTTTAAATAA
1 TATTTACAACTTTT-AATAA
55434119 TATTT
1 TATTT
55434124 TATTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 7 0.18
19 13 0.34
20 18 0.47
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (19 bp):
TATTTACAACTTTTAATAA
Found at i:55434113 original size:38 final size:40
Alignment explanation
Indices: 55434061--55434138 Score: 99
Period size: 38 Copynumber: 2.0 Consensus size: 40
55434051 TTTTGTTAAT
* *
55434061 TATTTACAACTTTT-AATAAGTA-TTTACTA-TTTTAATAA
1 TATTTAAAAATTTTAAATAA-TATTTTACTATTTTTAATAA
*
55434099 TATTTAAAAATTTTAAATAATATTTTATTATTTTTAATAA
1 TATTTAAAAATTTTAAATAATATTTTACTATTTTTAATAA
55434139 ACTTTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 14 0.41
39 11 0.32
40 9 0.26
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (40 bp):
TATTTAAAAATTTTAAATAATATTTTACTATTTTTAATAA
Found at i:55434131 original size:20 final size:19
Alignment explanation
Indices: 55434071--55434138 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
55434061 TATTTACAAC
*
55434071 TTTTAATAAGTA-TTTACTA
1 TTTTAATAA-TATTTTAATA
* *
55434090 TTTTAATAATATTTAAAAA
1 TTTTAATAATATTTTAATA
*
55434109 TTTTAAATAATATTTTATTA
1 TTTT-AATAATATTTTAATA
55434129 TTTTTAATAA
1 -TTTTAATAA
55434139 ACTTTTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 2 0.05
19 17 0.43
20 17 0.43
21 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (19 bp):
TTTTAATAATATTTTAATA
Found at i:55434192 original size:18 final size:20
Alignment explanation
Indices: 55434160--55434205 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
55434150 TTTAAAAACG
*
55434160 TTTTAAAAATATTT-A-TTT
1 TTTTACAAATATTTAAGTTT
55434178 TTTTGACAAAT-TTTAAGTTT
1 TTTT-ACAAATATTTAAGTTT
55434198 TTTTACAA
1 TTTTACAA
55434206 TTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 7 0.29
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTACAAATATTTAAGTTT
Found at i:55436084 original size:15 final size:14
Alignment explanation
Indices: 55436049--55436090 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
55436039 TATCAAAATT
55436049 AATTAAA-ATATAAA
1 AATTAAATAT-TAAA
*
55436063 AATTAAATTTTAAA
1 AATTAAATATTAAA
55436077 AATATAAATATTAA
1 AAT-TAAATATTAA
55436091 CACATTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTAAATATTAAA
Found at i:55442446 original size:22 final size:22
Alignment explanation
Indices: 55442418--55442462 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
55442408 TGTTTTCTTC
55442418 TTCAAAAGCCATAAAGTTCAGA
1 TTCAAAAGCCATAAAGTTCAGA
*
55442440 TTCAAAAGCCATGAAGTTCAGA
1 TTCAAAAGCCATAAAGTTCAGA
55442462 T
1 T
55442463 ACCAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (22 bp):
TTCAAAAGCCATAAAGTTCAGA
Found at i:55444469 original size:29 final size:30
Alignment explanation
Indices: 55444424--55444504 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 30
55444414 AAATTTAATC
*
55444424 AAATTAAAATACTATGTATAAAAT-TACATA
1 AAATTAAAAT-TTATGTATAAAATATACATA
* *
55444454 AAATTAAAATTTATGTATAGCATTATACATA
1 AAATTAAAATTTATGTATA-AAATATACATA
* * *
55444485 AAATCAAAATTCATGGATAA
1 AAATTAAAATTTATGTATAA
55444505 TTTTGATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.19
30 12 0.29
31 22 0.52
ACGTcount: A:0.53, C:0.07, G:0.06, T:0.33
Consensus pattern (30 bp):
AAATTAAAATTTATGTATAAAATATACATA
Found at i:55446198 original size:20 final size:20
Alignment explanation
Indices: 55446169--55446206 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55446159 GGTAGATTTT
*
55446169 TTGATGTGTTTAGATAATGA
1 TTGATATGTTTAGATAATGA
*
55446189 TTGATATGTTTAGTTAAT
1 TTGATATGTTTAGATAAT
55446207 TTATTTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (20 bp):
TTGATATGTTTAGATAATGA
Found at i:55449058 original size:471 final size:471
Alignment explanation
Indices: 55448176--55449119 Score: 1888
Period size: 471 Copynumber: 2.0 Consensus size: 471
55448166 CAGTGATAGT
55448176 AAATAACAAGTGTTTGCAGTCTCATGTTTAGCTGCAAAAGGGAAGGTTAAAAAAGGGTGGCTCAT
1 AAATAACAAGTGTTTGCAGTCTCATGTTTAGCTGCAAAAGGGAAGGTTAAAAAAGGGTGGCTCAT
55448241 TGACAGTGGCTGCACCAACCACATGTCACCAGATGCATCTATCTTCAAATCTCTAGACAGAAGCT
66 TGACAGTGGCTGCACCAACCACATGTCACCAGATGCATCTATCTTCAAATCTCTAGACAGAAGCT
55448306 ATAAGACTAGAGTAAAAATTGGAAATGGATACTGTATTCAGGTAGAGGGCAAAGGTAATGTGATG
131 ATAAGACTAGAGTAAAAATTGGAAATGGATACTGTATTCAGGTAGAGGGCAAAGGTAATGTGATG
55448371 ATATGCACTCCATCAGGTAACAAACTCATCTCAGATGTATTGTTTGTACCTGAAATTGATAGAAA
196 ATATGCACTCCATCAGGTAACAAACTCATCTCAGATGTATTGTTTGTACCTGAAATTGATAGAAA
55448436 TTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAAATGAGTGCC
261 TTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAAATGAGTGCC
55448501 AGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGTTTTGTTGTG
326 AGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGTTTTGTTGTG
55448566 GACTGGAACAAGGGTCTAGATAGTGCCTATGCTGCTTCCATAGAAGAATCCAAGCTTTGGCATCA
391 GACTGGAACAAGGGTCTAGATAGTGCCTATGCTGCTTCCATAGAAGAATCCAAGCTTTGGCATCA
55448631 AAGGCTTGGTCATGCC
456 AAGGCTTGGTCATGCC
55448647 AAATAACAAGTGTTTGCAGTCTCATGTTTAGCTGCAAAAGGGAAGGTTAAAAAAGGGTGGCTCAT
1 AAATAACAAGTGTTTGCAGTCTCATGTTTAGCTGCAAAAGGGAAGGTTAAAAAAGGGTGGCTCAT
55448712 TGACAGTGGCTGCACCAACCACATGTCACCAGATGCATCTATCTTCAAATCTCTAGACAGAAGCT
66 TGACAGTGGCTGCACCAACCACATGTCACCAGATGCATCTATCTTCAAATCTCTAGACAGAAGCT
55448777 ATAAGACTAGAGTAAAAATTGGAAATGGATACTGTATTCAGGTAGAGGGCAAAGGTAATGTGATG
131 ATAAGACTAGAGTAAAAATTGGAAATGGATACTGTATTCAGGTAGAGGGCAAAGGTAATGTGATG
55448842 ATATGCACTCCATCAGGTAACAAACTCATCTCAGATGTATTGTTTGTACCTGAAATTGATAGAAA
196 ATATGCACTCCATCAGGTAACAAACTCATCTCAGATGTATTGTTTGTACCTGAAATTGATAGAAA
55448907 TTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAAATGAGTGCC
261 TTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAAATGAGTGCC
55448972 AGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGTTTTGTTGTG
326 AGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGTTTTGTTGTG
55449037 GACTGGAACAAGGGTCTAGATAGTGCCTATGCTGCTTCCATAGAAGAATCCAAGCTTTGGCATCA
391 GACTGGAACAAGGGTCTAGATAGTGCCTATGCTGCTTCCATAGAAGAATCCAAGCTTTGGCATCA
55449102 AAGGCTTGGTCATGCC
456 AAGGCTTGGTCATGCC
55449118 AA
1 AA
55449120 CTTTAAATCA
Statistics
Matches: 473, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
471 473 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (471 bp):
AAATAACAAGTGTTTGCAGTCTCATGTTTAGCTGCAAAAGGGAAGGTTAAAAAAGGGTGGCTCAT
TGACAGTGGCTGCACCAACCACATGTCACCAGATGCATCTATCTTCAAATCTCTAGACAGAAGCT
ATAAGACTAGAGTAAAAATTGGAAATGGATACTGTATTCAGGTAGAGGGCAAAGGTAATGTGATG
ATATGCACTCCATCAGGTAACAAACTCATCTCAGATGTATTGTTTGTACCTGAAATTGATAGAAA
TTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAAATGAGTGCC
AGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGTTTTGTTGTG
GACTGGAACAAGGGTCTAGATAGTGCCTATGCTGCTTCCATAGAAGAATCCAAGCTTTGGCATCA
AAGGCTTGGTCATGCC
Found at i:55449375 original size:471 final size:471
Alignment explanation
Indices: 55448898--55449839 Score: 1839
Period size: 471 Copynumber: 2.0 Consensus size: 471
55448888 TACCTGAAAT
55448898 TGATAGAAATTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAA
1 TGATAGAAATTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAA
55448963 ATGAGTGCCAGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGT
66 ATGAGTGCCAGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGT
55449028 TTTGTTGTGGACTGGAACAAGGGTCTAGATAGTGCCTATGCTGCTTCCATAGAAGAATCCAAGCT
131 TTTGTTGTGGACTGGAACAAGGGTCTAGATAGTGCCTATGCTGCTTCCATAGAAGAATCCAAGCT
*
55449093 TTGGCATCAAAGGCTTGGTCATGCCAACTTTAAATCAATGGCTCGAATGATCAGCAAGGATATGG
196 TTGGCATCAAAGGCTTGGTCATGCCAACTTTAAATCAATGGCTCGAATGATCAACAAGGATATGG
55449158 CTGAAAATTTCATCAAATCAGTCCAAAATGAAGATGTTTGTGAAGTTTGTCAGTTGGGAAAGCAA
261 CTGAAAATTTCATCAAATCAGTCCAAAATGAAGATGTTTGTGAAGTTTGTCAGTTGGGAAAGCAA
*
55449223 GCCAGGCTTCCATTTCCTACAAGCACAGCTTGGAGAGCCTCAGAGAAGCTTCAATTAGTGCACAC
326 GCCAGGCTTCCATTTCCTACAAGAACAGCTTGGAGAGCCTCAGAGAAGCTTCAATTAGTGCACAC
55449288 AGATGTGTGTGGCCCCATGAAGACCAAGTCACTCAATGGCAACAGGTACTTCATTCTTTTCATTG
391 AGATGTGTGTGGCCCCATGAAGACCAAGTCACTCAATGGCAACAGGTACTTCATTCTTTTCATTG
55449353 ATGATAGTACCAGATA
456 ATGATAGTACCAGATA
55449369 TGATAGAAATTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAA
1 TGATAGAAATTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAA
55449434 ATGAGTGCCAGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGT
66 ATGAGTGCCAGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGT
*
55449499 TTTGTTGTGGACTGGAACAAGGGTCTAGATAGTGTCTATGCTGCTTCCATAGAAGAATCCAAGCT
131 TTTGTTGTGGACTGGAACAAGGGTCTAGATAGTGCCTATGCTGCTTCCATAGAAGAATCCAAGCT
55449564 TTGGCATCAAAGGCTTGGTCATGCCAACTTTAAATCAATGGCTCGAATGATCAACAAGGATATGG
196 TTGGCATCAAAGGCTTGGTCATGCCAACTTTAAATCAATGGCTCGAATGATCAACAAGGATATGG
55449629 CTGAAAATTTCATCAAATCAGTCCAAAATGAAGATGTTTGTGAAGTTTGTCAGTTGGGAAAGCAA
261 CTGAAAATTTCATCAAATCAGTCCAAAATGAAGATGTTTGTGAAGTTTGTCAGTTGGGAAAGCAA
*
55449694 GCTAGGCTTCCATTTCCTACAAGAACAGCTTGGAGAGCCTCAGAGAAGCTTCAATTAGTGCACAC
326 GCCAGGCTTCCATTTCCTACAAGAACAGCTTGGAGAGCCTCAGAGAAGCTTCAATTAGTGCACAC
*
55449759 AGATGTGTGTGGCCCCATGAAGACCGAGTCACTCAATGGCAACAGGTACTTCATTCTTTTCATTG
391 AGATGTGTGTGGCCCCATGAAGACCAAGTCACTCAATGGCAACAGGTACTTCATTCTTTTCATTG
55449824 ATGATAGTACCAGATA
456 ATGATAGTACCAGATA
55449840 CTGCTGGATT
Statistics
Matches: 466, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
471 466 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (471 bp):
TGATAGAAATTTGTTGAGCATAGCTCAACTGCTTGAAAGAGGATATACGGTGCTCTTTAAAGGAA
ATGAGTGCCAGATTAGTGACCAAAAAGGGTCCATACTCATGACAGTAGCCATGACTGACAAGAGT
TTTGTTGTGGACTGGAACAAGGGTCTAGATAGTGCCTATGCTGCTTCCATAGAAGAATCCAAGCT
TTGGCATCAAAGGCTTGGTCATGCCAACTTTAAATCAATGGCTCGAATGATCAACAAGGATATGG
CTGAAAATTTCATCAAATCAGTCCAAAATGAAGATGTTTGTGAAGTTTGTCAGTTGGGAAAGCAA
GCCAGGCTTCCATTTCCTACAAGAACAGCTTGGAGAGCCTCAGAGAAGCTTCAATTAGTGCACAC
AGATGTGTGTGGCCCCATGAAGACCAAGTCACTCAATGGCAACAGGTACTTCATTCTTTTCATTG
ATGATAGTACCAGATA
Found at i:55451992 original size:47 final size:47
Alignment explanation
Indices: 55451883--55451993 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
55451873 CCGGGATAAG
* *
55451883 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
55451930 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
55451977 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
55451994 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:55452764 original size:4 final size:4
Alignment explanation
Indices: 55452755--55452831 Score: 64
Period size: 4 Copynumber: 18.8 Consensus size: 4
55452745 CCCTTTTCTA
** * * * **
55452755 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
*
55452805 TTTC TATC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
55452832 TTTTTAACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 53 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:55453783 original size:112 final size:112
Alignment explanation
Indices: 55453586--55453802 Score: 425
Period size: 112 Copynumber: 1.9 Consensus size: 112
55453576 AATAACTTCG
55453586 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
1 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
*
55453651 TGAAACCTTTAAAAATACTTTATCCCCGACTGAGTATTCATATTCAA
66 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCATATTCAA
55453698 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
1 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
55453763 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCA
66 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCA
55453803 ATATCTCGTC
