Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 128 of 190
Found at i:20387847 original size:24 final size:25
Alignment explanation
Indices: 20387820--20387871 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
20387810 TACTTTTTAC
20387820 TTTTTACTTTTTAAATATTT-TATT
1 TTTTTACTTTTTAAATATTTATATT
** * *
20387844 TTTTTGTTTTTTAATTGTTTATATT
1 TTTTTACTTTTTAAATATTTATATT
20387869 TTT
1 TTT
20387872 ATTATAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTTACTTTTTAAATATTTATATT
Found at i:20387848 original size:31 final size:31
Alignment explanation
Indices: 20387813--20387874 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
20387803 TTTTTTTTAC
*
20387813 TTTTTACTTTTTACTT-TTTAAATATTTTATT
1 TTTTTACTTTTTAATTGTTTAAAT-TTTTATT
** *
20387844 TTTTTGTTTTTTAATTGTTTATATTTTTATT
1 TTTTTACTTTTTAATTGTTTAAATTTTTATT
20387875 ATAAAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (31 bp):
TTTTTACTTTTTAATTGTTTAAATTTTTATT
Found at i:20387853 original size:23 final size:23
Alignment explanation
Indices: 20387827--20387871 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20387817 TACTTTTTAC
*
20387827 TTTTTAAATAT-TTTATTTTTTTG
1 TTTTTAAAT-TGTTTATATTTTTG
*
20387850 TTTTTTAATTGTTTATATTTTT
1 TTTTTAAATTGTTTATATTTTT
20387872 ATTATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTTTAAATTGTTTATATTTTTG
Found at i:20396889 original size:7 final size:8
Alignment explanation
Indices: 20396872--20396897 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
20396862 CATCGGCCAC
20396872 TTTATTTT
1 TTTATTTT
20396880 TTTATTTT
1 TTTATTTT
20396888 TTTATTTT
1 TTTATTTT
20396896 TT
1 TT
20396898 CTTGTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:20409949 original size:19 final size:19
Alignment explanation
Indices: 20409907--20409975 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
20409897 AATGAAACCC
* *
20409907 TAAAA-TCAAAACCTCAAG
1 TAAAACTCAAAACCTTAGG
*
20409925 TGAAACTCAAAACCTTAGG
1 TAAAACTCAAAACCTTAGG
* * *
20409944 TAAAACTCCAAAGCCCTGGG
1 TAAAACT-CAAAACCTTAGG
20409964 TAAAACTCAAAA
1 TAAAACTCAAAA
20409976 ATCCTAGGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 4 0.10
19 21 0.51
20 16 0.39
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (19 bp):
TAAAACTCAAAACCTTAGG
Found at i:20409989 original size:20 final size:18
Alignment explanation
Indices: 20409907--20409989 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 18
20409897 AATGAAACCC
*
20409907 TAAAA-TCAAAACCTCAAG
1 TAAAACTCAAAACCT-AGG
*
20409925 TGAAACTCAAAACCTTAGG
1 TAAAACTCAAAACC-TAGG
* *
20409944 TAAAACTCCAAAGCCCTGGG
1 TAAAACT-CAAA-ACCTAGG
20409964 TAAAACTCAAAAATCCTAGG
1 TAAAACTC-AAAA-CCTAGG
*
20409984 TGAAAC
1 TAAAAC
20409990 CTTAAATCGT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
18 4 0.08
19 17 0.33
20 28 0.55
21 2 0.04
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (18 bp):
TAAAACTCAAAACCTAGG
Found at i:20413500 original size:8 final size:8
Alignment explanation
Indices: 20413476--20413516 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
20413466 AAAGTCTCTA
20413476 CAAAGGTAG
1 CAAA-GTAG
20413485 CAAAAGTAG
1 C-AAAGTAG
20413494 CAAAGTAG
1 CAAAGTAG
*
20413502 TAAAGTAG
1 CAAAGTAG
20413510 CAAAGTA
1 CAAAGTA
20413517 CCAAGGTACC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 20 0.69
9 6 0.21
10 3 0.10
ACGTcount: A:0.51, C:0.10, G:0.24, T:0.15
Consensus pattern (8 bp):
CAAAGTAG
Found at i:20416399 original size:15 final size:15
Alignment explanation
Indices: 20416381--20416418 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
20416371 AAAAAACACA
20416381 AAAAAAAAGAAAAG-T
1 AAAAAAAA-AAAAGAT
20416396 AAAAAAAAAAAAGAT
1 AAAAAAAAAAAAGAT
20416411 AAAAAAAA
1 AAAAAAAA
20416419 TGGTTATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (15 bp):
AAAAAAAAAAAAGAT
Found at i:20416594 original size:14 final size:15
Alignment explanation
Indices: 20416577--20416605 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20416567 AAAAAGATAA
20416577 GAAA-GAAAACTTTT
1 GAAATGAAAACTTTT
20416591 GAAATGAAAACTTTT
1 GAAATGAAAACTTTT
20416606 CTTCAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (15 bp):
GAAATGAAAACTTTT
Found at i:20418148 original size:34 final size:35
Alignment explanation
Indices: 20418083--20418159 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 35
20418073 AAAAAACAAA
*
20418083 ATTTAAGCTCAGTTTAACTAGCACCCAATG-AAAG
1 ATTTAAGCTCAGTTTAACTAGCAACCAATGAAAAG
* * *
20418117 ATTTAAGCTTAGTTTAGCTAGCATATC-ATGAAAAG
1 ATTTAAGCTCAGTTTAACTAGCA-ACCAATGAAAAG
20418152 ATTTAAGC
1 ATTTAAGC
20418160 CCAATTTAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 24 0.65
35 13 0.35
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (35 bp):
ATTTAAGCTCAGTTTAACTAGCAACCAATGAAAAG
Found at i:20418462 original size:32 final size:31
Alignment explanation
Indices: 20418417--20418497 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 31
20418407 TAGCTACTAC
* *
20418417 CCAATGAATATTTAAGCCCAGTTTAGTTGACA
1 CCAAT-AAAATTTAAGCCCAATTTAGTTGACA
20418449 CCAATAAAGATTTAAGCCCAATTTAGTTGACA
1 CCAATAAA-ATTTAAGCCCAATTTAGTTGACA
*
20418481 CCAATAAAAATTAAGCC
1 CCAATAAAATTTAAGCC
20418498 TAAATTACCT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 10 0.22
32 35 0.78
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (31 bp):
CCAATAAAATTTAAGCCCAATTTAGTTGACA
Found at i:20418598 original size:33 final size:33
Alignment explanation
Indices: 20418417--20418693 Score: 111
Period size: 33 Copynumber: 8.5 Consensus size: 33
20418407 TAGCTACTAC
* * *
20418417 CCAATG-AATATTTAAGCCCAGTTTAGT-TGACA
1 CCAATGAAAGATTTAAGCCCAGATTA-TCTGGCA
*
20418449 CCAAT-AAAGATTTAAGCCCA-ATTTAGT-TGACA
1 CCAATGAAAGATTTAAGCCCAGA-TTA-TCTGGCA
* * * * * *
20418481 CCAAT-AAA-AATTAAGCCTAAATTACCTAGCC
1 CCAATGAAAGATTTAAGCCCAGATTATCTGGCA
* * *
20418512 CTCAATG-AAGTTTTAAGCCTAGATTA-CTTAGC-
1 C-CAATGAAAGATTTAAGCCCAGATTATC-TGGCA
20418544 CGTC-ATGGAAAGATTTAAGCCCAGATTATCTGGCA
1 C--CAAT-GAAAGATTTAAGCCCAGATTATCTGGCA
* * * *
20418579 CCAATGAAATATTTAAGCCCAGTTTAGCAGGCA
1 CCAATGAAAGATTTAAGCCCAGATTATCTGGCA
** *
20418612 TTAAT-AAAGA-TTATA-CCCA-ATTTAACTGGCAA
1 CCAATGAAAGATTTA-AGCCCAGA-TTATCTGGC-A
* * *
20418644 CTAAT-AAAGATTTAAGCCTAGATTAGCTGGCA
1 CCAATGAAAGATTTAAGCCCAGATTATCTGGCA
*
20418676 TCTAATGAAA-ATTTAAGC
1 -CCAATGAAAGATTTAAGC
20418694 TTAGTTTAGT
Statistics
Matches: 196, Mismatches: 27, Indels: 43
0.74 0.10 0.16
Matches are distributed among these distances:
31 29 0.15
32 64 0.33
33 75 0.38
34 26 0.13
35 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (33 bp):
CCAATGAAAGATTTAAGCCCAGATTATCTGGCA
Found at i:20418708 original size:33 final size:33
Alignment explanation
Indices: 20418552--20418709 Score: 121
Period size: 33 Copynumber: 4.8 Consensus size: 33
20418542 GCCGTCATGG
* * *
20418552 AAAGATTTAAGCCCAGATTATCTGGCA-CCAAT
1 AAAGATTTAAGCCTAGATTAGCTGGCATCTAAT
* * * *
20418584 GAAATATTTAAGCCCAGTTTAGCAGGCAT-TAAT
1 -AAAGATTTAAGCCTAGATTAGCTGGCATCTAAT
* * *
20418617 AAAGA-TTATA-CCCA-ATTTAACTGGCAACTAAT
1 AAAGATTTA-AGCCTAGA-TTAGCTGGCATCTAAT
20418649 AAAGATTTAAGCCTAGATTAGCTGGCATCTAAT
1 AAAGATTTAAGCCTAGATTAGCTGGCATCTAAT
* * *
20418682 GAAA-ATTTAAGCTTAGTTTAGTTGGCAT
1 -AAAGATTTAAGCCTAGATTAGCTGGCAT
20418710 AGAAAAAGAA
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
31 15 0.15
32 15 0.15
33 67 0.66
34 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (33 bp):
AAAGATTTAAGCCTAGATTAGCTGGCATCTAAT
Found at i:20418943 original size:35 final size:35
Alignment explanation
Indices: 20418775--20419101 Score: 187
Period size: 35 Copynumber: 9.4 Consensus size: 35
20418765 CTTAATTACT
* * * *
20418775 TGACTTATGGTGTTATTCGAAT-AGTTTGTTATTTT
1 TGACTTGTGGTGTTATCCCAATCA-TTTGTTATTTC
* * * ** * * *
20418810 TAACTTGTGGTGTTATCCTAGTTGTTTTTTACTCC
1 TGACTTGTGGTGTTATCCCAATCATTTGTTATTTC
* **** * **
20418845 TGACTTGTGGTGTTGTCTTGGTTATTCATTATTTC
1 TGACTTGTGGTGTTATCCCAATCATTTGTTATTTC
* * * * *
20418880 TGACTTATGGTGTTGTCCCGACCGTCTT-TTATTTC
1 TGACTTGTGGTGTTATCCCAATCAT-TTGTTATTTC
*
20418915 TGACTTGTGGTGTTATCCTAATCATCTT-TT-TTT-
1 TGACTTGTGGTGTTATCCCAATCAT-TTGTTATTTC
* * * * * * *
20418948 TAACTTTTGGTGTTGTCCTAGTTATTTGTTGTTTC
1 TGACTTGTGGTGTTATCCCAATCATTTGTTATTTC
** * *
20418983 TGACTTGTAATGTTATCCCAATCGTTTGTTATTTT
1 TGACTTGTGGTGTTATCCCAATCATTTGTTATTTC
* * *
20419018 TGACTTGTGGTGTTGTCCCGATCGTTTGTTATTTC
1 TGACTTGTGGTGTTATCCCAATCATTTGTTATTTC
* * * *
20419053 TAACTTGTGGTGCTATCCCAATCATTTATAATTTC
1 TGACTTGTGGTGTTATCCCAATCATTTGTTATTTC
*
20419088 TGATTTGTGGTGTT
1 TGACTTGTGGTGTT
20419102 GTCTTGGTTG
Statistics
Matches: 223, Mismatches: 64, Indels: 10
0.75 0.22 0.03
Matches are distributed among these distances:
32 2 0.01
33 22 0.10
34 6 0.03
35 192 0.86
36 1 0.00
ACGTcount: A:0.15, C:0.14, G:0.19, T:0.51
Consensus pattern (35 bp):
TGACTTGTGGTGTTATCCCAATCATTTGTTATTTC
Found at i:20418961 original size:138 final size:138
Alignment explanation
Indices: 20418806--20419077 Score: 312
Period size: 138 Copynumber: 2.0 Consensus size: 138
20418796 TAGTTTGTTA
* * ** * **** *
20418806 TTTTTAACTTGTGGTGTTATCCTAGTTGTTTTTTACTCCTGACTTGTGGTGTTGTCTTGGTTATT
1 TTTTTAACTTGTGGTGTTATCCTAGTTATTTGTTACTCCTGACTTGTAATGTTATCCCAATCATT
* * *
20418871 CATTATTTCTGACTTATGGTGTTGTCCCGACCGTCTT-TTATTTCTGACTTGTGGTGTTATCCTA
66 CATTATTTCTGACTTATGGTGTTGTCCCGACCGT-TTGTTATTTCTAACTTGTGGTGCTATCCCA
20418935 ATCATCTTT
130 ATCATCTTT
* * ** * *
20418944 TTTTTAACTTTTGGTGTTGTCCTAGTTATTTGTTGTTTCTGACTTGTAATGTTATCCCAATCGTT
1 TTTTTAACTTGTGGTGTTATCCTAGTTATTTGTTACTCCTGACTTGTAATGTTATCCCAATCATT
** * * *
20419009 TGTTATTTTTGACTTGTGGTGTTGTCCCGATCGTTTGTTATTTCTAACTTGTGGTGCTATCCCAA
66 CATTATTTCTGACTTATGGTGTTGTCCCGACCGTTTGTTATTTCTAACTTGTGGTGCTATCCCAA
20419074 TCAT
131 TCAT
20419078 TTATAATTTC
Statistics
Matches: 109, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
137 2 0.02
138 107 0.98
ACGTcount: A:0.14, C:0.16, G:0.19, T:0.51
Consensus pattern (138 bp):
TTTTTAACTTGTGGTGTTATCCTAGTTATTTGTTACTCCTGACTTGTAATGTTATCCCAATCATT
CATTATTTCTGACTTATGGTGTTGTCCCGACCGTTTGTTATTTCTAACTTGTGGTGCTATCCCAA
TCATCTTT
Found at i:20419015 original size:103 final size:103
Alignment explanation
Indices: 20418798--20419031 Score: 249
Period size: 103 Copynumber: 2.3 Consensus size: 103
20418788 TATTCGAATA
* * * * *
20418798 GTTTGTTATTTTTAACTTGTGGTGTTATCCTAGTTGTTTTTTACTCCTGACTTGTGGTGTTGTCT
1 GTTTGTTATTTTTGACTTGTGGTGTTATCCTAATTCTTTTTTA-T-CTAACTTGTGGTGTTGTCC
* ** * *
20418863 TGGTTATTCATTATTTCTGACTTATGGTGTTGTCCCGACC
64 TAGTTATTCATTATTTCTGACTTATAATGTTATCCCAACC
* *
20418903 GTCTT-TTATTTCTGACTTGTGGTGTTATCCTAATCATCTTTTTT-T-TAACTTTTGGTGTTGTC
1 GT-TTGTTATTTTTGACTTGTGGTGTTATCCTAAT--TCTTTTTTATCTAACTTGTGGTGTTGTC
** * * *
20418965 CTAGTTATTTGTTGTTTCTGACTTGTAATGTTATCCCAATC
63 CTAGTTATTCATTATTTCTGACTTATAATGTTATCCCAACC
20419006 GTTTGTTATTTTTGACTTGTGGTGTT
1 GTTTGTTATTTTTGACTTGTGGTGTT
20419032 GTCCCGATCG
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
102 2 0.02
103 67 0.63
105 29 0.27
106 2 0.02
107 7 0.07
ACGTcount: A:0.13, C:0.14, G:0.19, T:0.53
Consensus pattern (103 bp):
GTTTGTTATTTTTGACTTGTGGTGTTATCCTAATTCTTTTTTATCTAACTTGTGGTGTTGTCCTA
GTTATTCATTATTTCTGACTTATAATGTTATCCCAACC
Found at i:20419046 original size:70 final size:69
Alignment explanation
Indices: 20418873--20419104 Score: 238
Period size: 70 Copynumber: 3.3 Consensus size: 69
20418863 TGGTTATTCA
* * *
20418873 TTATTTCTGACTTATGGTGTTGTCCCGACCGTCTT-TTATTTCTGACTTGTGGTGTTATCCTAAT
1 TTATTTCTGACTTGTGGTGTTGTCCCGATCGT-TTGTTATTTCTGACTTGTGGTGTTATCCCAAT
20418937 CATCTT
65 CAT-TT
* * * ** * **
20418943 TT-TTT-TAACTTTTGGTGTTGT-CCTAGTTATTTGTTGTTTCTGACTTGTAATGTTATCCCAAT
1 TTATTTCTGACTTGTGGTGTTGTCCCGA-TCGTTTGTTATTTCTGACTTGTGGTGTTATCCCAAT
*
20419005 CGTTT
65 CATTT
* * *
20419010 GTTATTTTTGACTTGTGGTGTTGTCCCGATCGTTTGTTATTTCTAACTTGTGGTGCTATCCCAAT
1 -TTATTTCTGACTTGTGGTGTTGTCCCGATCGTTTGTTATTTCTGACTTGTGGTGTTATCCCAAT
20419075 CATTT
65 CATTT
* *
20419080 ATAATTTCTGATTTGTGGTGTTGTC
1 -TTATTTCTGACTTGTGGTGTTGTC
20419105 TTGGTTGTCC
Statistics
Matches: 130, Mismatches: 26, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
67 7 0.05
68 44 0.34
69 6 0.05
70 70 0.54
71 3 0.02
ACGTcount: A:0.15, C:0.16, G:0.19, T:0.51
Consensus pattern (69 bp):
TTATTTCTGACTTGTGGTGTTGTCCCGATCGTTTGTTATTTCTGACTTGTGGTGTTATCCCAATC
ATTT
Found at i:20419122 original size:35 final size:35
Alignment explanation
Indices: 20419083--20419349 Score: 155
Period size: 35 Copynumber: 7.6 Consensus size: 35
20419073 ATCATTTATA
* *
20419083 ATTTCTGATTTGTGGTGTTGTCTTGGTTGTCCTTT
1 ATTTCTGACTTGTGGTATTGTCTTGGTTGTCCTTT
* *** *
20419118 ATTTCTAACTTGTGGTATTGTCCCAGTTGT-ATGTT
1 ATTTCTGACTTGTGGTATTGTCTTGGTTGTCCT-TT
** ** *
20419153 ATTTCAAACTTGTGGTATTGTCTCAGTTGTCTTTT
1 ATTTCTGACTTGTGGTATTGTCTTGGTTGTCCTTT
* * * * * *
20419188 GTTTTTGACTTGTGGTATTGTCCTGATTGTACATT
1 ATTTCTGACTTGTGGTATTGTCTTGGTTGTCCTTT
* * * *
20419223 ATTTCTGACTTGAGGTGTT-T-TTCAGGTCGACCTTT
1 ATTTCTGACTTGTGGTATTGTCTT--GGTTGTCCTTT
* * ** *
20419258 ATTTTTGACTTGTGGTATTAT-TCTGGTCATCCCTT
1 ATTTCTGACTTGTGGTATTGTCT-TGGTTGTCCTTT
* * * *
20419293 ATTTCTGACTTATGGTGTTGTCATGGTTGTCTTTT
1 ATTTCTGACTTGTGGTATTGTCTTGGTTGTCCTTT
* * * *
20419328 ATTTTTGAATTGTAGTGTTGTC
1 ATTTCTGACTTGTGGTATTGTC
20419350 CCGGTGGTTC
Statistics
Matches: 175, Mismatches: 50, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
33 1 0.01
34 2 0.01
35 168 0.96
36 3 0.02
37 1 0.01
ACGTcount: A:0.14, C:0.13, G:0.21, T:0.52
Consensus pattern (35 bp):
ATTTCTGACTTGTGGTATTGTCTTGGTTGTCCTTT
Found at i:20419157 original size:70 final size:70
Alignment explanation
Indices: 20419083--20419368 Score: 218
Period size: 70 Copynumber: 4.1 Consensus size: 70
20419073 ATCATTTATA
* * *
20419083 ATTTCTGATTTGTGGTGTTGTCTTGGTTGTCCTTTATTTCTAACTTGTGGTATTGTCCCAG-TTG
1 ATTTCTGACTTGTGGTGTTGTCTTGGTTGTCCTTTATTTTTGACTTGTGGTATTGT-CCAGATTG
**
20419147 TATGTT
65 TACATT
** * ** * * *
20419153 ATTTCAAACTTGTGGTATTGTCTCAGTTGTCTTTTGTTTTTGACTTGTGGTATTGTCCTGATTGT
1 ATTTCTGACTTGTGGTGTTGTCTTGGTTGTCCTTTATTTTTGACTTGTGGTATTGTCCAGATTGT
20419218 ACATT
66 ACATT
* * * * * * * *
20419223 ATTTCTGACTTGAGGTGTT-T-TTCAGGTCGACCTTTATTTTTGACTTGTGGTATTATTCTGGTC
1 ATTTCTGACTTGTGGTGTTGTCTT--GGTTGTCCTTTATTTTTGACTTGTGGTATTGTCCAGATT
* * *
20419286 ATCCCTT
64 GTACATT
* * * * * * * * *
20419293 ATTTCTGACTTATGGTGTTGTCATGGTTGTCTTTTATTTTTGAATTGTAGTGTTGTCCCGGTGGT
1 ATTTCTGACTTGTGGTGTTGTCTTGGTTGTCCTTTATTTTTGACTTGTGGTATTGTCCAGATTGT
*
20419358 TCATT