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 104 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.34
Consensus pattern (112 bp):
TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCATATTCAA
Found at i:55458052 original size:39 final size:39
Alignment explanation
Indices: 55458029--55458137 Score: 175
Period size: 39 Copynumber: 2.8 Consensus size: 39
55458019 TCCCAGCACG
* *
55458029 TAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
*
55458068 TAGTCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
*
55458107 TAGCTTGCGGATCTCATGTCCGGATAT-TTTC
1 TAGCCTGCGGATCTCATGTCCGGATATATTTC
55458138 AATCTCATCC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 4 0.06
39 61 0.94
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (39 bp):
TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
Found at i:55458499 original size:137 final size:137
Alignment explanation
Indices: 55458253--55458525 Score: 510
Period size: 137 Copynumber: 2.0 Consensus size: 137
55458243 CAGCTCAGTG
* *
55458253 GTTATATCTCATATCACTCATTCTATTCATCATTTAATCTTAAATTCAAAGTGGCCATCAAACTA
1 GTTATATCTCATACCACTCATTCTATTCATCATTTAATCTTAAATTAAAAGTGGCCATCAAACTA
55458318 TAAGTCATATACATGCATTATCTATTATACATCTTAATTCAAGTGCTAGCCAAAGATCACAATTC
66 TAAGTCATATACATGCATTATCTATTATACATCTTAATTCAAGTGCTAGCCAAAGATCACAATTC
55458383 ACTTACA
131 ACTTACA
* *
55458390 GTTATATCTCATGCCGCTCATTCTATTCATCATTTAATCTTAAATTAAAAGTGGCCATCAAACTA
1 GTTATATCTCATACCACTCATTCTATTCATCATTTAATCTTAAATTAAAAGTGGCCATCAAACTA
55458455 TAAGTCATATACATGCATTATCTATTATACATCTTAATTCAAGTGCTAGCCAAAGATCACAATTC
66 TAAGTCATATACATGCATTATCTATTATACATCTTAATTCAAGTGCTAGCCAAAGATCACAATTC
55458520 ACTTAC
131 ACTTAC
55458526 TATACTCTTA
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 132 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (137 bp):
GTTATATCTCATACCACTCATTCTATTCATCATTTAATCTTAAATTAAAAGTGGCCATCAAACTA
TAAGTCATATACATGCATTATCTATTATACATCTTAATTCAAGTGCTAGCCAAAGATCACAATTC
ACTTACA
Found at i:55461450 original size:47 final size:47
Alignment explanation
Indices: 55461341--55461451 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
55461331 CCGGGATAAG
* *
55461341 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
55461388 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
55461435 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
55461452 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:55462224 original size:4 final size:4
Alignment explanation
Indices: 55462215--55462294 Score: 61
Period size: 4 Copynumber: 18.8 Consensus size: 4
55462205 CCCTTTTCTA
* ** * *
55462215 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TCAC GTTTGC TCTC TGTAAC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-T-TC
*
55462263 ATTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
55462295 TTAACTTACT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
4 51 0.86
5 4 0.07
6 3 0.05
7 1 0.02
ACGTcount: A:0.06, C:0.26, G:0.04, T:0.64
Consensus pattern (4 bp):
TTTC
Found at i:55464921 original size:17 final size:15
Alignment explanation
Indices: 55464899--55464932 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
55464889 ATTCCATTGC
55464899 TTCTTCTTCCGTTTTCT
1 TTCTTCTT-C-TTTTCT
55464916 TTCTTCTTCTTTTCT
1 TTCTTCTTCTTTTCT
55464931 TT
1 TT
55464933 TTGCTCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (15 bp):
TTCTTCTTCTTTTCT
Found at i:55465741 original size:14 final size:15
Alignment explanation
Indices: 55465716--55465744 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55465706 TTTCCAATTC
55465716 TTTTTTGCTTTCTCA
1 TTTTTTGCTTTCTCA
55465731 TTTTTTG-TTTCTCA
1 TTTTTTGCTTTCTCA
55465745 ATCCGATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTTTGCTTTCTCA
Found at i:55468818 original size:14 final size:14
Alignment explanation
Indices: 55468799--55468827 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
55468789 AGCAGATGGT
55468799 TAAGACTTTTAGAC
1 TAAGACTTTTAGAC
55468813 TAAGACTTTTAGAC
1 TAAGACTTTTAGAC
55468827 T
1 T
55468828 TTAGATGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (14 bp):
TAAGACTTTTAGAC
Found at i:55474893 original size:3 final size:3
Alignment explanation
Indices: 55474885--55474917 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
55474875 GTGAAAATAG
55474885 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
55474918 TACTTTACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:55487382 original size:39 final size:39
Alignment explanation
Indices: 55487323--55487462 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
55487313 ATCGTGATCT
* * *
55487323 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
55487362 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
55487401 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
55487440 GAAGCCCGAGGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
55487463 TCATCAGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:55487421 original size:19 final size:18
Alignment explanation
Indices: 55487321--55487462 Score: 99
Period size: 18 Copynumber: 7.4 Consensus size: 18
55487311 ACATCGTGAT
* *
55487321 CTGAAGCCCGAAGTCTAG
1 CTGAAGCCCGAAGGCTAA
**
55487339 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAG-GCT-AA
*
55487360 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGGCTAA
55487378 CTGAAGCACAC-AAGTGCTAA
1 CTGAAGC-C-CGAAG-GCTAA
*
55487398 ATGAAAGCCCGAAGGCTAA
1 CTG-AAGCCCGAAGGCTAA
55487417 CTGAAGCACAC-AAGTGCTAAA
1 CTGAAGC-C-CGAAG-GCT-AA
* *
55487438 CAGAAGCCCGAGGGCTAA
1 CTGAAGCCCGAAGGCTAA
55487456 CTGAAGC
1 CTGAAGC
55487463 TCATCAGAGC
Statistics
Matches: 98, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
18 27 0.28
19 27 0.28
20 25 0.26
21 19 0.19
ACGTcount: A:0.37, C:0.25, G:0.25, T:0.13
Consensus pattern (18 bp):
CTGAAGCCCGAAGGCTAA
Found at i:55490540 original size:26 final size:26
Alignment explanation
Indices: 55490504--55490557 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
55490494 TTTAAATACG
*
55490504 TGAATGCCTATGATAATTCTTGAACA
1 TGAATGCCTATGATAAATCTTGAACA
55490530 TGAATGCCTATGATAAATCTTGAACA
1 TGAATGCCTATGATAAATCTTGAACA
55490556 TG
1 TG
55490558 CTAGTAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (26 bp):
TGAATGCCTATGATAAATCTTGAACA
Found at i:55491584 original size:46 final size:46
Alignment explanation
Indices: 55491526--55491847 Score: 572
Period size: 46 Copynumber: 7.0 Consensus size: 46
55491516 TTTCTGTCAT
** * * *
55491526 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
**
55491572 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
55491618 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
55491664 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
55491710 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
55491756 ATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
55491802 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
55491848 AGAGCACACT
Statistics
Matches: 269, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 269 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:55493943 original size:16 final size:16
Alignment explanation
Indices: 55493924--55493962 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
55493914 AATTTTTCCC
*
55493924 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
55493940 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
55493956 TCTTTCC
1 TTTTTCC
55493963 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:55500423 original size:18 final size:18
Alignment explanation
Indices: 55500400--55500445 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
55500390 TTTAAAAAAA
*
55500400 TATAAATTTTGGAATTTT
1 TATAAATTTTGGAACTTT
*
55500418 TATAAATATTTTGAACTTT
1 TATAAAT-TTTGGAACTTT
55500437 TA-AAATTTT
1 TATAAATTTT
55500446 TTGTTGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 11 0.44
19 11 0.44
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (18 bp):
TATAAATTTTGGAACTTT
Found at i:55500718 original size:29 final size:28
Alignment explanation
Indices: 55500665--55500724 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
55500655 TAATTTTTAA
* *
55500665 ATTTTTAAAAATACAAAATTATAAAACT
1 ATTTTTAAAAATAAAAAATCATAAAACT
*
55500693 ATTTTTAAAAATAAAAAATCATTAAAATT
1 ATTTTTAAAAATAAAAAATCA-TAAAACT
55500722 ATT
1 ATT
55500725 AAAAATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTTTTAAAAATAAAAAATCATAAAACT
Found at i:55501087 original size:3 final size:3
Alignment explanation
Indices: 55501079--55501109 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
55501069 ATAGTTTTGA
55501079 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
55501110 ATTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:55513692 original size:23 final size:24
Alignment explanation
Indices: 55513657--55513703 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
55513647 TTTTTTAATT
*
55513657 AAATTTGATATTAATTTTCTTTAA
1 AAATTCGATATTAATTTTCTTTAA
* *
55513681 AAATTCGA-ATTACTTTTTTTTAA
1 AAATTCGATATTAATTTTCTTTAA
55513704 CAAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (24 bp):
AAATTCGATATTAATTTTCTTTAA
Found at i:55513815 original size:34 final size:34
Alignment explanation
Indices: 55513777--55513843 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
55513767 CATATAATTC
55513777 ATATTAACATGACACTAAATATTTTATATACCAT
1 ATATTAACATGACACTAAATATTTTATATACCAT
55513811 ATATTAACATGACACTAAATATTTTATATACCA
1 ATATTAACATGACACTAAATATTTTATATACCA
55513844 CGTCAACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (34 bp):
ATATTAACATGACACTAAATATTTTATATACCAT
Found at i:55519954 original size:6 final size:6
Alignment explanation
Indices: 55519939--55520035 Score: 176
Period size: 6 Copynumber: 16.2 Consensus size: 6
55519929 ATAATTTAAA
* *
55519939 ACATTT ACATAC ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
55519987 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
55520035 A
1 A
55520036 TGCCCTTCTC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 88 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:55525666 original size:46 final size:46
Alignment explanation
Indices: 55525614--55525887 Score: 395
Period size: 46 Copynumber: 6.0 Consensus size: 46
55525604 AGTGTGCTCT
* **
55525614 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
55525660 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
55525706 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
55525752 ATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
55525798 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * * *
55525844 ATGACAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
55525888 TCATGTCAAA
Statistics
Matches: 214, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 214 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:55526194 original size:16 final size:17
Alignment explanation
Indices: 55526173--55526205 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55526163 ATGATGGTGC
55526173 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
55526189 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
55526206 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:55531829 original size:12 final size:12
Alignment explanation
Indices: 55531812--55531840 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
55531802 AAGCTACATG
55531812 TTAAAACTAAAA
1 TTAAAACTAAAA
55531824 TTAAAACTAAAA
1 TTAAAACTAAAA
55531836 TTAAA
1 TTAAA
55531841 TGATGTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAAACTAAAA
Found at i:55537979 original size:15 final size:15
Alignment explanation
Indices: 55537959--55537988 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
55537949 AAGGAAAATG
55537959 TTAACTCCGTTTAAT
1 TTAACTCCGTTTAAT
55537974 TTAACTCCGTTTAAT
1 TTAACTCCGTTTAAT
55537989 CTTCAGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
TTAACTCCGTTTAAT
Found at i:55539564 original size:17 final size:18
Alignment explanation
Indices: 55539538--55539572 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
55539528 TGTTTCTTAA
55539538 ATATAATTTTAAA-AAAC
1 ATATAATTTTAAATAAAC
*
55539555 ATATATTTTTAAATAAAC
1 ATATAATTTTAAATAAAC
55539573 GAGTATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATAATTTTAAATAAAC
Found at i:55541253 original size:22 final size:23
Alignment explanation
Indices: 55541211--55541255 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
55541201 ATTAGTTTTA
*
55541211 AGAGTTCTAATTTATTGTTAAAT
1 AGAGTTCTAATTTATAGTTAAAT
55541234 AGAGTT-TAA-TTATAGATTAAAT
1 AGAGTTCTAATTTATAG-TTAAAT
55541256 TATTTGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.44
Consensus pattern (23 bp):
AGAGTTCTAATTTATAGTTAAAT
Found at i:55541319 original size:19 final size:19
Alignment explanation
Indices: 55541274--55541320 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
55541264 CTAAATTTTA
**
55541274 TATTATTTTATTATGAATT
1 TATTATTTTATTAAAAATT
55541293 TATATATTTT-TTAAAAATT
1 TAT-TATTTTATTAAAAATT
55541312 TCATTATTT
1 T-ATTATTT
55541321 GAGTGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTATTTTATTAAAAATT
Found at i:55543271 original size:70 final size:70
Alignment explanation
Indices: 55543158--55543298 Score: 210
Period size: 70 Copynumber: 2.0 Consensus size: 70
55543148 TGTTATATCT
* * *
55543158 CATCAATATTTCATCTAGTACATACAATTGGTTTCAATTTAACTAGACACATGTGCATGCCATTC
1 CATCAATACTTCATCTAGTACATAAAATTGGTTTCAATTTAACTAGACACATGTGCAAGCCATTC
55543223 TAAAA
66 TAAAA
* * * * *
55543228 CATCAGTACTTCATCTAGTATATAAAATTGGTTTTAGTTTAACTAGACGCATGTGCAAGCCATTC
1 CATCAATACTTCATCTAGTACATAAAATTGGTTTCAATTTAACTAGACACATGTGCAAGCCATTC
55543293 TAAAA
66 TAAAA
55543298 C
1 C
55543299 TAGATTAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (70 bp):
CATCAATACTTCATCTAGTACATAAAATTGGTTTCAATTTAACTAGACACATGTGCAAGCCATTC
TAAAA
Found at i:55543316 original size:33 final size:33
Alignment explanation
Indices: 55543274--55543340 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
55543264 GTTTAACTAG
55543274 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
1 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
55543307 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
1 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
55543340 A
1 A
55543341 AGCGTATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (33 bp):
ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
Found at i:55552410 original size:23 final size:23
Alignment explanation
Indices: 55552344--55552410 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
55552334 GAGATGTTAT
55552344 TTGAATAA-T-TGTATCTCTTAC
1 TTGAATAATTATGTATCTCTTAC
* * * * *
55552365 TTCAATAATTATATTTATGTTAC
1 TTGAATAATTATGTATCTCTTAC
* *
55552388 TTGAATAATTATGTCTCTTTTAC
1 TTGAATAATTATGTATCTCTTAC
55552411 AGATAAGATT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 7 0.21
22 1 0.03
23 26 0.76
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (23 bp):
TTGAATAATTATGTATCTCTTAC
Found at i:55561630 original size:27 final size:25
Alignment explanation
Indices: 55561600--55561686 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 25
55561590 TGTATAATTA
*
55561600 AATTAAATTTAAAATTTAAATATATAT
1 AATTAAA-TT-AAATTAAAATATATAT
*
55561627 AATTATATTAAATTAAAAAATATATAT
1 AATTAAATTAAATT--AAAATATATAT
55561654 AATTATACATTAAATTAAAATTTATATAT
1 AATTA-A-ATTAAATTAAAA--TATATAT
55561683 AATT
1 AATT
55561687 TTAAAATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
25 5 0.10
26 2 0.04
27 25 0.49
29 19 0.37
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTAAATTAAATTAAAATATATAT
Found at i:55561640 original size:25 final size:26
Alignment explanation
Indices: 55561611--55561686 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
55561601 ATTAAATTTA
*
55561611 AAATTTAAATATATATAATTAT-ATT
1 AAATTAAAATATATATAATTATAATT
55561636 AAATTAAAAAATATATATAATTATACATT
1 AAATT--AAAATATATATAATTATA-ATT
55561665 AAATTAAAATTTATATATAATT
1 AAATTAAAA--TATATATAATT
55561687 TTAAAATTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
25 5 0.11
27 20 0.45
29 19 0.43
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
AAATTAAAATATATATAATTATAATT
Found at i:55561665 original size:29 final size:27
Alignment explanation
Indices: 55561617--55561686 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 27
55561607 TTTAAAATTT
55561617 AAATATATATAATTATATTAAATTAAA
1 AAATATATATAATTATATTAAATTAAA
55561644 AAATATATATAATTATACATTAAATTAAA
1 AAATATATATAATTAT--ATTAAATTAAA
**
55561673 ATTTATATATAATT
1 AAATATATATAATT
55561687 TTAAAATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 16 0.41
29 23 0.59
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
AAATATATATAATTATATTAAATTAAA
Found at i:55566855 original size:5 final size:6
Alignment explanation
Indices: 55566842--55566882 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
55566832 ATAATTTAAT
*
55566842 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
55566883 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:55566870 original size:20 final size:21
Alignment explanation
Indices: 55566834--55566877 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
55566824 AATTAAAAAT
55566834 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
55566855 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
55566875 AAT
1 AAT
55566878 AAAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:55566883 original size:20 final size:20
Alignment explanation
Indices: 55566845--55566884 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
55566835 ATTTAATAAA
**
55566845 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
55566865 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
55566885 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:55566960 original size:9 final size:9
Alignment explanation
Indices: 55566902--55566959 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
55566892 TTTATACAAA
55566902 TAATTCGGT
1 TAATTCGGT
55566911 TAATTCGGT
1 TAATTCGGT
* *
55566920 TAATTTGGG
1 TAATTCGGT
**
55566929 TAATTAAG-
1 TAATTCGGT
*
55566937 TAATTCGGG
1 TAATTCGGT
*
55566946 TAATTTGGT
1 TAATTCGGT
55566955 TAATT
1 TAATT
55566960 TTATATTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
8 6 0.15
9 34 0.85
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:55567786 original size:11 final size:11
Alignment explanation
Indices: 55567772--55567807 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
55567762 ATATCCAAAC
55567772 AATAATAATAA
1 AATAATAATAA
*
55567783 AATAATAGTAA
1 AATAATAATAA
*
55567794 AATAATAATGA
1 AATAATAATAA
55567805 AAT
1 AAT
55567808 GGTAGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (11 bp):
AATAATAATAA
Found at i:55567817 original size:22 final size:22
Alignment explanation
Indices: 55567772--55567819 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
55567762 ATATCCAAAC
*
55567772 AATAATAATAAAATAATAGTAA
1 AATAATAATAAAATAATAGCAA
* **
55567794 AATAATAATGAAATGGTAGCAA
1 AATAATAATAAAATAATAGCAA
55567816 AATA
1 AATA
55567820 GTGAGAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.25
Consensus pattern (22 bp):
AATAATAATAAAATAATAGCAA
Found at i:55572816 original size:17 final size:17
Alignment explanation
Indices: 55572794--55572826 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
55572784 AACTGTCGAG
55572794 AAGTTATTCAAGGAATA
1 AAGTTATTCAAGGAATA
55572811 AAGTTATTCAAGGAAT
1 AAGTTATTCAAGGAAT
55572827 GTAATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (17 bp):
AAGTTATTCAAGGAATA
Found at i:55572927 original size:630 final size:615
Alignment explanation
Indices: 55571240--55574251 Score: 3367
Period size: 630 Copynumber: 4.8 Consensus size: 615
55571230 ACATCTTAGA
* * * * *
55571240 CAGAATCTCCCTATAGTTTATTCTAATAGCACAGTATATCATCACAATTATGCCCTACAAAATAA
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* * * ** * ** * * *
55571305 CAATATAGAATACGAAAAATTTAAGGAGGCTCGGCAAATTATGCCTACATCCTCAAACAATACCC
66 AAATAAAGAACAC-AAAAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCA
*
55571370 AATATATTTCATTA-AAAATGATATAAGTGGGATTTTGCTATTTCAACAATTCAAGATACCAGTA
130 AATATATTTCATTACAAAA-GATAAAAGTGGGA--TT-C-A-TT-----A-T-----TA-C--T-
* * * * *
55571434 CCTTT-T-TTTTTGGAAACTTTGCCATAACCATCTTCCCACGTGAATGGAGCTACAGAAGGACTA
174 -TTTTCTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGG-CTC
* * *
55571497 AATTAATGCACTTTCAGGATGTCCTTTGTTTTAGGAGCATAATGAAAC-T-GTCGAAAAGTTATT
237 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATT
* * * * *
55571560 CAAGAAATGTAATTTTGTTAGGTAATTTGGTTTTGATGTCATCTGTCACTCAAATTGGATAAGTT
302 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTT
** * *
55571625 ACATCACATGACGTTA-TTGCAAAATCTACAGGGTTGACTTGATACAGTTGATGCTATTAGTGA-
367 ACGCCACATGACGTTACTT-CAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGAC
* *
55571688 ACAGATCAC-AGGTTCT-TACTTATCTTATTGTCGGCTTATAAATCTTTTGGAAAGTTAAAAATG
431 ACAGATCACGA-GTTCTCTACTTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATG
* ** *
55571751 AAAAGATATTTAATCATATCACTCATAATCCTATTAGCATTGAATTAATAAGCTTTCAACGAACA
495 AAAAGATATTTAATCATATCACTCATAATCCTATTAGCAGTGAATTAATAATATTTCAACGACCA
* * *
55571816 TTCTAAATGCCTTTAATCATACTAAATATGAATGTTTTAAA-CCTAACCTCCTATA-
560 TTCTAAATGCCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTCCTA-AG
* * * *
55571871 CAGAATCTCCTTATAATTTATTCTAATAACACAATATATCATCACAATTGTACCCTACAAAATAG
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* ** *
55571936 CAATACTGAACACGAAAAATTTAAT-AAGGCTCGACAAATTACACCTACGTCATCAAACAATA--
66 AAATAAAGAACAC-AAAAATTT-ATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACC
** * *
55571998 GTA-ATATCTCATTACAAAAGATAAAGTGAGATTGTGTTATTTCAACAATTCAAGATATTGGTAC
129 AAATATATTTCATTACAAAAGATAAA---AG--TG-G-GA-TT---C-A-T-----TA-T--TAC
* * * *
55572062 TTTTT-TATTTTTGGAAACTTTGTCATAATCATCTTCCTACATGAATGAAGCTACAGAAGGACTC
173 TTTTTCTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGG-CTC
* * *
55572126 AATTAATGCACTTTCATAATGTCCTTTATGTTAGGAGCATAACGAAA-TT-GTCGAGAAGTTATT
237 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATT
* * *
55572189 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTATCACTCAGAGTCGATGAGTT
302 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTT
* * * * * *
55572254 ACGCCACATAACGTTGCTTCAAAATTTATAGGGTTGACTTGATATAATTGATGCTATTAATAACA
367 ACGCCACATGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACA
* *
55572319 CAGATCACGAGTTCTCTACCTATCTTATTGTCAGCTTATGAATCATTTGGAAAGTTAAAAATGAA
432 CAGATCACGAGTTCTCTACTTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAA
* *
55572384 ATGATATTTAATCATATCTCTCATAATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATT
497 AAGATATTTAATCATATCACTCATAATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATT
* * * **
55572449 CTCAATGTCTTCAATCAGACTAAATCTGAATATTTTAAAGCCTAACCTTTTAAG
562 CTAAATGCCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