66 ACATT
20419363 ATTTCT
1 ATTTCT
20419369 AAATTACAGT
Statistics
Matches: 165, Mismatches: 46, Indels: 10
0.75 0.21 0.05
Matches are distributed among these distances:
68 1 0.01
69 4 0.02
70 158 0.96
71 1 0.01
72 1 0.01
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.51
Consensus pattern (70 bp):
ATTTCTGACTTGTGGTGTTGTCTTGGTTGTCCTTTATTTTTGACTTGTGGTATTGTCCAGATTGT
ACATT
Found at i:20419365 original size:35 final size:35
Alignment explanation
Indices: 20419341--20419421 Score: 162
Period size: 35 Copynumber: 2.3 Consensus size: 35
20419331 TTTGAATTGT
20419341 AGTGTTGTCCCGGTGGTTCATTATTTCTAAATTAC
1 AGTGTTGTCCCGGTGGTTCATTATTTCTAAATTAC
20419376 AGTGTTGTCCCGGTGGTTCATTATTTCTAAATTAC
1 AGTGTTGTCCCGGTGGTTCATTATTTCTAAATTAC
20419411 AGTGTTGTCCC
1 AGTGTTGTCCC
20419422 AATTGTCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (35 bp):
AGTGTTGTCCCGGTGGTTCATTATTTCTAAATTAC
Found at i:20419504 original size:6 final size:6
Alignment explanation
Indices: 20419471--20419536 Score: 66
Period size: 6 Copynumber: 11.0 Consensus size: 6
20419461 GTTCTTTAAC
* *
20419471 CAAAAA -AAATAA TAAAAA C-AACA CAAAAA CAAAAAA CAAAAAA CAAAAA
1 CAAAAA CAAA-AA CAAAAA CAAAAA CAAAAA C-AAAAA C-AAAAA CAAAAA
20419520 CAAAAA CAAAAA -AAAAA
1 CAAAAA CAAAAA CAAAAA
20419537 GAGTTTTTAG
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
5 12 0.23
6 25 0.47
7 16 0.30
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (6 bp):
CAAAAA
Found at i:20419507 original size:7 final size:7
Alignment explanation
Indices: 20419485--20419536 Score: 65
Period size: 7 Copynumber: 7.6 Consensus size: 7
20419475 AAAAATAATA
20419485 AAAACAAC
1 AAAA-AAC
20419493 ACAAAAAC
1 A-AAAAAC
20419501 AAAAAAC
1 AAAAAAC
20419508 AAAAAAC
1 AAAAAAC
20419515 -AAAAAC
1 AAAAAAC
20419521 -AAAAAC
1 AAAAAAC
20419527 AAAAAA-
1 AAAAAAC
20419533 AAAA
1 AAAA
20419537 GAGTTTTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.38
7 18 0.43
8 5 0.12
9 3 0.07
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:20419511 original size:13 final size:13
Alignment explanation
Indices: 20419493--20419536 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
20419483 TAAAAACAAC
20419493 ACAAAAACAAAAA
1 ACAAAAACAAAAA
20419506 ACAAAAA-ACAAAA
1 ACAAAAACA-AAAA
20419519 ACAAAAACAAAAA
1 ACAAAAACAAAAA
20419532 A-AAAA
1 ACAAAA
20419537 GAGTTTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.17
13 23 0.79
14 1 0.03
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAACAAAAA
Found at i:20419513 original size:26 final size:26
Alignment explanation
Indices: 20419474--20419536 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
20419464 CTTTAACCAA
*
20419474 AAAAAATAATAAAAAC-AACACAAAAAC
1 AAAAAA-AA-AAAAACAAAAACAAAAAC
*
20419501 AAAAAACAAAAAACAAAAACAAAAAC
1 AAAAAAAAAAAAACAAAAACAAAAAC
20419527 AAAAAAAAAA
1 AAAAAAAAAA
20419537 GAGTTTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.19
26 20 0.62
27 6 0.19
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (26 bp):
AAAAAAAAAAAAACAAAAACAAAAAC
Found at i:20421847 original size:27 final size:27
Alignment explanation
Indices: 20421772--20421848 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
20421762 AGTTATTAAA
* *
20421772 TAATAAAATGAAAATA-AT-AAAAGGT
1 TAATAAAAAGAAAATATATAAAAATGT
* *
20421797 TAATAAATAA-TAAATATA-AGAAAATTT
1 TAATAAA-AAGAAAATATATA-AAAATGT
20421824 TAATAAAAAGAAAATATATAAAAAT
1 TAATAAAAAGAAAATATATAAAAAT
20421849 ATAAATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
25 12 0.29
26 4 0.10
27 24 0.59
28 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.27
Consensus pattern (27 bp):
TAATAAAAAGAAAATATATAAAAATGT
Found at i:20422121 original size:33 final size:33
Alignment explanation
Indices: 20422083--20422165 Score: 148
Period size: 33 Copynumber: 2.5 Consensus size: 33
20422073 ATAAAACTTG
20422083 AAAGCTTAGGTGAAACCCAAAAGCCCCGGCTGA
1 AAAGCTTAGGTGAAACCCAAAAGCCCCGGCTGA
20422116 AAAGCTTAGGTGAAACCCAAAAGCCCCGGCTGA
1 AAAGCTTAGGTGAAACCCAAAAGCCCCGGCTGA
* *
20422149 AAACCCTAGGTGAAACC
1 AAAGCTTAGGTGAAACC
20422166 TTGCACCGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.37, C:0.28, G:0.23, T:0.12
Consensus pattern (33 bp):
AAAGCTTAGGTGAAACCCAAAAGCCCCGGCTGA
Found at i:20422220 original size:19 final size:19
Alignment explanation
Indices: 20422173--20422233 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
20422163 ACCTTGCACC
*
20422173 GTAAAATCCAAAACCCTATG
1 GTAAAACCCAAAACCCTA-G
*
20422193 TGT-AAACCCGAAACCCTAG
1 -GTAAAACCCAAAACCCTAG
* *
20422212 GTAAAACCCTAAACCGTAG
1 GTAAAACCCAAAACCCTAG
20422231 GTA
1 GTA
20422234 GAATCAGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 2 0.06
19 18 0.51
20 13 0.37
21 2 0.06
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (19 bp):
GTAAAACCCAAAACCCTAG
Found at i:20423603 original size:17 final size:17
Alignment explanation
Indices: 20423583--20423674 Score: 53
Period size: 17 Copynumber: 5.1 Consensus size: 17
20423573 TTAGTAAAAT
20423583 AATAAAAATGAAAATAA
1 AATAAAAATGAAAATAA
* *
20423600 AATAAAATAAGAAAA-AG
1 AATAAAA-ATGAAAATAA
**
20423617 CTTAAAAAATGAAAATTGCAA
1 AAT-AAAAATGAAAA-T--AA
* *
20423638 AATAAATAAAG-AAATAC
1 AATAAA-AATGAAAATAA
20423655 AATAAAAAATGAAAATAA
1 AAT-AAAAATGAAAATAA
20423673 AA
1 AA
20423675 AGAAAAAGAG
Statistics
Matches: 54, Mismatches: 12, Indels: 17
0.65 0.14 0.20
Matches are distributed among these distances:
17 22 0.41
18 20 0.37
19 1 0.02
20 6 0.11
21 5 0.09
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (17 bp):
AATAAAAATGAAAATAA
Found at i:20423650 original size:38 final size:36
Alignment explanation
Indices: 20423568--20423688 Score: 99
Period size: 38 Copynumber: 3.4 Consensus size: 36
20423558 TTGCTTAATT
* * *
20423568 TAAAATTAGTAAAATAAT-AAAAATGAAAA-TAAAA
1 TAAAATAAGAAAAACAATAAAAAATGAAAATTAAAA
*
20423602 TAAAATAAGAAAAAGC-TTAAAAAATGAAAATTGCAAAA
1 TAAAATAAGAAAAA-CAATAAAAAATGAAAATT--AAAA
* *
20423640 T-AAATAAAGAAATACAATAAAAAATGAAAATAAAAA
1 TAAAAT-AAGAAAAACAATAAAAAATGAAAATTAAAA
*
20423676 GAAAA-AGAGAAAA
1 TAAAATA-AGAAAA
20423689 GAAAAATCTG
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
34 13 0.19
35 12 0.17
36 10 0.14
37 8 0.12
38 26 0.38
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.17
Consensus pattern (36 bp):
TAAAATAAGAAAAACAATAAAAAATGAAAATTAAAA
Found at i:20424041 original size:20 final size:20
Alignment explanation
Indices: 20424013--20424085 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
20424003 AAAAATTCCC
20424013 AGAAATTCAAATTTAAACCT
1 AGAAATTCAAATTTAAACCT
* ** *
20424033 AGAACTTCAAACCTAAACCC
1 AGAAATTCAAATTTAAACCT
*
20424053 AGAAATTCAAACTCTTAATCCT
1 AGAAATTCAAA-T-TTAAACCT
*
20424075 AGAACTTCAAA
1 AGAAATTCAAA
20424086 CCCAGAAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 26 0.63
22 15 0.37
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (20 bp):
AGAAATTCAAATTTAAACCT
Found at i:20424085 original size:42 final size:40
Alignment explanation
Indices: 20424010--20424087 Score: 129
Period size: 42 Copynumber: 1.9 Consensus size: 40
20424000 TAAAAAAATT
20424010 CCCAGAAATTCAAATTTAAACCTAGAACTTCAAACCTAAA
1 CCCAGAAATTCAAATTTAAACCTAGAACTTCAAACCTAAA
*
20424050 CCCAGAAATTCAAACTCTTAATCCTAGAACTTCAAACC