* * * * *
55572503 TAGATTCCCCCTATAATTTATTCTAATAGCACAACATATCATCACAATTGTGCACTACAAAATAA
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* *
55572568 AAATAAAGAACACAAGAAATTTATTGAGGCTCGACAAATTACACCTGCGTCATCAAACAATACCA
66 AAATAAAGAACACAA-AAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCA
* *
55572633 AATATATTTGATTACAAAAGATAAAAGTGGGATTC-TTA-TACTTTTTCTATTTTTGGAAATTTT
130 AATATATTTCATTACAAAAGATAAAAGTGGGATTCATTATTACTTTTTCTATTTTTGGAAACTTT
* *
55572696 GCCATAATCGTCTTCCCACATGAATGGAGGTACAAAATGGCTCAATTAATGCACTTTCAGAATGT
195 GCCATAATCATCTTCCCACATGAATGGAGCTACAAAA-GGCTCAATTAATGCACTTTCAGAATGT
*
55572761 CCTTTGTGTCAGGAGCATAACGAAACTGTCGAGAAGTTATTCAAGGAATAAAGTTATTCAAGGAA
259 CCTTTGTGTTAGGAGCATAACGAAACT-TC-----G----TC---G-A-AAAGTTATTCAAGGAA
* * *
55572826 TGTAATTTTGTTAGATAGTATGGTTTGGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCAC
309 TGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCAC
*
55572891 ATGACATTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCA
374 ATGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCA
* * *
55572956 CGAGTTCTCTACCTATCTTATTGTCAGCTTATGAATCATTTGGAAAGTTAAAAATGAAATGATAT
439 CGAGTTCTCTACTTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAAGATAT
* * *
55573021 TTAATCTTATCACTCATAATCCTATTAACAGT-AGATTAATAATATTTCAACGACCATTCTCAAT
504 TTAATCATATCACTCATAATCCTATTAGCAGTGA-ATTAATAATATTTCAACGACCATTCTAAAT
*
55573085 GCCTTCAATCAGACCAAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
568 GCCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
* *
55573133 CAGATTCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTGCCCTACAAAATAA
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* * * *
55573198 CAATAAAGAACATAAAAAATTTATCGAGGCTCGAAAAATTACACCTGCGTCATCAAACAATACCA
66 AAATAAAGAACA-CAAAAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCA
* * *
55573263 AATATATTTCATTCCAAAAGATATAAGTGGGATTC-TT-GTACTTTTTCTATTTTTGGAAACTTT
130 AATATATTTCATTACAAAAGATAAAAGTGGGATTCATTATTACTTTTTCTATTTTTGGAAACTTT
* * *
55573326 GCCATAATGATCTTCCCACATGAATGGAGCTATAGAATGGCTCAATTAATGCACTTTCAGAATGT
195 GCCATAATCATCTTCCCACATGAATGGAGCTACA-AAAGGCTCAATTAATGCACTTTCAGAATGT
* * * *
55573391 CCTTTGTGTTAGAAGCATAACGAAAC--CGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGA
259 CCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATTCAAGGAATGTAATTTTGTTAGG
* * * *
55573454 TAGTTTGGTTTGGATGCCACCTGTCACTCAGATTGGGTGAGTTACGCCACATGACATTACTTCAA
324 TAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCACATGACGTTACTTCAA
* * * * * * *
55573519 AATCTTTAGGGTTGACTTGATACAATTAATGTTGTTAGTGACACAGACCACGAGTTATTTACTTA
389 AATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTCTACTTA
* * *
55573584 TCTTATTGTCGGATTATGGATCATTGGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTC
454 TCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTC
* * *
55573649 ATAATCCTATTAGCACTGAATTAATAAGT-TTTCAATGACCATTCTAAATGCCTTCAATTAGACT
519 ATAATCCTATTAGCAGTGAATTAATAA-TATTTCAACGACCATTCTAAATGCCTTCAATCAGACT
* * *
55573713 AAATCT-AGTGTTTTAAAACCTAACATCCT-AG
583 AAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
* * *
55573744 ATAGAATCTCCCTATAATTTATTCTAATAGCACAAAATATCATCACAATTGTACCCTACAAAA-A
1 -CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATA
* * ** * *
55573808 AACAATAATGAACATGAAAAATTTGA-CGAGGCTCGACAAATTATGCATACGTCATTAAACAATA
65 AA-AATAAAGAACA-CAAAAATTT-ATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATA
*
55573872 CCAAATATATTTCTTTACAAAAGATAAAAGTGGGATTCTGTTATTTCAAAAATTCAAGATACTAG
127 CCAAATATATTTCATTACAAAAGATAAAAGTGGGATTC----A-TT-----A-T-----TACT--
* * * *
55573937 TACTTT-TTTTTTTGGAAACTTTGTCACAATCATTTTCCCACATGAATGGAGCTACAAAAGGCTC
174 T--TTTCTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGCTC
* * *
55574001 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGTATAATGAAAC-T-GTCGAGAAGTTATT
237 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATT
* * * * *
55574064 CAATGAATGTAATTTTGCTAGGTAATTTGGTTTTGATGCCATCTATCACTCAAATTGGATGAGTT
302 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTT
* * ** * * *
55574129 ACGTCACATGATGTTACCGCAAAATCTACAAGGTTGACTTGATACAATT-AGTGCTATTGGTGAC
367 ACGCCACATGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGA-TGCTATTAGTGAC
* *
55574193 ACAGATCACGAGTTATTTACTTATCTTATTGTCGGCTTAT-AGATCATTTGGAAAGTTAA
431 ACAGATCACGAGTTCTCTACTTATCTTATTGTCGGCTTATGA-ATCATTTGGAAAGTTAA
55574252 TAATCTTTCA
Statistics
Matches: 2077, Mismatches: 222, Indels: 163
0.84 0.09 0.07
Matches are distributed among these distances:
611 4 0.00
612 171 0.08
613 361 0.17
614 6 0.00
615 2 0.00
616 2 0.00
618 4 0.00
621 2 0.00
622 1 0.00
624 1 0.00
625 2 0.00
627 3 0.00
628 21 0.01
629 222 0.11
630 581 0.28
631 258 0.12
632 350 0.17
633 49 0.02
634 8 0.00
635 21 0.01
636 7 0.00
641 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (615 bp):
CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
AAATAAAGAACACAAAAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCAA
ATATATTTCATTACAAAAGATAAAAGTGGGATTCATTATTACTTTTTCTATTTTTGGAAACTTTG
CCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGCTCAATTAATGCACTTTCAGAATGTCC
TTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATTCAAGGAATGTAATTTTGTTAGGTA
GTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCACATGACGTTACTTCAAAA
TCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTCTACTTATC
TTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCAT
AATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAA
TCTGAATGTTTTAAAGCCTAACCTCCTAAG
Found at i:55584152 original size:18 final size:18
Alignment explanation
Indices: 55584134--55584216 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
55584124 TTTTTAGAAT
55584134 TTTTTTAAATTTTAT-AA
1 TTTTTTAAATTTTATAAA
* *
55584151 TTTTTTAAAATATATAAA
1 TTTTTTAAATTTTATAAA
* ** *
55584169 ATTTAGAATTTTTATAAA
1 TTTTTTAAATTTTATAAA
* *
55584187 TATTTTGAATTTTA-AAA
1 TTTTTTAAATTTTATAAA
55584204 TTTATTTTAAATT
1 -TT-TTTTAAATT
55584217 ATTCTGTAAT
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
17 16 0.34
18 23 0.49
19 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTTAAATTTTATAAA
Found at i:55584166 original size:17 final size:17
Alignment explanation
Indices: 55584134--55584167 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55584124 TTTTTAGAAT
* *
55584134 TTTTTTAAATTTTATAA
1 TTTTTTAAAATATATAA
55584151 TTTTTTAAAATATATAA
1 TTTTTTAAAATATATAA
55584168 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTTAAAATATATAA
Found at i:55584191 original size:19 final size:18
Alignment explanation
Indices: 55584163--55584199 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
55584153 TTTTAAAATA
55584163 TATAAAATTTAGAATTTT
1 TATAAAATTTAGAATTTT
*
55584181 TATAAATATTTTGAATTTT
1 TATAAA-ATTTAGAATTTT
55584200 AAAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TATAAAATTTAGAATTTT
Found at i:55584386 original size:23 final size:23
Alignment explanation
Indices: 55584340--55584391 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
55584330 ACTCAAAACC
* *
55584340 CAAATTACTTATTCGAGTTTACT
1 CAAATTACTTATTCGAATTAACT
*
55584363 CGAATTACTTGATTC-AATTAACT
1 CAAATTACTT-ATTCGAATTAACT
55584386 CAAATT
1 CAAATT
55584392 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (23 bp):
CAAATTACTTATTCGAATTAACT
Found at i:55585893 original size:8 final size:9
Alignment explanation
Indices: 55585872--55585896 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
55585862 TTGAAAGTTA
55585872 AAAAATTTT
1 AAAAATTTT
55585881 AAAAATTTT
1 AAAAATTTT
55585890 AAAAATT
1 AAAAATT
55585897 GGTAGACCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:55594097 original size:42 final size:41
Alignment explanation
Indices: 55594046--55594133 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 41
55594036 CCAGCAAAGC
55594046 AAATTCTTGGCATAAGACTGACACGTGATAGAAAGGCCAAGG
1 AAATTCTTGGCATAAGACTGACACGTGATAGAAAGGCCAA-G
*
55594088 AAATTCTTGGCATAAGATTGACACGTGATAGAAAGGCCAAG
1 AAATTCTTGGCATAAGACTGACACGTGATAGAAAGGCCAAG
55594129 AAATT
1 AAATT
55594134 ATAGTTATCA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 6 0.13
42 39 0.87
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (41 bp):
AAATTCTTGGCATAAGACTGACACGTGATAGAAAGGCCAAG
Found at i:55598650 original size:24 final size:24
Alignment explanation
Indices: 55598613--55598714 Score: 80
Period size: 24 Copynumber: 4.0 Consensus size: 24
55598603 AGCTTTTGCA
*
55598613 AGCCAAATATCGAGAAGCTCATGCG
1 AGCC-AATATCGAGAAGCTCATGAG
* *
55598638 AGCCAATATCGAGTAGCTCCA-AAG
1 AGCCAATATCGAGAAGCT-CATGAG
*
55598662 AGCCATTAATCGAGAAGCTCATGAG
1 AGCCAAT-ATCGAGAAGCTCATGAG
** *
55598687 AAAGCCTTTTATCAAGAAGCTCATGAG
1 --AGCC-AATATCGAGAAGCTCATGAG
55598714 A
1 A
55598715 AAGCCTTTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
24 22 0.35
25 19 0.30
27 20 0.32
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (24 bp):
AGCCAATATCGAGAAGCTCATGAG
Found at i:55598768 original size:27 final size:27
Alignment explanation
Indices: 55598674--55598762 Score: 151
Period size: 27 Copynumber: 3.3 Consensus size: 27
55598664 CCATTAATCG
55598674 AGAAGCTCATGAGAAAGCCTTTTATCA
1 AGAAGCTCATGAGAAAGCCTTTTATCA
55598701 AGAAGCTCATGAGAAAGCCTTTTATCA
1 AGAAGCTCATGAGAAAGCCTTTTATCA
* *
55598728 GGAAGCTCATGAGAAAGCCTTTTATCG
1 AGAAGCTCATGAGAAAGCCTTTTATCA
*
55598755 GGAAGCTC
1 AGAAGCTC
55598763 CGGAGAGCTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
AGAAGCTCATGAGAAAGCCTTTTATCA
Found at i:55598818 original size:49 final size:50
Alignment explanation
Indices: 55598722--55598895 Score: 147
Period size: 50 Copynumber: 3.5 Consensus size: 50
55598712 AGAAAGCCTT
* * * * **
55598722 TTATCAGGAAGCTCATGAGAAAGCCTTTTATCGGGAAGCTCCGGAGAGCTAA
1 TTATCGGGAAGCTCATGAG--AGCCATATAACGGGAAGCTCAAGAGAGCTAA
* * *
55598774 TTATTGGGAAGCTCAT-ACGAGCCATA-AACGGGAAGCTTAAGAGAG-TCA
1 TTATCGGGAAGCTCATGA-GAGCCATATAACGGGAAGCTCAAGAGAGCTAA
** * *
55598822 TTAATCGGGAAGCTTGTGAGAGCCATATAACGGGATGCTCATGAGAGCTAA
1 TT-ATCGGGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAGAGCTAA
* * *
55598873 ATAACGGGAAGCTCGTGAGAGCC
1 TTATCGGGAAGCTCATGAGAGCC
55598896 TATTATTGGG
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
48 4 0.04
49 34 0.35
50 41 0.42
51 4 0.04
52 15 0.15
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (50 bp):
TTATCGGGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAGAGCTAA
Found at i:55598842 original size:25 final size:24
Alignment explanation
Indices: 55598779--55598893 Score: 88
Period size: 25 Copynumber: 4.7 Consensus size: 24
55598769 GCTAATTATT
* *
55598779 GGGAAGCTCAT-ACGAGCCATAAAC
1 GGGAAGCTCATGA-GAGTCATTAAC
* *
55598803 GGGAAGCTTAAGAGAGTCATTAATC
1 GGGAAGCTCATGAGAGTCATTAA-C
** *
55598828 GGGAAGCTTGTGAGAGCCATATAAC
1 GGGAAGCTCATGAGAGTCAT-TAAC
* * *
55598853 GGGATGCTCATGAGAGCTAAATAAC
1 GGGAAGCTCATGAGAG-TCATTAAC
*
55598878 GGGAAGCTCGTGAGAG
1 GGGAAGCTCATGAGAG
55598894 CCTATTATTG
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
24 17 0.24
25 51 0.71
26 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCATGAGAGTCATTAAC
Found at i:55598881 original size:50 final size:51
Alignment explanation
Indices: 55598765--55598920 Score: 144
Period size: 50 Copynumber: 3.1 Consensus size: 51
55598755 GGAAGCTCCG
* * * * * *
55598765 GAGAGCT-AATTATTGGGAAGCTCAT-ACGAGCCATA-AACGGGAAGCTTAA
1 GAGAGCTAAATAATCGGGAAGCTCGTGA-GAGCCATATAACGGGATGCTCAT
* * *
55598814 GAGAG-TCATTAATCGGGAAGCTTGTGAGAGCCATATAACGGGATGCTCAT
1 GAGAGCTAAATAATCGGGAAGCTCGTGAGAGCCATATAACGGGATGCTCAT
**
55598864 GAGAGCTAAATAA-CGGGAAGCTCGTGAGAGCC-TATTATTGGGATGCTCAT
1 GAGAGCTAAATAATCGGGAAGCTCGTGAGAGCCATA-TAACGGGATGCTCAT
*
55598914 AAGAGCT
1 GAGAGCT
55598921 GTGGTGTGTC
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 28 0.32
50 54 0.61
51 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (51 bp):
GAGAGCTAAATAATCGGGAAGCTCGTGAGAGCCATATAACGGGATGCTCAT
Found at i:55598894 original size:25 final size:25
Alignment explanation
Indices: 55598827--55598895 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
55598817 AGTCATTAAT
* *
55598827 CGGGAAGCTTGTGAGAGCCATATAA
1 CGGGAAGCTCGTGAGAGCCAAATAA
* * *
55598852 CGGGATGCTCATGAGAGCTAAATAA
1 CGGGAAGCTCGTGAGAGCCAAATAA
55598877 CGGGAAGCTCGTGAGAGCC
1 CGGGAAGCTCGTGAGAGCC
55598896 TATTATTGGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.33, T:0.17
Consensus pattern (25 bp):
CGGGAAGCTCGTGAGAGCCAAATAA
Found at i:55602014 original size:13 final size:14
Alignment explanation
Indices: 55601993--55602021 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
55601983 TGAAAAATGA
55601993 ATTAGAAAATATTT
1 ATTAGAAAATATTT
55602007 ATTA-AAAATATTT
1 ATTAGAAAATATTT
55602020 AT
1 AT
55602022 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:55609366 original size:95 final size:95
Alignment explanation
Indices: 55609203--55609392 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
55609193 TTGTCTAGAT
55609203 ATCTTTTCCCCACATATTTCTTTTTAAACTCGTTCTGGAAAAATTCCCAAGTAAGCTTCTCTGCA
1 ATCTTTTCCCCACATATTTCTTTTTAAACTCGTTCTGGAAAAATTCCCAAGTAAGCTTCTCTGCA
55609268 GGTACTACAGCTTCCACAGTTTCCCACCAA
66 GGTACTACAGCTTCCACAGTTTCCCACCAA
55609298 ATCTTTTCCCCACATATTTCTTTTTAAACTCGTTCTGGAAAAATTCCCAAGTAAGCTTCTCTGCA
1 ATCTTTTCCCCACATATTTCTTTTTAAACTCGTTCTGGAAAAATTCCCAAGTAAGCTTCTCTGCA
*
55609363 GGTACTACAGCTTCCACAGTTTTCCACCAA
66 GGTACTACAGCTTCCACAGTTTCCCACCAA
55609393 TTATATGCTT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (95 bp):
ATCTTTTCCCCACATATTTCTTTTTAAACTCGTTCTGGAAAAATTCCCAAGTAAGCTTCTCTGCA
GGTACTACAGCTTCCACAGTTTCCCACCAA
Found at i:55609674 original size:82 final size:82
Alignment explanation
Indices: 55609537--55609700 Score: 301
Period size: 82 Copynumber: 2.0 Consensus size: 82
55609527 TCGAAATTCC
*
55609537 TCAGCTCCAAACTTCCTAAGCTTTTCAATCGGAGAACATTTACTAGTTTCAATTATTGAAGGAGG
1 TCAGCTCCAAACATCCTAAGCTTTTCAATCGGAGAACATTTACTAGTTTCAATTATTGAAGGAGG
55609602 TGGAGGAGCAACCGGAG
66 TGGAGGAGCAACCGGAG
* *
55609619 TCAGCTCCAAACATGCTAAGCTTTTCAATCGGAGAACGTTTACTAGTTTCAATTATTGAAGGAGG
1 TCAGCTCCAAACATCCTAAGCTTTTCAATCGGAGAACATTTACTAGTTTCAATTATTGAAGGAGG
55609684 TGGAGGAGCAACCGGAG
66 TGGAGGAGCAACCGGAG
55609701 GTACCACAGG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (82 bp):
TCAGCTCCAAACATCCTAAGCTTTTCAATCGGAGAACATTTACTAGTTTCAATTATTGAAGGAGG
TGGAGGAGCAACCGGAG
Found at i:55616306 original size:2 final size:2
Alignment explanation
Indices: 55616299--55616327 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55616289 CTTCAAAAGA
55616299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
55616328 ATTACATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55623629 original size:13 final size:13
Alignment explanation
Indices: 55623611--55623638 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55623601 CCTCTTTTTA
55623611 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
55623624 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
55623637 TT
1 TT
55623639 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:55639326 original size:68 final size:68
Alignment explanation
Indices: 55639216--55639346 Score: 226
Period size: 68 Copynumber: 1.9 Consensus size: 68
55639206 TACTATTGAT
* * *
55639216 AGAGTTACGGTGATAGAGTGGATGATATTCGACAAAAGTGACTTAATGACAAAAATATTATATGA
1 AGAGTTACGATGATAGAATGGATGATATTCGACAAAAATGACTTAATGACAAAAATATTATATGA
55639281 TGA
66 TGA
*
55639284 AGAGTTACGATGATAGAATGGATGATATTCGATAAAAATGACTTAATGACAAAAATATTATAT
1 AGAGTTACGATGATAGAATGGATGATATTCGACAAAAATGACTTAATGACAAAAATATTATAT
55639347 AACGGACGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.29
Consensus pattern (68 bp):
AGAGTTACGATGATAGAATGGATGATATTCGACAAAAATGACTTAATGACAAAAATATTATATGA
TGA
Found at i:55641383 original size:15 final size:16
Alignment explanation
Indices: 55641356--55641386 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
55641346 TAGTCATTAA
55641356 TATTTATATATTTTTT
1 TATTTATATATTTTTT
55641372 TATTTA-ATATTTTTT
1 TATTTATATATTTTTT
55641387 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTATATATTTTTT
Found at i:55642430 original size:50 final size:50
Alignment explanation
Indices: 55642371--55642470 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
55642361 AAATGCATTT
55642371 AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
1 AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
55642421 AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
1 AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
55642471 GTTGTTGACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (50 bp):
AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
Found at i:55644439 original size:72 final size:71
Alignment explanation
Indices: 55644342--55644481 Score: 244
Period size: 72 Copynumber: 2.0 Consensus size: 71
55644332 GTAACAATTG
55644342 ACGAGATTCTGATTTTAAAATTAGAAAAGCGAAAGGATTTAAGTACAAAGATAAAATTTAATAAT
1 ACGAGATTCTGATTTTAAAATTAGAAAAGCGAAAGGATTTAAGTACAAAGATAAAATTTAA-AAT
55644407 TTTAATC
65 TTTAATC
* * *
55644414 ACGAGATTCTGATTTTTAAATTAGAAAAGCGAAAGGGTTTAAGTACAAAGATAAAATTTTAAATT
1 ACGAGATTCTGATTTTAAAATTAGAAAAGCGAAAGGATTTAAGTACAAAGATAAAATTTAAAATT
55644479 TTA
66 TTA
55644482 TCTAAGTATA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 7 0.11
72 58 0.89
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (71 bp):
ACGAGATTCTGATTTTAAAATTAGAAAAGCGAAAGGATTTAAGTACAAAGATAAAATTTAAAATT
TTAATC
Found at i:55645136 original size:370 final size:375
Alignment explanation
Indices: 55644467--55645170 Score: 971
Period size: 370 Copynumber: 1.9 Consensus size: 375
55644457 TACAAAGATA
* *
55644467 AAATTTTAAATTTTATCTAAGTATAATAACCAATAACATATATATTTTTTTATAATAATGAAAGA
1 AAATTTTAAATCTTATCTAAGTATAATAACCAATAACATATATATTTTTTTATAATAATAAAAGA
** * * *
55644532 AATTACAAATAATATGTTTTAATCAAATAAAAATAACATTAATAATTGTAGTAAACAAGGATTGG
66 AACGACAAATAACATGTTTTAACCAAATAAAAATAACATTAATAATGGTAGTAAACAAGGATTGG
*
55644597 TTTGAGTGTCATTCGATAAATGATCTATAATTACCATTTTTAGTCATCTATTAAAAGCTAACAGT
131 GTTGAGTGTCATTCGATAAATGATCTATAATTACCATTTTTAGTCATCTATTAAAAGCTAACAGT
* * * * * *
55644662 TGTTACTGTAGACTACCATAAGGTTAATATCATATCATGTCATTCTTCGTGTAAAATGTCAATTA
196 CGTTACTCTAAACTACCATAAGGTAAATATCATATCATGACATTCTTAGTGTAAAATGTCAATTA
* * * *
55644727 TAGTAAACCTCATGTGAGAGTAGTCTAATTAATATGTCAAGTTTGTAAAT-TTGATGAAAATACT
261 TAGTAAACCTCATGTGAGAGAAGTCTAATTAACATGTCAAGTATGTAAATCTTGATGAAAATACC
55644791 AAGAATTTTATTGATGGAGCTTGTGTTTTAACCATTTAAGTAGAGAGACT
326 AAGAATTTTATTGATGGAGCTTGTGTTTTAACCATTTAAGTAGAGAGACT
* *
55644841 AAATTTTAAATCTTATCTAATTATAATAACCAAT-A-ATATA-GTTTTTTTATAATAATAAAAGA
1 AAATTTTAAATCTTATCTAAGTATAATAACCAATAACATATATATTTTTTTATAATAATAAAAGA
* *
55644903 AACGACAAATAACATGTTTTAACCAAGTTAAAAA-AA-ATTAATAATGGTAG-AGAACACA-TAT
66 AACGACAAATAACATGTTTTAACCAA-ATAAAAATAACATTAATAATGGTAGTA-AACA-AGGAT
* * * *
55644964 TGGGTTGCGTGTCATTTGATAAATGATTTTTAATTACCATTTTTAG-CAATCTATTTAAAA-CTA
128 TGGGTTGAGTGTCATTCGATAAATGATCTATAATTACCATTTTTAGTC-ATCTA-TTAAAAGCTA
** * * *
55645027 TTAGTCGTTACTCTAAACTACCATAAGGTAAATATCATATCATAGACTTTCTTATTGTAAGAT-T
191 ACAGTCGTTACTCTAAACTACCATAAGGTAAATATCATATCAT-GACATTCTTAGTGTAAAATGT
* *
55645091 CAATTATAGTCAATCTCATGTGAGAGAAGTCTAATTAACATGTCAAGTATGTAAATCTTGATGAA
255 CAATTATAGTAAACCTCATGTGAGAGAAGTCTAATTAACATGTCAAGTATGTAAATCTTGATGAA
*
55645156 AATACCAATAATTTT
320 AATACCAAGAATTTT
55645171 GCTCATGGGG
Statistics
Matches: 289, Mismatches: 34, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
369 2 0.01
370 157 0.54
371 86 0.30
372 11 0.04
373 1 0.00
374 32 0.11
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (375 bp):
AAATTTTAAATCTTATCTAAGTATAATAACCAATAACATATATATTTTTTTATAATAATAAAAGA
AACGACAAATAACATGTTTTAACCAAATAAAAATAACATTAATAATGGTAGTAAACAAGGATTGG
GTTGAGTGTCATTCGATAAATGATCTATAATTACCATTTTTAGTCATCTATTAAAAGCTAACAGT
CGTTACTCTAAACTACCATAAGGTAAATATCATATCATGACATTCTTAGTGTAAAATGTCAATTA
TAGTAAACCTCATGTGAGAGAAGTCTAATTAACATGTCAAGTATGTAAATCTTGATGAAAATACC
AAGAATTTTATTGATGGAGCTTGTGTTTTAACCATTTAAGTAGAGAGACT
Found at i:55645415 original size:43 final size:43
Alignment explanation
Indices: 55645367--55645451 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
55645357 CAATGCGGAT
55645367 TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTTC
1 TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTTC
55645410 TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTT
1 TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTT
55645452 ATAGTCATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (43 bp):
TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTTC
Found at i:55648753 original size:812 final size:806
Alignment explanation
Indices: 55645410--55649090 Score: 4014
Period size: 812 Copynumber: 4.6 Consensus size: 806
55645400 TTACCATTTC
* * *
55645410 TGGGTTGAGTGTTATTTGATAAATGAAT-TGTAATTACCATTTATAGTCATCTATTAAAAGCTAA
1 TGGGTTGAGTGTCATTTGATAAATG-ATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAA
* * * * * * *
55645474 TAGCCTTTACTCTAGACTACCATGAGGCTAATAGCAAATCATAGTCTTTATTCATGTAAGATGTC
65 TAGTCGTTACTCTAGACTACCATAAGGTTAATA-TATATCATAGTCTTTCTTCATGTAAGATGTC
* * * * * *
55645539 AATTATAATCAACCTCATGTGAGAGTAGTCTAATCAATATGTTAAGTTTTCAAATTTTGATGAAA
129 AATTATAGTCAACC-CATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAA
** * * * * * * * * * *
55645604 ATATTAATAATTTTAGTGATGAGACTATGATTTTTTCAATTAGAAGAGTGATATGGCTTAAGTTT
193 ATACCAATAATTTTACTGATGGGGCTATGA-TTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTT
* * * * * *
55645669 TAACCATTTAAGTATAAAAACTAAATTTTAAATCTTTTCTAAGTATAATGA-CAGATAACAATTT
257 TAGCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCA-ATAAC-ATAT
* * ** * * *
55645733 TTTTTAGAATAAC-AAAAGAAATTC--C-A-AATTGCATGTTTTAACC--AAAAAATAAAATTAA
320 TTTGT--AATAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAAAAAAAATAACATCAA
* * * * * * *
55645791 TAATGGTATCGAACACGGATTGGTTTGAGTGTCATTTGATAAATGATCTATAACTATCATTTTTT
383 TAATGGTAGC-AACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTA
* * * * * *
55645856 GTCATCTATTAAAAG-TCAATAGTCGTTACTCTAGACTACCATAAGGTTAATACCACATCATCGT
447 GCCATCTATTAAAAGCT-AATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGT
* * * * * *
55645920 CTTTCATCATGTAATATGCCAATTATAGTAAAACTCATGTGAGAGTAGTCTAA-TAACATGTCAA
511 CTTTCTTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAA
* * * * * *
55645984 GTTTGAAAATTTTAATGAAAATACTAATAATTTTATTGATGGGGATGTGATTCTTAAACCAG-AA
576 GTTTGAAAATTTTGATGAAAATACCAATAATTTTACTAAT-GGGATGTGATTTTTAAACAAGAAA
* * * *
55646048 AGGCGAGAGGGC-ATATGTTTTAGA-CATTTTAA-TATATAGATTAAATTTTAAATCTTATCTAA
640 ACGCGAGAGGGCTA-ATGTTTTA-ACCA-TTTAAGTTTATAGACTAAATTTTAAATATTATCTAA
* * * ** *
55646110 GTAT-AAGCACCAACAAC--ACA-TTTTTTATAATAACAAAAGAAATGACTAATAATATGTTTTA
702 GTATAAAG-ACCAATAACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTA
* * * *
55646171 ACCAAGTAAAAATAACATTAATGATGGTAGCGAACACAAAT
766 ACCAAGTAAAAATAACATCAATAATGGTAGCCAACACGAAT
* *