1 CCCAGAAATTCAAA-T-TTAAACCTAGAACTTCAAACC
20424088 CAGAAACTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 14 0.40
41 1 0.03
42 20 0.57
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (40 bp):
CCCAGAAATTCAAATTTAAACCTAGAACTTCAAACCTAAA
Found at i:20424095 original size:15 final size:15
Alignment explanation
Indices: 20424077--20424164 Score: 79
Period size: 15 Copynumber: 5.9 Consensus size: 15
20424067 TTAATCCTAG
*
20424077 AACTTCAAACCCAGA
1 AACTTTAAACCCAGA
* *
20424092 AACTTCAAACCAAGA
1 AACTTTAAACCCAGA
* *
20424107 ATCTTTAAACCCATA
1 AACTTTAAACCCAGA
*
20424122 AA-TTTGAAACCCATA
1 AACTTT-AAACCCAGA
* *
20424137 AAATTTAAACCAAGA
1 AACTTTAAACCCAGA
*
20424152 ACCTTTAAACCCA
1 AACTTTAAACCCA
20424165 AAAATATTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
14 3 0.05
15 54 0.90
16 3 0.05
ACGTcount: A:0.48, C:0.26, G:0.05, T:0.22
Consensus pattern (15 bp):
AACTTTAAACCCAGA
Found at i:20424147 original size:45 final size:45
Alignment explanation
Indices: 20424083--20424169 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
20424073 CTAGAACTTC
* * *
20424083 AAACCCAGAAACTTCAAACCAAGAATCTTTAAACCCATAAATTTG
1 AAACCCAGAAAATTCAAACCAAGAACCTTTAAACCCAAAAATTTG
* *
20424128 AAACCCATAAAATTTAAACCAAGAACCTTTAAACCCAAAAAT
1 AAACCCAGAAAATTCAAACCAAGAACCTTTAAACCCAAAAAT
20424170 ATTTCCTACC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.21
Consensus pattern (45 bp):
AAACCCAGAAAATTCAAACCAAGAACCTTTAAACCCAAAAATTTG
Found at i:20424711 original size:60 final size:60
Alignment explanation
Indices: 20424666--20424779 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
20424656 AGATCGAGTT
* * * *
20424666 GAGATCAAAATGAGTGACCAGGATTGAACTGCTA-GTTAGAAAAATGATTTGGACTAACTC
1 GAGATCAAAATGAGTGACCAGGATTAAACCG-TAGGTTAAAAAAATGATTTAGACTAACTC
*
20424726 GAGATCAAAATGAGTGACCAGGGTTAAACCGTAGGTTAAAAAAATGATTTAGAC
1 GAGATCAAAATGAGTGACCAGGATTAAACCGTAGGTTAAAAAAATGATTTAGAC
20424780 AGAGTCAAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 2 0.04
60 46 0.96
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (60 bp):
GAGATCAAAATGAGTGACCAGGATTAAACCGTAGGTTAAAAAAATGATTTAGACTAACTC
Found at i:20435704 original size:17 final size:17
Alignment explanation
Indices: 20435682--20435716 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
20435672 GAGATTAATT
20435682 TAGAATGAATTTTTTCC
1 TAGAATGAATTTTTTCC
*
20435699 TAGAATGATTTTTTTCC
1 TAGAATGAATTTTTTCC
20435716 T
1 T
20435717 TTAGGATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (17 bp):
TAGAATGAATTTTTTCC
Found at i:20446779 original size:20 final size:18
Alignment explanation
Indices: 20446732--20446780 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
20446722 AATTTCTCAT
* *
20446732 AAATTCGAACTTAAACTA
1 AAATTCAAACCTAAACTA
20446750 AAACTTCAAACCTAAACCTA
1 AAA-TTCAAACCTAAA-CTA
20446770 GAAATTCAAAC
1 -AAATTCAAAC
20446781 TCTTAATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 3 0.12
19 10 0.38
20 10 0.38
21 3 0.12
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATTCAAACCTAAACTA
Found at i:20447157 original size:3 final size:3
Alignment explanation
Indices: 20447136--20447173 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
20447126 AGAAAAAGAA
*
20447136 AAT AAA AAT AA- AGAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
20447174 ATACGAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:20447306 original size:24 final size:25
Alignment explanation
Indices: 20447274--20447321 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
20447264 CCATCAATGA
20447274 TTATCATTTGCAAA-GAATGTTATT
1 TTATCATTTGCAAAGGAATGTTATT
* **
20447298 TTATTATTTTTAAAGGAATGTTAT
1 TTATCATTTGCAAAGGAATGTTAT
20447322 GAGAAATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.50
Consensus pattern (25 bp):
TTATCATTTGCAAAGGAATGTTATT
Found at i:20447542 original size:15 final size:15
Alignment explanation
Indices: 20447522--20447553 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20447512 CACATAATTA
20447522 ATTGGTACCAATTTT
1 ATTGGTACCAATTTT
*
20447537 ATTGGTTCCAATTTT
1 ATTGGTACCAATTTT
20447552 AT
1 AT
20447554 GGGCATTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGGTACCAATTTT
Found at i:20452330 original size:83 final size:83
Alignment explanation
Indices: 20452205--20452365 Score: 304
Period size: 83 Copynumber: 1.9 Consensus size: 83
20452195 ATTGAAAGAA
20452205 AATGGTTTCTATGGATCTATAGATGCATTAGAGCTTTGCTTTGTGCCAGATGTGATTGTTTCACC
1 AATGGTTTCTATGGATCTATAGATGCATTAGAGCTTTGCTTTGTGCCAGATGTGATTGTTTCACC
20452270 CAAGTTGAAGGTCCTAAT
66 CAAGTTGAAGGTCCTAAT
* *
20452288 AATGGTTTCTATGGATCTATGGATGCATTTGAGCTTTGCTTTGTGCCAGATGTGATTGTTTCACC
1 AATGGTTTCTATGGATCTATAGATGCATTAGAGCTTTGCTTTGTGCCAGATGTGATTGTTTCACC
20452353 CAAGTTGAAGGTC
66 CAAGTTGAAGGTC
20452366 TTAAAATTTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (83 bp):
AATGGTTTCTATGGATCTATAGATGCATTAGAGCTTTGCTTTGTGCCAGATGTGATTGTTTCACC
CAAGTTGAAGGTCCTAAT
Found at i:20459712 original size:20 final size:18
Alignment explanation
Indices: 20459665--20459713 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
20459655 AATTTCTCAT
* *
20459665 AAATTCGAACTTAAACTA
1 AAATTCAAACCTAAACTA
20459683 AAACTTCAAACCTAAACCTA
1 AAA-TTCAAACCTAAA-CTA
20459703 GAAATTCAAAC
1 -AAATTCAAAC
20459714 TCTTAATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 3 0.12
19 10 0.38
20 10 0.38
21 3 0.12
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATTCAAACCTAAACTA
Found at i:20460090 original size:3 final size:3
Alignment explanation
Indices: 20460069--20460106 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
20460059 AGAAAAAGAA
*
20460069 AAT AAA AAT AA- AGAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
20460107 ATACGAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:20460239 original size:24 final size:25
Alignment explanation
Indices: 20460207--20460254 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
20460197 CCAACAATGA
20460207 TTATCATTTGCAAA-GAATGTTATT
1 TTATCATTTGCAAAGGAATGTTATT
* **
20460231 TTATTATTTTTAAAGGAATGTTAT
1 TTATCATTTGCAAAGGAATGTTAT
20460255 GAGAAATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.50
Consensus pattern (25 bp):
TTATCATTTGCAAAGGAATGTTATT
Found at i:20460475 original size:15 final size:15
Alignment explanation
Indices: 20460455--20460486 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20460445 CACATAATTA
20460455 ATTGGTACCAATTTT
1 ATTGGTACCAATTTT
*
20460470 ATTGGTTCCAATTTT
1 ATTGGTACCAATTTT
20460485 AT
1 AT
20460487 GGGCATTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGGTACCAATTTT
Found at i:20468781 original size:83 final size:83
Alignment explanation
Indices: 20468653--20469098 Score: 428
Period size: 84 Copynumber: 5.3 Consensus size: 83
20468643 AAGTCTTTTG
* * * *
20468653 AGCTGAATCTATTTTAAAGTTAAGATTTGTAAGACCTCTAGGCATAACTCAAAGTCCTTTAAATA
1 AGCTGAATCTATTTTAGAGTTAAGATTTGTAAGACCTCTAAGCATAACTCTAAGTCCTCTAAATA
*
20468718 ATATTTGTAAGTTTTTCA
66 AGATTTGTAAGTTTTTCA
** * * * * ***
20468736 AGCTGAATCTGCTTTAGAGTTGAGATTTGTAAGACCTCCAAGCATATTCTCTAAGTCCACTAGCC
1 AGCTGAATCTATTTTAGAGTTAAGATTTGTAAGACCTCTAAGCATA-ACTCTAAGTCCTCTAAAT
** **
20468801 AAGATTCATAAGTTTTTTT
65 AAGATTTGTAAGTTTTTCA