55646212 TGGGTTGAGTGTCATTTGATAAATGATATGTAATTACCATTTTTAGCCATCTACTAAAAGCTAAT
1 TGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAAT
* * * * * * *
55646277 AGTTGTTACTCTAGATTACCATAACGTTAATAACATATCATGGTTTTTCTTCATGTTAGATGTCA
66 AGTCGTTACTCTAGACTACCATAAGGTTAAT-ATATATCATAGTCTTTCTTCATGTAAGATGTCA
* *
55646342 ATTATAGTCAACCTCATGTGAGAGTAGTCTAATAAACATGTCAAGTTTTTATATCTTGATGAAAA
130 ATTATAGTCAACC-CATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAAA
* *
55646407 TACC---------A---A------TA--ATTTTTAAACTAGAAAAGCGAAATGGCTTATGTTTTA
194 TACCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTA
* * ** *
55646452 GCCATTTAAGTATTATATACTAAAATTTAAATCTTATCTAAGTATATGGACCAATAACATATTTT
259 GCCATTTAAGTA-TATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCAATAACATATTTT
* * * ** * * *
55646517 TTTATAATAACGAAAGAAA-AA-AATAATAGTATGTTTTAACCAATTAAAAATAACATCAATAAT
323 GTAATAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAA-AAAAAATAACATCAATAAT
* * ** *
55646580 GGTAACCAATGCAAATTGGGTTGAGTGTCATTTGATAAATGATATGTAATTACCATTTTTAGCCA
387 GGT-AGCAACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCA
* ** * *
55646645 TGTATTAAAAGCTAATAGTAGTTACTCTAGACTACCATATTGTTAATATTATATCATAGTCTTTC
451 TCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGTCTTTC
* * *
55646710 TTCATGTTAGATGTCAAATATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAAGTTCG
516 TTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAAGTTTG
* * *
55646775 AAAATTTTGATGAAAATACCAATACTTTTACTCATGGGATGTGATTTTTAAACAAGAAAA-GCAA
581 AAAATTTTGATGAAAATACCAATAATTTTACTAATGGGATGTGATTTTTAAACAAGAAAACGCGA
* * * * *
55646839 GAGGGCTTATGTTTTAGCCATTTAAGTTTATAGACTAAAGTTCAAGTATTATCTAAGTATAAAGA
646 GAGGGCTAATGTTTTAACCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATAAAGA
* * * *
55646904 TCAATAACATGTATTTTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAA
711 CCAATAACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAACCAAGTAAA
* **
55646969 AATAACATCACTAATGGTAGCCAATGCGTAA-
776 AATAACATCAATAATGGTAGCCAACACG-AAT
*
55647000 TGGGTTGAGTGTCATTTGTTAAATGATCTGT-ATATACCATTTTTAGCCATCTATTAAAAGCTAA
1 TGGGTTGAGTGTCATTTGATAAATGATCTGTAAT-TACCATTTTTAGCCATCTATTAAAAGCTAA
* * * * *
55647064 TAGTCGTTACTCTAGACAATCATAAGGTTAATATCATATCAGAGTCTTTATCCATGTAAGATGTC
65 TAGTCGTTACTCTAGACTACCATAAGGTTAATAT-ATATCATAGTCTTTCTTCATGTAAGATGTC
* * * * * *
55647129 AATTATAGTCAAACTCATGTGAGAGTAGTCTAAATAACATGTCAAGTTTGTAAATATCGACGAAA
129 AATTATAGTC-AACCCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAA
* * * * *
55647194 AAACCAATAATTTTACTCATGGGGCTATGATTTTTAAACTACAAAAGCAAGAGGGTTTATGTTTT
193 ATACCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTT
* *
55647259 AGCCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATAAAGA-CGAATAACAT-TTT
258 AGCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGC-AATAACATATTT
* ** * * * *
55647322 T-T-ATAATAATGAAAGAAACAAC--TAATATCGTGTTTTAACCAAATAAAAATAACATTAATAA
322 TGTAATAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAAA-AAAAATAACATCAATAA
* * * *
55647383 TGGTAGTCTACGCTGATTGGGTTAAGTGTCATTTG-TAAAATAATCTGTAATTACCATTTTTAGC
386 TGGTAG-CAACGCGGATTGGGTTGAGTGTCATTTGAT-AAATGATCTGTAATTACCATTTTTAGC
* *
55647447 CATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAACGTTAATATTATATCATAGTCTT
449 CATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGTCTT
* *
55647512 TCTTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCCAATTAACATGTCAAATT
514 TCTTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAAGTT
* * ** **
55647577 TGAAATTTTTGATGAAAATACCAATAATTTTACTCATGGGATGTGATTTTTAAATGAGAAAAAAC
579 TGAAAATTTTGATGAAAATACCAATAATTTTACTAATGGGATGTGATTTTTAAACAAGAAAACGC
* *
55647642 GAG-GGAGAACTTATGTTTTAGCCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTAT
644 GAGAGG-G--CTAATGTTTTAACCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTAT
* ** *
55647706 AAAGACCAATAACATATATTTTTCTATAATAACCAAAGAAACAACTAATTGCATGATTTAACCAA
706 AAAGACCAATAACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAACCAA
* * *
55647771 -TAAAAAAAACATCAATAATGGTAACCAACGC-AGAT
771 GTAAAAATAACATCAATAATGGTAGCCAACACGA-AT
* *
55647806 TGGGTTGAGTGTCATTTGATAAATAATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAAT
1 TGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAAT
* * * * *
55647871 AGCCGTTACTTTAGACTACCATAATGTTAATATCATATCATAGTTTTTCTTCATGTAAGATGTTA
66 AGTCGTTACTCTAGACTACCATAAGGTTAATAT-ATATCATAGTCTTTCTTCATGTAAGATGTCA
* * * * *
55647936 ATTATAGTCAACCCAATGTGAGAGTAGTTTAATTAAGATGTAAACTTTTTAAATTTTGATGAAAA
130 ATTATAGTCAACCC-ATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAAA
* * * *
55648001 TACCAATAATTTTACTGATGGGGCTTTGATTTTTAAATTAGTAAAGCGATAGGGCTTATGTTTTA
194 TACCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTA
* * *
55648066 GCCATTTAAGTATATAGACTAAATTTTAAATCTTATTTAAGTATAAATAGCAATAATATATATAT
259 GCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCAATAACATAT-T-T
*
55648131 TGGTAATAACAAAAAAAAAAACAACAACTAATGGCATGTTTTAA-CAAAAAAAAT-ACATCAATA
322 T-GTAATAACAAAAAAAAAAACAACAA-TAATAGCATGTTTTAACCAAAAAAAATAACATCAATA
*
55648194 ATTGTAGGCAACGCGGATTGGGTTGAGTGTCATTT-ATTAAATGATCTGTAATTACCATTTTCTA
385 ATGGTA-GCAACGCGGATTGGGTTGAGTGTCATTTGA-TAAATGATCTGTAATTACCATTTT-TA
* *
55648258 GCCATCTATTAAAAGCTAATAACCGTTACTCTAGACTACCAAAATGTTAATATCATATCATAGTC
447 GCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGTC
* *
55648323 TTTCTTCATGTAAGATGTCAATTATAGTTAA-CTTCATGTGAGAGTAGTCTAATTAACATGTCAA
512 TTTCTTCATGTAAGATGTCAATTATAGTCAATC-TCATGTGAGAGTAGGCTAATTAACATGTCAA
** * ** * * ** *
55648387 GTTTTTAAATTTTGACT-AAAATACTAATAATTTTACTAAAAAGGCTGTGACTTTTAAATTAGTA
576 GTTTGAAAATTTTGA-TGAAAATACCAATAATTTTACT-AATGGGATGTGATTTTTAAACAAGAA
* * * * * *
55648451 AA-GTGAGAGGCCTAATGTTTTAACTATTTAAGTATGA-AGACTAAATTTTAAATCTTATCTAAT
639 AACGCGAGAGGGCTAATGTTTTAACCATTTAAGT-TTATAGACTAAATTTTAAATATTATCTAAG
* * * * *
55648514 TATAATGACCAATGACATATTTTTTTTTATAATAACGAAAGAAACAATTAATAACATGTTTTAAC
703 TATAAAGACCAATAACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAAC
** * * ** * *
55648579 CAAGTAAAAGGAACATGAAAAATGACATCAAACACGAAT
768 CAAGTAAAAATAACATCAATAATGGTAGCCAACACGAAT
** * * *
55648618 TCAGTCGAGTGTCATTTGATTAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTTAT
1 TGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAAT
*
55648683 AGTCGTTACTCTAGACTACCATAAGGTTAATAGTATATTATAGTCTTTCTTCATGTAAGATGTCA
66 AGTCGTTACTCTAGACTACCATAAGGTTAATA-TATATCATAGTCTTTCTTCATGTAAGATGTCA
* * * * * *
55648748 ATTATAGTCAAACTCATGTGAGTGCAATCTAATTAACAAGTCAAGTTTGTAAATCTTGATGAAAA
130 ATTATAGTC-AACCCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAAA
* * * * *
55648813 TACTAATAATTTTACTGATGGGGCTGTGATTTTTAAACAACAAAAGTGAGAGGGCTTATGTTTTA
194 TACCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTA
* * * * * * *
55648878 GCCATTTAAGTATAGAGACTTAATTTTTAATATTATCTAAGTATAGAGATCAATAATATATATTT
259 GCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCAATAACATAT-TTT
* * * * * * *
55648943 TTTATAATAACAAAAGAAAGAAC--TAATAGCATGTTTTAAACAAATAAAAATAACATCAATAAT
323 GTAATAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAAA-AAAAATAACATCAATAAT
* * *
55649006 GGTAGCAAACGCGGATTGGGTTGAGTGTAATTTGATAAATGATCTGTAACTACCATTTTTACCCA
387 GGTAGC-AACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCA
* *
55649071 TATATTAAAAGCTACTAGCC
451 TCTATTAAAAGCTAATAGCC
55649091 TCCAGTTCTA
Statistics
Matches: 2449, Mismatches: 341, Indels: 171
0.83 0.12 0.06
Matches are distributed among these distances:
779 4 0.00
780 4 0.00
781 50 0.02
782 52 0.02
783 2 0.00
784 7 0.00
785 234 0.10
786 54 0.02
787 4 0.00
788 232 0.09
789 5 0.00
790 1 0.00
793 1 0.00
797 1 0.00
800 1 0.00
801 2 0.00
802 169 0.07
803 3 0.00
804 281 0.11
805 12 0.00
806 306 0.12
807 171 0.07
808 48 0.02
809 32 0.01
810 79 0.03
811 106 0.04
812 378 0.15
813 169 0.07
814 28 0.01
815 13 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (806 bp):
TGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAAT
AGTCGTTACTCTAGACTACCATAAGGTTAATATATATCATAGTCTTTCTTCATGTAAGATGTCAA
TTATAGTCAACCCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAAATA
CCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGC
CATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCAATAACATATTTTGTA
ATAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAAAAAAAATAACATCAATAATGGTA
GCAACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTAT
TAAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCAT
GTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAAGTTTGAAAAT
TTTGATGAAAATACCAATAATTTTACTAATGGGATGTGATTTTTAAACAAGAAAACGCGAGAGGG
CTAATGTTTTAACCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATAAAGACCAAT
AACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAACCAAGTAAAAATAA
CATCAATAATGGTAGCCAACACGAAT
Found at i:55648782 original size:405 final size:405
Alignment explanation
Indices: 55646415--55649090 Score: 3245
Period size: 404 Copynumber: 6.6 Consensus size: 405
55646405 AATACCAATA
* * * *
55646415 ATTTTTAAACTAGAAAAGCGAAATGGCTTATGTTTTAGCCATTTAAGTATTATATACTAAAATTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* ** * *
55646480 AAATCTTATCTAAGTATATGGACCAATAACATA--TTTTTTTATAATAACGAAAGAAAAAAATAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATTTTTTTTTATAATAACGAAAGAAACAACTAA
* * * * *
55646543 TAGTATGTTTTAACCAATTAAAAATAACATCAATAATGGTAACCAATGCAAATTGGGTTGAGTGT
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGAGTGT
* * **
55646608 CATTTGATAAATGATATGTAATTACCATTTTTAGCCATGTATTAAAAGCTAATAGTAGTTACTCT
196 CATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCT
* * * * *
55646673 AGACTACCATATTGTTAATATTATATCATAGTCTTTCTTCATGTTAGATGTCAAATATAGTCAAT
261 AGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAAA
* * * *
55646738 CTCATGTGAGAGTAGGCTAATTAACATGTCAAGTTCGAAAATTTTGATGAAAATACCAATACTTT
326 CTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCAATAATTT
* * *
55646803 TACTCATGGGATGTG
391 TACTAAGGGGCTGTG
* * * *
55646818 ATTTTTAAACAAGAAAAGCAAGAGGGCTTATGTTTTAGCCATTTAAGT-TTATAGACTAAAGTTC
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* * * * *
55646882 AAGTATTATCTAAGTATAAAGATCAATAACATGTATTTTTTTATAATAACCAAAGAAACAACTAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATTTTTTTTTATAATAACGAAAGAAACAACTAA
* *
55646947 TAGCATGTTTTAACCAAATAAAAATAACATCACTAATGGTAGCCAATGCGTAA-TGGGTTGAGTG
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCG-AATTGGGTTGAGTG
* *
55647011 TCATTTGTTAAATGATCTGT-ATATACCATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACT
195 TCATTTGATAAATGATCTGTAAT-TACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACT
* * * * * *
55647075 CTAGACAATCATAAGGTTAATATCATATCAGAGTCTTTATCCATGTAAGATGTCAATTATAGTCA
259 CTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCA
* * * * *
55647140 AACTCATGTGAGAGTAGTCTAAATAACATGTCAAGTTTGTAAATATCGACGAAAAAACCAATAAT
324 AACTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCAATAAT
* *
55647205 TTTACTCATGGGGCTATG
389 TTTACT-AAGGGGCTGTG
* * *
55647223 ATTTTTAAACTACAAAAGCAAGAGGGTTTATGTTTTAGCCATTTAAGT-TTATAGACTAAATTTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* *
55647287 AAATATTATCTAAGTATAAAGACGAATAAC--A---TTTTTTATAATAATGAAAGAAACAACTAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATTTTTTTTTATAATAACGAAAGAAACAACTAA
* * * * * *
55647347 TATCGTGTTTTAACCAAATAAAAATAACATTAATAATGGTAGTCTACGCTG-ATTGGGTTAAGTG
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGC-GAATTGGGTTGAGTG
*
55647411 TCATTTG-TAAAATAATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACT
195 TCATTTGAT-AAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACT
* *
55647475 CTAGACTACCATAACGTTAATATTATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCA
259 CTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCA
* * * *
55647540 ATCTCATGTGAGAGTAGGCCAATTAACATGTCAAATTTG-AAATTTTTGATGAAAATACCAATAA
324 AACTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAA-TTTTGATGAAAATACCAATAA
* * *
55647604 TTTTACTCATGGGATGTG
388 TTTTACTAAGGGGCTGTG
*
55647622 ATTTTTAAA-TGAGAAAAAACGAG-GGAGAACTTATGTTTTAGCCATTTAAGT-TTATAGACTAA
1 ATTTTTAAACT-AG-AAAAGCGAGAGG-G--CTTATGTTTTAGCCATTTAAGTATTATAGACTAA
* * *
55647684 ATTTTAAATATTATCTAAGTATAAAGACCAATAACATATATTTTTCTATAATAACCAAAGAAACA
61 ATTTTAAATATTATCTAAGTATAAAGACCAATAACATATTTTTTTTTATAATAACGAAAGAAACA
* * * *
55647749 ACTAATTGCATGATTTAACC-AATAAAAAAAACATCAATAATGGTAACCAACGC-AGATTGGGTT
126 ACTAATAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGA-ATTGGGTT
* *
55647812 GAGTGTCATTTGATAAATAATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAATAGCCGT
190 GAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGT
* * *
55647877 TACTTTAGACTACCATAATGTTAATATCATATCATAGTTTTTCTTCATGTAAGATGTTAATTATA
255 TACTCTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATA
* * * * * *
55647942 GTC-AACCCAATGTGAGAGTAGTTTAATTAAGATGTAAACTTTTTAAATTTTGATGAAAATACCA
320 GTCAAACTC-ATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCA
* *
55648006 ATAATTTTACTGATGGGGCTTTG
384 ATAATTTTACT-AAGGGGCTGTG
* * *
55648029 ATTTTTAAATTAGTAAAGCGATAGGGCTTATGTTTTAGCCATTTAAGTA-TATAGACTAAATTTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* * * * * * ** * * ** *
55648093 AAATCTTATTTAAGTATAAATAGCAATAATATATATATTGGTAATAACAAAAAAAAAAACAACAA
66 AAATATTATCTAAGTATAAAGACCAATAACATAT-TTTTTTTTAT-A-ATAACGAAAGA-AACAA
* * * *
55648158 CTAATGGCATGTTTTAA-CAAA-AAAAAT-ACATCAATAATTGTAGGCAACGCGGATTGGGTTGA
127 CTAATAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGA
*
55648220 GTGTCATTT-ATTAAATGATCTGTAATTACCATTTTCTAGCCATCTATTAAAAGCTAATAACCGT
192 GTGTCATTTGA-TAAATGATCTGTAATTACCATTTT-TAGCCATCTATTAAAAGCTAATAGCCGT
*
55648284 TACTCTAGACTACCAAAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATA
255 TACTCTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATA
* * *
55648349 GT-TAACTTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATTTTGACT-AAAATACT
320 GTCAAAC-TCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGA-TGAAAATACC
**
55648412 AATAATTTTACTAAAAAGGCTGTG
383 AATAATTTTACT-AAGGGGCTGTG
* * * * * * * * *
55648436 ACTTTTAAATTAGTAAAGTGAGAGGCCTAATGTTTTAACTATTTAAGTATGA-AGACTAAATTTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* * * * *
55648500 AAATCTTATCTAATTATAATGACCAATGACATATTTTTTTTTATAATAACGAAAGAAACAATTAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATTTTTTTTTATAATAACGAAAGAAACAACTAA
* * ** * * ** * * * ** *
55648565 TAACATGTTTTAACCAAGTAAAAGGAACATGAAAAATGACATCAAACACGAATTCAGTCGAGTGT
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGAGTGT
* * *
55648630 CATTTGATTAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTTATAGTCGTTACTCT
196 CATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCT
* *
55648695 AGACTACCATAAGGTTAATAGT-ATATTATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAA
261 AGACTACCATAATGTTAATA-TCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAA
* * * * * *
55648759 ACTCATGTGAGTGCAATCTAATTAACAAGTCAAGTTTGTAAATCTTGATGAAAATACTAATAATT
325 ACTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCAATAATT
*
55648824 TTACTGATGGGGCTGTG
390 TTACT-AAGGGGCTGTG
* * * * *
55648841 ATTTTTAAACAACAAAAGTGAGAGGGCTTATGTTTTAGCCATTTAAGTA-TAGAGACTTAATTTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* * * * * * *
55648905 TAATATTATCTAAGTATAGAGATCAATAATATA-TATTTTTTATAATAACAAAAGAAAGAACTAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATTTTTTTTTATAATAACGAAAGAAACAACTAA
* * *
55648969 TAGCATGTTTTAAACAAATAAAAATAACATCAATAATGGTAGCAAACGCGGATTGGGTTGAGTGT
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGAGTGT
* * * * *
55649034 AATTTGATAAATGATCTGTAACTACCATTTTTACCCATATATTAAAAGCTACTAGCC
196 CATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCC
55649091 TCCAGTTCTA
Statistics
Matches: 1945, Mismatches: 279, Indels: 97
0.84 0.12 0.04
Matches are distributed among these distances:
398 1 0.00
399 23 0.01
400 260 0.13
401 3 0.00
402 106 0.05
403 65 0.03
404 461 0.24
405 338 0.17
406 348 0.18
407 314 0.16
408 26 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (405 bp):
ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
AAATATTATCTAAGTATAAAGACCAATAACATATTTTTTTTTATAATAACGAAAGAAACAACTAA
TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGAGTGT
CATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCT
AGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAAA
CTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCAATAATTT
TACTAAGGGGCTGTG
Found at i:55650416 original size:103 final size:101
Alignment explanation
Indices: 55650300--55650511 Score: 273
Period size: 103 Copynumber: 2.1 Consensus size: 101
55650290 AGAGGGCTTG
** * *
55650300 TGTTTTAGCCATTTAAGTATATAAACTAAAATTTAAATTTTATCTAAGTA-TAAAGACCAATAAC
1 TGTTTTAAACATTTAAGTATAGAAACTAAAATTTAAATATTATCTAAG-AGTAAAGACCAATAAC
* *
55650364 ATATTTTTTTTATAATAACGAAAGGAACAACTAATAGCA
65 ATA-TTTTTTTATAATAACGAAA-GAAAAACTAATAACA
* * * ** *
55650403 TGTTTTAAACATTTTAGTGTAGAGACTAACTTTTAAATATTATCTAAGAGTAATGACCAATAACA
1 TGTTTTAAACATTTAAGTATAGAAACTAAAATTTAAATATTATCTAAGAGTAAAGACCAATAACA
*
55650468 TATTTTTTTATAATAATGAAAGAAAAACTAATAACA
66 TATTTTTTTATAATAACGAAAGAAAAACTAATAACA
55650504 TGTTTTAA
1 TGTTTTAA
55650512 CCGAGTAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
101 21 0.22
102 19 0.20
103 55 0.58
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (101 bp):
TGTTTTAAACATTTAAGTATAGAAACTAAAATTTAAATATTATCTAAGAGTAAAGACCAATAACA
TATTTTTTTATAATAACGAAAGAAAAACTAATAACA
Found at i:55655133 original size:3 final size:3
Alignment explanation
Indices: 55655125--55655154 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
55655115 GGCCCCCTCT
*
55655125 GCA GCA GCA GCA GCA GCA GCA GCA ACA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
55655155 ACCCCAGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.33, G:0.30, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:55658431 original size:31 final size:31
Alignment explanation
Indices: 55658393--55658455 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
55658383 AATTGTACCA
* *
55658393 AATCAAAGTTTACCTTTAAAATTACACATTG
1 AATCAAAGTTTACATATAAAATTACACATTG
55658424 AATCAAAGTTTACATATAAAATTACACATTG
1 AATCAAAGTTTACATATAAAATTACACATTG
55658455 A
1 A
55658456 GTTTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (31 bp):
AATCAAAGTTTACATATAAAATTACACATTG
Found at i:55658945 original size:19 final size:20
Alignment explanation
Indices: 55658911--55658954 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
55658901 TTTTTTTAAA
*
55658911 GTTATAAATTTTTATAAGTT
1 GTTATAAATATTTATAAGTT
55658931 GTTAT-AATATTTATAAGTT
1 GTTATAAATATTTATAAGTT
*
55658950 TTTAT
1 GTTAT
55658955 GAATGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
GTTATAAATATTTATAAGTT
Found at i:55658963 original size:19 final size:19
Alignment explanation
Indices: 55658922--55658963 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
55658912 TTATAAATTT
*
55658922 TTATAAGTTGTTATAATAT
1 TTATAAGTTGTTATAATAG
*
55658941 TTATAAGTTTTTATGAAT-G
1 TTATAAGTTGTTAT-AATAG
55658960 TTAT
1 TTAT
55658964 TTTTAGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
TTATAAGTTGTTATAATAG
Found at i:55659056 original size:46 final size:47
Alignment explanation
Indices: 55658912--55659056 Score: 109
Period size: 51 Copynumber: 3.0 Consensus size: 47
55658902 TTTTTTAAAG
* * * *
55658912 TTATAAATTTTTATAAGTTGTTATAATATTTATAAGTTTTTATGAATGTT
1 TTATAAGTTTCTACAAGTT-TTATAATATTTATAAGTTTATAT-AAT-TT
* * * ** *
55658962 ATTTTTAGTTTCTACAAGTTTATATAATTTTTAT-TTTTTA-ATACTTT
1 -TTATAAGTTTCTACAAGTTT-TATAATATTTATAAGTTTATATAATTT
*
55659009 TTATAAGTGTT-TACAA-TTTTATAATCTTTATAAGTTTATATAATTT
1 TTATAAGT-TTCTACAAGTTTTATAATATTTATAAGTTTATATAATTT
55659055 TT
1 TT
55659057 TTTAAATAAT
Statistics
Matches: 74, Mismatches: 16, Indels: 13
0.72 0.16 0.13
Matches are distributed among these distances:
44 11 0.15
45 7 0.09
46 19 0.26
47 4 0.05
48 2 0.03
49 2 0.03
50 4 0.05
51 25 0.34
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (47 bp):
TTATAAGTTTCTACAAGTTTTATAATATTTATAAGTTTATATAATTT
Found at i:55659070 original size:23 final size:24
Alignment explanation
Indices: 55659038--55659085 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
55659028 TATAATCTTT
55659038 ATAAGTTTATATAATTTT-TTTTAA
1 ATAAGTTTATA-AATTTTATTTTAA
*
55659062 ATAA-TTTATAATTTTTATTTTAA
1 ATAAGTTTATAAATTTTATTTTAA
55659085 A
1 A
55659086 AAATACATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
ATAAGTTTATAAATTTTATTTTAA
Found at i:55660232 original size:44 final size:46
Alignment explanation
Indices: 55660136--55660235 Score: 152
Period size: 44 Copynumber: 2.2 Consensus size: 46
55660126 GCCTAAAATG
55660136 TTGGACTC-TAACTTGAATTGGGCCTGATTAAAAAGTATTTAGACATT
1 TTGGA-TCATAACTTGAATTGGGCCTGATT-AAAAGTATTTAGACATT
*
55660183 TTGGATCATAACTTGAATTGGGCCTGA-T-ATAGTATTTAGACATT
1 TTGGATCATAACTTGAATTGGGCCTGATTAAAAGTATTTAGACATT
55660227 TTGGATCAT
1 TTGGATCAT
55660236 TTGACTCTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
44 24 0.47
46 3 0.06
47 24 0.47
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (46 bp):
TTGGATCATAACTTGAATTGGGCCTGATTAAAAGTATTTAGACATT
Found at i:55660627 original size:29 final size:30
Alignment explanation
Indices: 55660585--55660644 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
55660575 ATATTGGATC
* *
55660585 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCAAGTATAAAATTGCACA
*
55660615 AAATC-AAAGTTCAAGTATACAATTGCACA
1 AAATCAAAAGTTCAAGTATAAAATTGCACA
55660644 A
1 A
55660645 TAAACCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (30 bp):
AAATCAAAAGTTCAAGTATAAAATTGCACA
Found at i:55660689 original size:4 final size:4
Alignment explanation
Indices: 55660682--55660706 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
55660672 TATGTATCCC
55660682 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
55660707 TAAAAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:55671486 original size:28 final size:28
Alignment explanation
Indices: 55671446--55671507 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
55671436 TCACTATCAT
55671446 CCCCATAAGTTATAAAACTCTTCCTATA
1 CCCCATAAGTTATAAAACTCTTCCTATA
* * *
55671474 CCCCATAAGTTATGAGACTTTTCCTATA
1 CCCCATAAGTTATAAAACTCTTCCTATA
*
55671502 CGCCAT
1 CCCCAT
55671508 TAATATGGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (28 bp):
CCCCATAAGTTATAAAACTCTTCCTATA
Found at i:55673070 original size:29 final size:30
Alignment explanation
Indices: 55673011--55673068 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
55673001 TCCGAGCCTT
*
55673011 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
55673041 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
55673069 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:55673298 original size:13 final size:13
Alignment explanation
Indices: 55673280--55673311 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
55673270 TTTCCAGCAA