* * * *
20468820 AGC-GAAATCTATTTTAGAGTCAAGATTTGTAAGACCTCTAGGCATAACTCAAAGTCCTTTAAAT
1 AGCTG-AATCTATTTTAGAGTTAAGATTTGTAAGACCTCTAAGCATAACTCTAAGTCCTCTAAAT
*
20468884 AATATTTGTAAGTTTTTCA
65 AAGATTTGTAAGTTTTTCA
** * * * * ***
20468903 AGCTGAATCTGCTTTAGAGTTGAGATTTGTAAGACCTCCAAGCATATTCTCTAAGTCCACTAGCC
1 AGCTGAATCTATTTTAGAGTTAAGATTTGTAAGACCTCTAAGCATA-ACTCTAAGTCCTCTAAAT
** **
20468968 AAGATTCATAAGTTTTTTT
65 AAGATTTGTAAGTTTTTCA
* * * * *
20468987 AGC-GAAATCTATTTTAGAGTCAAGATTTGTAAGACCTCTGAGCATAATCTCTAAGTCATCTGAG
1 AGCTG-AATCTATTTTAGAGTTAAGATTTGTAAGACCTCTAAGCATAA-CTCTAAGTCCTCTAAA
*
20469051 TAAGATTTGTAAGCTTTTCA
64 TAAGATTTGTAAGTTTTTCA
* * *
20469071 AGCTAAATCTATTTTAGAATTGAGATTT
1 AGCTGAATCTATTTTAGAGTTAAGATTT
20469099 TTAAAACATT
Statistics
Matches: 280, Mismatches: 76, Indels: 13
0.76 0.21 0.04
Matches are distributed among these distances:
83 105 0.38
84 175 0.62
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (83 bp):
AGCTGAATCTATTTTAGAGTTAAGATTTGTAAGACCTCTAAGCATAACTCTAAGTCCTCTAAATA
AGATTTGTAAGTTTTTCA
Found at i:20468934 original size:167 final size:167
Alignment explanation
Indices: 20468633--20469098 Score: 740
Period size: 167 Copynumber: 2.8 Consensus size: 167
20468623 AGACCTCTGG
* * * *
20468633 CAAGAGTT-ATAAGTCTTTTGAGCTG-AATCTATTTTAAAGTTAAGATTTGTAAGACCTCTAGGC
1 CAAGA-TTCATAAGTTTTTTTAGC-GAAATCTATTTTAGAGTCAAGATTTGTAAGACCTCTAGGC
20468696 ATAACTCAAAGTCCTTTAAATAATATTTGTAAGTTTTTCAAGCTGAATCTGCTTTAGAGTTGAGA
64 ATAACTCAAAGTCCTTTAAATAATATTTGTAAGTTTTTCAAGCTGAATCTGCTTTAGAGTTGAGA
20468761 TTTGTAAGACCTCCAAGCATATTCTCTAAGTCCACTAGC
129 TTTGTAAGACCTCCAAGCATATTCTCTAAGTCCACTAGC
20468800 CAAGATTCATAAGTTTTTTTAGCGAAATCTATTTTAGAGTCAAGATTTGTAAGACCTCTAGGCAT
1 CAAGATTCATAAGTTTTTTTAGCGAAATCTATTTTAGAGTCAAGATTTGTAAGACCTCTAGGCAT
20468865 AACTCAAAGTCCTTTAAATAATATTTGTAAGTTTTTCAAGCTGAATCTGCTTTAGAGTTGAGATT
66 AACTCAAAGTCCTTTAAATAATATTTGTAAGTTTTTCAAGCTGAATCTGCTTTAGAGTTGAGATT
20468930 TGTAAGACCTCCAAGCATATTCTCTAAGTCCACTAGC
131 TGTAAGACCTCCAAGCATATTCTCTAAGTCCACTAGC
20468967 CAAGATTCATAAGTTTTTTTAGCGAAATCTATTTTAGAGTCAAGATTTGTAAGACCTCT-GAGCA
1 CAAGATTCATAAGTTTTTTTAGCGAAATCTATTTTAGAGTCAAGATTTGTAAGACCTCTAG-GCA
* * * * * * * * ** *
20469031 TAATCTCTAAGTCATCTGAGTAAGATTTGTAAGCTTTTCAAGCTAAATCTATTTTAGAATTGAGA
65 TAA-CTCAAAGTCCTTTAAATAATATTTGTAAGTTTTTCAAGCTGAATCTGCTTTAGAGTTGAGA
20469096 TTT
129 TTT
20469099 TTAAAACATT
Statistics
Matches: 280, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
166 4 0.01
167 223 0.80
168 53 0.19
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (167 bp):
CAAGATTCATAAGTTTTTTTAGCGAAATCTATTTTAGAGTCAAGATTTGTAAGACCTCTAGGCAT
AACTCAAAGTCCTTTAAATAATATTTGTAAGTTTTTCAAGCTGAATCTGCTTTAGAGTTGAGATT
TGTAAGACCTCCAAGCATATTCTCTAAGTCCACTAGC
Found at i:20469063 original size:22 final size:22
Alignment explanation
Indices: 20469003--20469063 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
20468993 ATCTATTTTA
*
20469003 GAGTCAAGATTTGTAAGACCTCT
1 GAGT-AAGATTTGTAAGACATCT
* * * *
20469026 GAGCATA-ATCTCTAAGTCATCT
1 GAGTA-AGATTTGTAAGACATCT
20469048 GAGTAAGATTTGTAAG
1 GAGTAAGATTTGTAAG
20469064 CTTTTCAAGC
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.82
23 4 0.14
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (22 bp):
GAGTAAGATTTGTAAGACATCT
Found at i:20470826 original size:63 final size:64
Alignment explanation
Indices: 20470749--20470878 Score: 208
Period size: 64 Copynumber: 2.0 Consensus size: 64
20470739 TTCTCAAAGT
* * * *
20470749 AAAATTTTATAAATGATTTTC-AATAAAATCTCACTAAACTATTGGGAGATCTATATCAAAATA
1 AAAAGTTTATAAATGATTTTCAAATAAAATCTCACCAAACTATTAGGAGATCTACATCAAAATA
*
20470812 AAAAGTTTATAAATGATTTTCAAATAAAATCTCACCAAACTATTAGGAGATCTACATCAAAGTA
1 AAAAGTTTATAAATGATTTTCAAATAAAATCTCACCAAACTATTAGGAGATCTACATCAAAATA
20470876 AAA
1 AAA
20470879 TCTTACTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
63 20 0.33
64 41 0.67
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (64 bp):
AAAAGTTTATAAATGATTTTCAAATAAAATCTCACCAAACTATTAGGAGATCTACATCAAAATA
Found at i:20484079 original size:9 final size:9
Alignment explanation
Indices: 20484065--20484098 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
20484055 AAACTACTAC
20484065 AATTGAATG
1 AATTGAATG
20484074 AATTGAATG
1 AATTGAATG
20484083 AATTGAATG
1 AATTGAATG
20484092 AA-TGAAT
1 AATTGAAT
20484099 TTAGATTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.20
9 20 0.80
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (9 bp):
AATTGAATG
Found at i:20484093 original size:13 final size:14
Alignment explanation
Indices: 20484068--20484099 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
20484058 CTACTACAAT
20484068 TGAA-TGAATTGAA
1 TGAATTGAATTGAA
20484081 TGAATTGAA-TGAA
1 TGAATTGAATTGAA
20484094 TGAATT
1 TGAATT
20484100 TAGATTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (14 bp):
TGAATTGAATTGAA
Found at i:20485800 original size:88 final size:87
Alignment explanation
Indices: 20485620--20485801 Score: 267
Period size: 88 Copynumber: 2.1 Consensus size: 87
20485610 TGTGATGAAG
* * *
20485620 TGTTTTGTATTCTTTTTACTTGAGTTATATGCATGAATTAAAGATTAAGTAGATGTTTATTGTAA
1 TGTTTTGTATTCTTTTTACTTGAGTTATATACATGAATTAAAGATTAAGTAGATGTATATCGTAA
*
20485685 TAAGCATAAGATATTGAGAGTA
66 TAAGCATAAGATATTAAGAGTA
* *
20485707 GTGTTTTGTATTCTTTTTACTTGAGTTATATATATGAATTAAAGATTGAGTAGATGTATATGCGT
1 -TGTTTTGTATTCTTTTTACTTGAGTTATATACATGAATTAAAGATTAAGTAGATGTATAT-CGT
*
20485772 TATAAGCATAAGATATTAAGAGCT-
64 AATAAGCATAAGATATTAAGAG-TA
20485796 TGTTTT
1 TGTTTT
20485802 TGAAAGAATT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
88 62 0.73
89 22 0.26
90 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.45
Consensus pattern (87 bp):
TGTTTTGTATTCTTTTTACTTGAGTTATATACATGAATTAAAGATTAAGTAGATGTATATCGTAA
TAAGCATAAGATATTAAGAGTA
Found at i:20494153 original size:20 final size:21
Alignment explanation
Indices: 20494116--20494154 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
20494106 ACAATCAAGC
*
20494116 AAAATTGAATCAAGTAAGTTA
1 AAAATTGAACCAAGTAAGTTA
*
20494137 AAAATT-AACCAATTAAGT
1 AAAATTGAACCAAGTAAGT
20494155 ATATGATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (21 bp):
AAAATTGAACCAAGTAAGTTA
Found at i:20496562 original size:11 final size:11
Alignment explanation
Indices: 20496532--20496568 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
20496522 TCTCCCTTTT
20496532 CTTTTC-TTAG
1 CTTTTCTTTAG
20496542 TCTTTTCTTTAG
1 -CTTTTCTTTAG
20496554 CTTTTCTTTAG
1 CTTTTCTTTAG
20496565 -TTTT
1 CTTTT
20496569 AGTTATTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (11 bp):
CTTTTCTTTAG
Found at i:20497791 original size:19 final size:20
Alignment explanation
Indices: 20497765--20497809 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
20497755 ATTTGTCTTA
*
20497765 TATATATATATATATTACTTT
1 TATATATAT-TATATCACTTT
*
20497786 TATATATATTATATCATTTT
1 TATATATATTATATCACTTT
20497806 TATA
1 TATA
20497810 AAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATATATTATATCACTTT
Found at i:20497823 original size:31 final size:30
Alignment explanation
Indices: 20497787--20497857 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
20497777 TATTACTTTT
*
20497787 ATATATATTATATCATTTTTATAAAAAATAA
1 ATATATATTATATCA-TTGTATAAAAAATAA
* * *
20497818 ATATATATTATGTCATTGTATAAACATTAA
1 ATATATATTATATCATTGTATAAAAAATAA
*
20497848 AAATATATTA
1 ATATATATTA
20497858 AATTATTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 21 0.60
31 14 0.40
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (30 bp):
ATATATATTATATCATTGTATAAAAAATAA
Found at i:20502299 original size:12 final size:12
Alignment explanation
Indices: 20502275--20502322 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
20502265 TATTAATAAT
20502275 TTATATATTTATA
1 TTATAT-TTTATA
20502288 TTATATTTTATA
1 TTATATTTTATA
** *
20502300 AAAAATTTTATA
1 TTATATTTTATA
*
20502312 TTATAATTTAT
1 TTATATTTTAT
20502323 GTTAAAAGTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
12 22 0.79
13 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:20503252 original size:30 final size:31
Alignment explanation
Indices: 20503216--20503280 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
20503206 GATTGAGTTA
* *
20503216 AAATAAAATATTAAAAATTTGATTAATTA-T
1 AAATAAAATATTAAAAATTTAAATAATTATT
20503246 AAATAAAATATTAAAAATTTAAATAATTATT
1 AAATAAAATATTAAAAATTTAAATAATTATT
20503277 AAAT
1 AAAT
20503281 TATAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (31 bp):
AAATAAAATATTAAAAATTTAAATAATTATT
Found at i:20503278 original size:19 final size:21
Alignment explanation
Indices: 20503240--20503279 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
20503230 AAATTTGATT
20503240 AATTATAAATAAAATATTAAA
1 AATTATAAATAAAATATTAAA
*
20503261 AATT-TAAAT-AATTATTAAA
1 AATTATAAATAAAATATTAAA
20503280 TTATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 5 0.28
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTATAAATAAAATATTAAA
Found at i:20503758 original size:21 final size:19
Alignment explanation
Indices: 20503704--20503760 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 19
20503694 AATGTATTAT
20503704 TATT-TTTTAATAAATAAA
1 TATTATTTTAATAAATAAA
* *
20503722 TACTATTTTGAT--ATAAA
1 TATTATTTTAATAAATAAA
20503739 TATTATTATATAATAAATAAA
1 TATTATT-T-TAATAAATAAA
20503760 T
1 T
20503761 GAATATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 11 0.37
18 4 0.13
19 9 0.30
21 6 0.20
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
TATTATTTTAATAAATAAA
Found at i:20506344 original size:20 final size:21
Alignment explanation
Indices: 20506308--20506359 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
20506298 ATCCAAAATT
20506308 AATA-AAATATTATTTTTTTA
1 AATATAAATATTATTTTTTTA
20506328 AATATAAATATTA-TTTTTTA
1 AATATAAATATTATTTTTTTA
20506348 AATATAAATATT
1 AATATAAATATT
20506360 TAAATATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 23 0.74
21 8 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATAAATATTATTTTTTTA
Found at i:20506351 original size:14 final size:14
Alignment explanation
Indices: 20506344--20506395 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
20506334 AATATTATTT
20506344 TTTAAATATAAATA
1 TTTAAATATAAATA
20506358 TTTAAATATAAA-A
1 TTTAAATATAAATA
20506371 -TT--ATATAAATA
1 TTTAAATATAAATA
*
20506382 TATAAATAATAAAT
1 TTTAAAT-ATAAAT
20506396 TAATTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
10 7 0.22
11 1 0.03
12 3 0.09
13 1 0.03
14 14 0.44
15 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:20506399 original size:8 final size:8
Alignment explanation
Indices: 20506349--20506395 Score: 62
Period size: 8 Copynumber: 6.0 Consensus size: 8
20506339 TATTTTTTAA
20506349 ATATAAAT
1 ATATAAAT
*
20506357 ATTTAAAT
1 ATATAAAT
20506365 ATA-AAATT
1 ATATAAA-T
20506373 ATATAAAT
1 ATATAAAT
20506381 ATATAAAT
1 ATATAAAT
20506389 A-ATAAAT
1 ATATAAAT
20506396 TAATTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 9 0.26
8 23 0.66
9 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:20517257 original size:14 final size:14
Alignment explanation
Indices: 20517238--20517269 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
20517228 TTGCATTAAG
*
20517238 AAAATAAAAAATTA
1 AAAATAAAAAAATA
20517252 AAAATAAAAAAATA
1 AAAATAAAAAAATA
20517266 AAAA
1 AAAA
20517270 AAGGCCTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAAAATA
Found at i:20517984 original size:21 final size:21
Alignment explanation
Indices: 20517954--20518005 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
20517944 TAAATTGCCT
* *
20517954 AAAAACTTAAAATAAACTTGC
1 AAAAAATTAAAATAAACTTGA
*
20517975 AAAAAATT-AAATTAACTTGA
1 AAAAAATTAAAATAAACTTGA
*
20517995 AAAAAACTAAA
1 AAAAAATTAAA
20518006 TTGAATTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAAAATTAAAATAAACTTGA
Found at i:20518007 original size:20 final size:20
Alignment explanation
Indices: 20517963--20518017 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
20517953 TAAAAACTTA
* * *
20517963 AAATAAACTTGCAAAAAATT
1 AAATTAACTTGAAAAAAACT
20517983 AAATTAACTTGAAAAAAACT
1 AAATTAACTTGAAAAAAACT
20518003 AAATTGAA-TTGAAAA
1 AAATT-AACTTGAAAA
20518018 TTTAAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.25
Consensus pattern (20 bp):
AAATTAACTTGAAAAAAACT
Found at i:20518428 original size:19 final size:20
Alignment explanation
Indices: 20518385--20518428 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
20518375 TAACCAAGGT
*
20518385 AGAAATTCCAAATCAAAGTG
1 AGAAATTCCAAATCAAAGTA
* *
20518405 GGAAA-TCCAACTCAAAGTA
1 AGAAATTCCAAATCAAAGTA
20518424 AGAAA
1 AGAAA
20518429 ACCTTCTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (20 bp):
AGAAATTCCAAATCAAAGTA
Found at i:20520066 original size:12 final size:12
Alignment explanation
Indices: 20520049--20520078 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
20520039 AATTACTCTT
20520049 GATTCAAGACGA
1 GATTCAAGACGA
20520061 GATTCAAGACGA
1 GATTCAAGACGA
20520073 GATTCA
1 GATTCA
20520079 TTACCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (12 bp):
GATTCAAGACGA
Found at i:20524386 original size:15 final size:15
Alignment explanation
Indices: 20524357--20524386 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20524347 CCTTAACAAT
*
20524357 TTAAAAACAGAAAAA
1 TTAAAAACAAAAAAA
20524372 TTAAAAACAAAAAAA
1 TTAAAAACAAAAAAA
20524387 AAATATGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (15 bp):
TTAAAAACAAAAAAA
Found at i:20525242 original size:19 final size:18
Alignment explanation
Indices: 20525201--20525242 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
20525191 ACTAATACAA
20525201 AAAATTAAATAGTACACT
1 AAAATTAAATAGTACACT
20525219 AAAATTAAATGCAGTAC-CT
1 AAAATTAAAT--AGTACACT
20525238 AAAAT
1 AAAAT
20525243 AGTGAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.26
Consensus pattern (18 bp):
AAAATTAAATAGTACACT
Found at i:20526127 original size:24 final size:25
Alignment explanation
Indices: 20526092--20526154 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
20526082 ATAATTATAT
*
20526092 ATATTTTTATTTTTTAAAAAAATC-
1 ATATTTTAATTTTTTAAAAAAATCA
**
20526116 ATATTTTAATTTTTTGGAAAAATCA
1 ATATTTTAATTTTTTAAAAAAATCA
20526141 ATATTTTTAATTTT
1 ATA-TTTTAATTTT
20526155 AAAATATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 21 0.62
25 3 0.09
26 10 0.29
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (25 bp):
ATATTTTAATTTTTTAAAAAAATCA