55673280 TTATGAATTTATT
1 TTATGAATTTATT
55673293 TTATGAATTTATT
1 TTATGAATTTATT
*
55673306 TGATGA
1 TTATGA
55673312 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:55673519 original size:50 final size:50
Alignment explanation
Indices: 55673406--55673647 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
55673396 ATTTGGGTAA
* * *
55673406 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
55673462 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
55673512 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
55673562 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
55673612 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
55673648 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:55673595 original size:100 final size:103
Alignment explanation
Indices: 55673406--55673655 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
55673396 ATTTGGGTAA
55673406 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
55673471 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
55673512 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
55673574 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
55673612 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
55673656 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:55679674 original size:28 final size:28
Alignment explanation
Indices: 55679634--55679696 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
55679624 GTCATTATCA
55679634 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
55679662 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
55679690 ACCCCAT
1 ACCCCAT
55679697 TAATATAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:55683679 original size:16 final size:16
Alignment explanation
Indices: 55683645--55683682 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
55683635 AAATTTTGAG
55683645 TTTTTGTCAAAAACGTA
1 TTTTTGTCAAAAAC-TA
55683662 TTTTATGTCAAAAA-TA
1 TTTT-TGTCAAAAACTA
55683678 TTTTT
1 TTTTT
55683683 TAGAAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 6 0.30
17 4 0.20
18 9 0.45
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (16 bp):
TTTTTGTCAAAAACTA
Found at i:55687321 original size:20 final size:20
Alignment explanation
Indices: 55687298--55687349 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
55687288 AAATCCAAAT
55687298 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
55687318 TAAAATCCTTAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
55687338 TAAGAATACTGA
1 TAA-AATACTGA
55687350 TGTGGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:55688206 original size:20 final size:20
Alignment explanation
Indices: 55688173--55688227 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
55688163 TTTATTATTT
55688173 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
55688195 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
55688215 ATTATTATTATTA
1 ATTATTATTATTA
55688228 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 22 0.73
21 3 0.10
22 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:55688206 original size:38 final size:35
Alignment explanation
Indices: 55688119--55688208 Score: 85
Period size: 38 Copynumber: 2.5 Consensus size: 35
55688109 TGTAAATATA
*
55688119 TATAATTTA-ATTATTAATTACTTTTTTATTTAAG
1 TATAATTTATATTATTAATTACTTTTTTATTAAAG
* * * *
55688153 TAT-ATTGATATTTATTATTTATTATTATTCTATTAAAT
1 TATAATTTATA-TTATTAATTACT-TT-TT-TATTAAAG
55688191 TATAATTTATATTATTAA
1 TATAATTTATATTATTAA
55688209 ATTATGATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
33 4 0.09
34 4 0.09
35 10 0.23
36 2 0.05
37 2 0.05
38 15 0.35
39 6 0.14
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (35 bp):
TATAATTTATATTATTAATTACTTTTTTATTAAAG
Found at i:55688212 original size:25 final size:26
Alignment explanation
Indices: 55688164--55688230 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
55688154 ATATTGATAT
* **
55688164 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
*
55688190 TTATAATTTA-TATTATTAAATTATGA
1 TTATAATTTATTATTATTAAATTA-AA
*
55688216 TTATTA-TTATTATTA
1 TTATAATTTATTATTA
55688231 AAAATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:55688526 original size:13 final size:14
Alignment explanation
Indices: 55688508--55688545 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
55688498 TTATAAAGTT
55688508 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
55688521 AATAAAAGAAATGA
1 AATAAAATAAAAGA
55688535 AATAAAATAAA
1 AATAAAATAAA
55688546 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:55688946 original size:22 final size:22
Alignment explanation
Indices: 55688921--55688963 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
55688911 GTAGTTAGAC
55688921 GTGAGTTTGGTAAGAAATTGAT
1 GTGAGTTTGGTAAGAAATTGAT
55688943 GTGAGTTTGGTAAGAAATTGA
1 GTGAGTTTGGTAAGAAATTGA
55688964 GTAGTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (22 bp):
GTGAGTTTGGTAAGAAATTGAT
Found at i:55689734 original size:45 final size:45
Alignment explanation
Indices: 55689656--55689741 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
55689646 CGACTACGGT
* *
55689656 TACTGTTACCGTTACTGTTACCAATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTATTACCAATTAGACACTTTGTGTGTCGAA
55689701 TACTGTTACCGTTACTATTA-CAGATTTAG-CACTTTGTGTGT
1 TACTGTTACCGTTACTATTACCA-A-TTAGACACTTTGTGTGT
55689742 TGATGTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 2 0.05
45 32 0.86
46 3 0.08
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTATTACCAATTAGACACTTTGTGTGTCGAA
Found at i:55689783 original size:18 final size:18
Alignment explanation
Indices: 55689752--55689786 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55689742 TGATGTTGAA
* *
55689752 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
55689770 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
55689787 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:55690909 original size:21 final size:21
Alignment explanation
Indices: 55690867--55690905 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
55690857 TTTTCAGAGA
* *
55690867 TCAATCGAAATTTCCTTTCAT
1 TCAAACGAAATTTCCTTCCAT
55690888 TCAAACGAAATTT-CTTCC
1 TCAAACGAAATTTCCTTCC
55690906 CATTTTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (21 bp):
TCAAACGAAATTTCCTTCCAT
Found at i:55692729 original size:26 final size:26
Alignment explanation
Indices: 55692700--55692756 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
55692690 ATTGTCTAAC
55692700 TATTTGTATAATGTTCGTTTATTAAT
1 TATTTGTATAATGTTCGTTTATTAAT
55692726 TATTTGTATAATGTTCGTTTATTAAT
1 TATTTGTATAATGTTCGTTTATTAAT
55692752 TATTT
1 TATTT
55692757 ATTAAGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.60
Consensus pattern (26 bp):
TATTTGTATAATGTTCGTTTATTAAT
Found at i:55703189 original size:34 final size:34
Alignment explanation
Indices: 55703079--55703188 Score: 139
Period size: 34 Copynumber: 3.2 Consensus size: 34
55703069 ACACATAAAT
* * *
55703079 AATCGGTTCAAAAGAAGCAATATTCTAACATAAC
1 AATCGATTCAAAAGAAGTAATATTCCAACATAAC
* * *
55703113 AATCGATTCAAAAGAAATAATATTTCAACATGAC
1 AATCGATTCAAAAGAAGTAATATTCCAACATAAC
* * *
55703147 AATAGATTTAAAAGAAGTAGTATTCCAACATAAC
1 AATCGATTCAAAAGAAGTAATATTCCAACATAAC
55703181 AATCGATT
1 AATCGATT
55703189 TCAATTTATA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (34 bp):
AATCGATTCAAAAGAAGTAATATTCCAACATAAC
Found at i:55703215 original size:55 final size:55
Alignment explanation
Indices: 55703156--55703269 Score: 174
Period size: 55 Copynumber: 2.1 Consensus size: 55
55703146 CAATAGATTT
* ** *
55703156 AAAAGAAGTAGTATTCCAACATAACAATCGATTTCAATTTATAAACAATTAATTC
1 AAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAAAAACAATTAATTC
* *
55703211 AAAAGAAGTAGTATTCCAATATAACAATCGATTTAAACATAAAAACAATTGATTC
1 AAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAAAAACAATTAATTC
55703266 AAAA
1 AAAA
55703270 AAAGAAGAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (55 bp):
AAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAAAAACAATTAATTC
Found at i:55703421 original size:55 final size:55
Alignment explanation
Indices: 55703294--55703430 Score: 148
Period size: 55 Copynumber: 2.5 Consensus size: 55
55703284 ATTCCACCAT
* ** **
55703294 AACAATCAATTCAAAAGAAACAATATTTCAACATTACAATCGATTTAAACATTTA
1 AACAATCAATTCAAAAGAAACAATATTCCAACAAGACAATCGATTTAAACATAAA
* ** * * *
55703349 AATAATTTATTCAAAAGAACCAATATTCCAATAAGATAATCGATTTAAACATAAA
1 AACAATCAATTCAAAAGAAACAATATTCCAACAAGACAATCGATTTAAACATAAA
* * *
55703404 AACAATCAATCCGAAAGAAGCAATATT
1 AACAATCAATTCAAAAGAAACAATATT
55703431 TTTGAAAATT
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (55 bp):
AACAATCAATTCAAAAGAAACAATATTCCAACAAGACAATCGATTTAAACATAAA
Found at i:55717257 original size:37 final size:37
Alignment explanation
Indices: 55717196--55717341 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
55717186 TACGTATGAT
* *
55717196 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
55717231 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
55717268 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
55717305 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
55717342 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:55717358 original size:46 final size:46
Alignment explanation
Indices: 55717305--55717573 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
55717295 TAAGTGTAGC
* **
55717305 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
55717351 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
55717397 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
55717449 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
55717495 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
55717547 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
55717574 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:55717424 original size:52 final size:52
Alignment explanation
Indices: 55717348--55717567 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
55717338 TAGCTAAAGC
* *
55717348 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
55717401 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
55717453 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
55717499 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
55717551 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
55717568 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:55717470 original size:98 final size:98
Alignment explanation
Indices: 55717305--55717573 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
55717295 TAAGTGTAGC
* * *
55717305 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
55717370 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
55717404 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
55717469 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
55717502 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
55717567 GATCAGA
66 GATCAGA
55717574 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:55720754 original size:49 final size:49
Alignment explanation
Indices: 55720699--55720844 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
55720689 TTCGTTTTCT
* *
55720699 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
55720748 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
55720797 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
55720845 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Done.