Found at i:20526310 original size:21 final size:21
Alignment explanation
Indices: 20526285--20526324 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20526275 CAAAATTTTA
*
20526285 AAAATTTTGAAATTT-TTTTGT
1 AAAATATT-AAATTTATTTTGT
20526306 AAAATATTAAATTTATTTT
1 AAAATATTAAATTTATTTT
20526325 TTCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
AAAATATTAAATTTATTTTGT
Found at i:20526913 original size:22 final size:24
Alignment explanation
Indices: 20526883--20526928 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
20526873 GAGATTTAAA
20526883 AAATATTAAAATATTGAA-AAAAT
1 AAATATTAAAATATTGAAGAAAAT
* *
20526906 AAAT-TTAAATTTTTGAAGAAAAT
1 AAATATTAAAATATTGAAGAAAAT
20526929 CTAGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (24 bp):
AAATATTAAAATATTGAAGAAAAT
Found at i:20526970 original size:24 final size:23
Alignment explanation
Indices: 20526943--20527009 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
20526933 AAAATTTCTA
* *
20526943 AAAAAATCAAAATTTTGATTTTTT
1 AAAAAAT-AAAAATATGATTTTTT
*
20526967 AAAAAATAAAAATATGA-TTTTA
1 AAAAAATAAAAATATGATTTTTT
20526989 AAATAAACTAAAAATATGATT
1 AAA-AAA-TAAAAATATGATT
20527010 AAAAAATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.19
23 11 0.30
24 18 0.49
25 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAAAATAAAAATATGATTTTTT
Found at i:20531795 original size:22 final size:23
Alignment explanation
Indices: 20531762--20531832 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
20531752 TGAATATAAT
* *
20531762 TATTAAAATATTTATTGTTCAAA
1 TATTAAAATATTTATTATTAAAA
**
20531785 TATT-AAATATTTACAATTAAAA
1 TATTAAAATATTTATTATTAAAA
* *
20531807 TATTGAAAATATTTATTTTTGAAA
1 TATT-AAAATATTTATTATTAAAA
20531831 TA
1 TA
20531833 GTAATATTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
22 18 0.47
23 4 0.11
24 16 0.42
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (23 bp):
TATTAAAATATTTATTATTAAAA
Found at i:20532500 original size:19 final size:19
Alignment explanation
Indices: 20532478--20532528 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
20532468 TTGAATTGAA
20532478 ATTAAATAAAAATAGTTTT-
1 ATTAAATAAAAATA-TTTTG
* *
20532497 ATTAATTAATAATATTTTG
1 ATTAAATAAAAATATTTTG
* *
20532516 AATAAAGAAAAAT
1 ATTAAATAAAAAT
20532529 TAAATTCAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (19 bp):
ATTAAATAAAAATATTTTG
Found at i:20536251 original size:13 final size:14
Alignment explanation
Indices: 20536203--20536249 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
20536193 AAATTTTAAT
20536203 TAAAATATAATAAAA
1 TAAAATAT-ATAAAA
* *
20536218 CTCAAATATA-AAAT
1 -TAAAATATATAAAA
20536232 TAAAATATATAAAA
1 TAAAATATATAAAA
20536246 TAAA
1 TAAA
20536250 TAATTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 8 0.31
14 10 0.38
15 1 0.04
16 7 0.27
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAAATATATAAAA
Found at i:20536703 original size:23 final size:23
Alignment explanation
Indices: 20536658--20536703 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20536648 TTTAGGTAAT
* **
20536658 ATTTTTTTTAAATTTATCCTTTA
1 ATTTTATTTAAATTTAAACTTTA
*
20536681 ATTTTATTTAAATTTAAATTTTA
1 ATTTTATTTAAATTTAAACTTTA
20536704 TTGATTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTTATTTAAATTTAAACTTTA
Found at i:20536837 original size:17 final size:17
Alignment explanation
Indices: 20536815--20536847 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20536805 ATTATTAAAC
20536815 TATATTAAATATAAAAA
1 TATATTAAATATAAAAA
*
20536832 TATATTATATATAAAA
1 TATATTAAATATAAAA
20536848 CTAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATATTAAATATAAAAA
Found at i:20537428 original size:189 final size:184
Alignment explanation
Indices: 20536690--20537463 Score: 610
Period size: 189 Copynumber: 4.1 Consensus size: 184
20536680 AATTTTATTT
* * * * ** * **
20536690 AAATTTAAATTTTATTGATTTTAAATTATACTATTTGATAAAATATATTAAAA-TCAGGTATA-T
1 AAATTTAAAATTTATTTATTTTCAACTATAAAATTTGATAAAATATATTAAAACTAAATTATATT
* *** * * *
20536753 TCAATTCTTAATAAAAACTTATTAAAATATAAAA-TATG-AA-ATATTT-TTTAAAATTATTAAA
66 TAAAAAATT-A-AAAAACTTATTAAAA-AGAAAATTTTGAAATATATTTATTTTAAATTA-TAAA
* * * *
20536814 -CTATATTAA-ATATAAAAATATATTATA-TATAAAACTAAAAAAAATCTTTAAAATAG-A
127 TCTAGA-AAACATATAAAAATATATTATATTA-AAAAGTAAAAAAATTC-TTAAAATAGAA
*
20536871 AAATTATAAAATTTATTTATTTTCAACTATAAAATTTGATAAAATATATAAAAACTAAATTATAT
1 AAATT-TAAAATTTATTTATTTTCAACTATAAAATTTGATAAAATATATTAAAACTAAATTATAT
** * ** * * *
20536936 TTAAAAAATTTTTAAAACCTATTAAAAAAGAAAAAGTTGAGAA-CTAGTTATTTTAAAATATAAA
65 TTAAAAAA-TTAAAAAACTTATT-AAAAAGAAAATTTTGA-AATATATTTATTTTAAATTATAAA
* * * *
20537000 TGTAGATGAA-ATATAAAAATATATTATATCTAAAAGTTCAGAAAAAAAAATTCTAAAAAATAGA
127 TCTAGA-AAACATATAAAAATATATTATAT-TAAAA----AG-TAAAAAAATTCT-TAAAATAGA
20537064 A
184 A
* * * * *
20537065 AATTTTAAAATATATTTATTTTAAACTATAACATTTGATAAAATATATTAACACTAAATTATATT
1 AAATTTAAAATTTATTTATTTTCAACTATAAAATTTGATAAAATATATTAAAACTAAATTATATT
* * *
20537130 TAAAAAAATTAAAACAAACTTATTAACAAAGAAAATTATGAAATTTATTTATTTAAAATTATAAA
66 T-AAAAAATT-AAA-AAACTTATTAA-AAAGAAAATTTTGAAATATATTTATTTTAAATTATAAA
* * * *
20537195 ACTAGATAACACAT-AAAATATATTATATCAAAAAGTTAAAAAAAACTTCTTAAAATA-AA
127 TCTAGAAAACATATAAAAATATATTATATTAAAAAG-T-AAAAAAA-TTCTTAAAATAGAA
* * * *
20537254 AAATTTAAAATTTGTTTATTTTCAACGATAAAAATTTTA-AAAATATATTAAAACTATATTATAT
1 AAATTTAAAATTTATTTATTTTCAACTAT-AAAATTTGATAAAATATATTAAAACTAAATTATAT
* *
20537318 TTGAAAAA-TAAAAAACTTATTCAAAAACAAAATTTTGAAATATATTTATTTTAAATTATAATAT
65 TTAAAAAATTAAAAAACTTATT-AAAAAGAAAATTTTGAAATATATTTATTTTAAATTATAA-AT
* * *
20537382 TTGGTAAAACATATTAAAATATCTATTATATTTGAAAAA-TAAAAAAATTCTTAAAATAGAA
128 CTAG-AAAACATA-TAAAA-ATATATTATA-TT-AAAAAGTAAAAAAATTCTTAAAATAGAA
* * *
20537443 AATTTTAAAACTCATTTATTT
1 AAATTTAAAATTTATTTATTT
20537464 AAATTGTGAT
Statistics
Matches: 476, Mismatches: 80, Indels: 66
0.77 0.13 0.11
Matches are distributed among these distances:
181 5 0.01
182 41 0.09
183 20 0.04
184 10 0.02
185 44 0.09
186 18 0.04
187 39 0.08
188 20 0.04
189 84 0.18
190 30 0.06
191 5 0.01
192 7 0.01
193 78 0.16
194 32 0.07
195 43 0.09
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (184 bp):
AAATTTAAAATTTATTTATTTTCAACTATAAAATTTGATAAAATATATTAAAACTAAATTATATT
TAAAAAATTAAAAAACTTATTAAAAAGAAAATTTTGAAATATATTTATTTTAAATTATAAATCTA
GAAAACATATAAAAATATATTATATTAAAAAGTAAAAAAATTCTTAAAATAGAA
Found at i:20537551 original size:91 final size:95
Alignment explanation
Indices: 20537043--20537568 Score: 331
Period size: 94 Copynumber: 5.6 Consensus size: 95
20537033 AAGTTCAGAA
* * * * * *
20537043 AAAAAAATTCTAAAAAATAGAAAATTTTAAAATATATTTATTTTAAACTATAACATTTGATAAAA
1 AAAAAAATTCT-TAAAATAGAAAATTTTGAAATTTATTTATTTTAAATTATAATATTTGGTAAAA
* * * *
20537108 TATATTAACACTA--AATTATATTTAAAAAAATT
65 CATATTAA-AATATCTATTATATTT-GAAAAA-T
* * * ** * *
20537140 AAAACAAACTTATTAACAA-AGAAAATTATGAAATTTATTTATTTAAAATTATAA-AACTAG-AT
1 AAAA-AAA-TTCTTAA-AATAGAAAATTTTGAAATTTATTTATTTTAAATTATAATATTTGGTAA
* *
20537202 AACACA-TAAAATA--TATTATA--TCAAAAAGTT
63 AACATATTAAAATATCTATTATATTTGAAAAA--T
* * * * ** *
20537232 AAAAAAAACTTCTTAAAATA-AAAAATTTAAAATTTGTTTATTTTCAACGATAAAAATTT--TAA
1 -AAAAAAA-TTCTTAAAATAGAAAATTTTGAAATTTATTTATTTTAAATTAT-AATATTTGGT-A
*
20537294 AAATATATTAAAACTA--TATTATATTTGAAAAAT
62 AAACATATTAAAA-TATCTATTATATTTGAAAAAT
* * * *
20537327 AAAAAACTTATTCAAAA-ACAAAATTTTGAAATATATTTATTTTAAATTATAATATTTGGTAAAA
1 AAAAAAATTCTT-AAAATAGAAAATTTTGAAATTTATTTATTTTAAATTATAATATTTGGTAAAA
20537391 CATATTAAAATATCTATTATATTTGAAAAAT
65 CATATTAAAATATCTATTATATTTGAAAAAT
* * * * * *
20537422 AAAAAAATTCTTAAAATAGAAAATTTTAAAACTCATTTA-TTTAAATTGTGATATTT-GT-AAAT
1 AAAAAAATTCTTAAAATAGAAAATTTTGAAATTTATTTATTTTAAATTATAATATTTGGTAAAAC
* * * * *
20537484 ATGTTAAAATTTTTATTATGTTT-CAAAAT
66 ATATTAAAATATCTATTATATTTGAAAAAT
* * **
20537513 AAAAAATATT-TTAAAATA-AAACATTTTGAGATTTATTTACTTCCAATTATAATATT
1 AAAAAA-ATTCTTAAAATAGAAA-ATTTTGAAATTTATTTATTTTAAATTATAATATT
20537569 CAAATTATGT
Statistics
Matches: 339, Mismatches: 66, Indels: 53
0.74 0.14 0.12
Matches are distributed among these distances:
90 3 0.01
91 62 0.18
92 53 0.16
93 26 0.08
94 80 0.24
95 58 0.17
96 5 0.01
97 12 0.04
98 35 0.10
99 5 0.01
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (95 bp):
AAAAAAATTCTTAAAATAGAAAATTTTGAAATTTATTTATTTTAAATTATAATATTTGGTAAAAC
ATATTAAAATATCTATTATATTTGAAAAAT
Found at i:20539083 original size:24 final size:25
Alignment explanation
Indices: 20539034--20539080 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
20539024 AACTAAATTA
*
20539034 AAAAATTAGATGAAAATTCTATAAC
1 AAAAATTAGATGAAAATTATATAAC
*
20539059 AAAAATT-GATTAAAATTA-ATAA
1 AAAAATTAGATGAAAATTATATAA
20539081 ACACTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (25 bp):
AAAAATTAGATGAAAATTATATAAC
Found at i:20540384 original size:21 final size:21
Alignment explanation
Indices: 20540287--20540383 Score: 151
Period size: 21 Copynumber: 4.6 Consensus size: 21
20540277 GTTAAAAACA
20540287 GGATCGATCCCTTTTACTAGG
1 GGATCGATCCCTTTTACTAGG
*
20540308 GGATCGATCCCTTTTGCTAGG
1 GGATCGATCCCTTTTACTAGG
*
20540329 GGATCGATCCCTTTTGCTAGG
1 GGATCGATCCCTTTTACTAGG
*
20540350 GGATCGATCCC-TTCACTTAGG
1 GGATCGATCCCTTTTAC-TAGG
20540371 GGATCGATCCCTT
1 GGATCGATCCCTT
20540384 CTATCAAAAC
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
20 3 0.04
21 67 0.94
22 1 0.01
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (21 bp):
GGATCGATCCCTTTTACTAGG
Found at i:20540786 original size:18 final size:18
Alignment explanation
Indices: 20540763--20540800 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20540753 CAATATTAAA
*
20540763 ACATCATCAGATTTTCAT
1 ACATCATCAAATTTTCAT
20540781 ACATCATCAAATTTTCAT
1 ACATCATCAAATTTTCAT
20540799 AC
1 AC
20540801 CAATATTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (18 bp):
ACATCATCAAATTTTCAT
Found at i:20540930 original size:15 final size:15
Alignment explanation
Indices: 20540912--20540945 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20540902 AAACCACACA
*
20540912 ACAATGCCACAAGCC
1 ACAAAGCCACAAGCC
*
20540927 ACAAAGTCACAAGCC
1 ACAAAGCCACAAGCC
20540942 ACAA
1 ACAA
20540946 GAGAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.35, G:0.12, T:0.06
Consensus pattern (15 bp):
ACAAAGCCACAAGCC
Found at i:20551300 original size:9 final size:8
Alignment explanation
Indices: 20551251--20551312 Score: 54
Period size: 8 Copynumber: 7.5 Consensus size: 8
20551241 TTTAGCACGC
20551251 TTTTATTT
1 TTTTATTT
*
20551259 CTTTATTT
1 TTTTATTT
* *
20551267 GTTTCTTT
1 TTTTATTT
20551275 TTTT-TTCT
1 TTTTATT-T
*
20551283 TTTCCATTT
1 TTT-TATTT
20551292 TTTTGATTT
1 TTTT-ATTT
20551301 TTTTATTT
1 TTTTATTT
20551309 TTTT
1 TTTT
20551313 TTTCAAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
7 2 0.05
8 28 0.64
9 12 0.27
10 2 0.05
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTTATTT
Found at i:20552609 original size:15 final size:15
Alignment explanation
Indices: 20552585--20552614 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20552575 AAATTTTAAG
*
20552585 AAAAATAAAAATATA
1 AAAAAAAAAAATATA
20552600 AAAAAAAAAAATATA
1 AAAAAAAAAAATATA
20552615 TATTTTTGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAAAAAATATA
Found at i:20552670 original size:25 final size:26
Alignment explanation
Indices: 20552633--20552688 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
20552623 AGAATAAATA
*
20552633 AAATTATCCAATGATGGAA-TTTTT-AG
1 AAATTATCAAATGAT--AACTTTTTAAG
20552659 AAATT-TCAAATGATAACTTTTTAAG
1 AAATTATCAAATGATAACTTTTTAAG
20552684 AAATT
1 AAATT
20552689 CCTAGGTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.07
24 5 0.19
25 15 0.56
26 5 0.19
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (26 bp):
AAATTATCAAATGATAACTTTTTAAG
Found at i:20553232 original size:49 final size:46
Alignment explanation
Indices: 20553161--20553258 Score: 142
Period size: 49 Copynumber: 2.1 Consensus size: 46
20553151 AATAAAAAAG
* *
20553161 AAAAAGAATTTCTAAATAGACCAAAATGGTGGAAATTTTAGAAATCA
1 AAAAAGAATTTCTAAATAGACCAAAATGGTGAAAACTTTAGAAAT-A
*
20553208 AAAAAGAAATTTTCTAAATTGACCAAAATGGTGAAAACTTTAGAAATA
1 AAAAAG-AA-TTTCTAAATAGACCAAAATGGTGAAAACTTTAGAAATA
20553256 AAA
1 AAA
20553259 CTTATAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.13
48 6 0.13
49 34 0.74
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (46 bp):
AAAAAGAATTTCTAAATAGACCAAAATGGTGAAAACTTTAGAAATA
Found at i:20556482 original size:54 final size:53
Alignment explanation
Indices: 20556399--20556504 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 53
20556389 GAGGCATTAG
*
20556399 AGTAATGTTTAGGAAAAGGGTTAATGCTTAGGACTTTAGAATGTTGTTTTGGA
1 AGTAATGTTTAGGAAAAGGGTTAATGCTTAGGACTTTAGAATATTGTTTTGGA
20556452 AGTAATGTTTAGGAATAAGGGTTAATGCTTAGGACTTTAGAATATTGTTTTGG
1 AGTAATGTTTAGGAA-AAGGGTTAATGCTTAGGACTTTAGAATATTGTTTTGG
20556505 CTCTATTAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 15 0.29
54 36 0.71
ACGTcount: A:0.30, C:0.04, G:0.27, T:0.39
Consensus pattern (53 bp):
AGTAATGTTTAGGAAAAGGGTTAATGCTTAGGACTTTAGAATATTGTTTTGGA
Found at i:20564277 original size:16 final size:16
Alignment explanation
Indices: 20564236--20564300 Score: 80
Period size: 17 Copynumber: 4.1 Consensus size: 16
20564226 CTATGCTTAA
*
20564236 AAAAAGGAAAAAAA-G
1 AAAAATGAAAAAAATG
*
20564251 AGAAA-GAAAAAAATG
1 AAAAATGAAAAAAATG
20564266 AACAAATGAAAAAAATG
1 AA-AAATGAAAAAAATG
20564283 AAAAATGAAAAAGAATG
1 AAAAATGAAAAA-AATG
20564300 A
1 A
20564301 CTTAAGTTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.18
15 6 0.14
16 13 0.30
17 17 0.39
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.08
Consensus pattern (16 bp):
AAAAATGAAAAAAATG
Found at i:20564283 original size:9 final size:9
Alignment explanation
Indices: 20564256--20564300 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
20564246 AAAAGAGAAA
20564256 GAAAAAAAT
1 GAAAAAAAT
*
20564265 G-AACAAAT
1 GAAAAAAAT
20564273 GAAAAAAAT
1 GAAAAAAAT
20564282 G--AAAAAT
1 GAAAAAAAT
20564289 GAAAAAGAAT
1 GAAAAA-AAT
20564299 GA
1 GA
20564301 CTTAAGTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
7 7 0.23
8 7 0.23
9 11 0.37
10 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.11
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:20565079 original size:33 final size:33
Alignment explanation
Indices: 20565019--20565089 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
20565009 AATTGACATT
* * ** *
20565019 TGCATAGCATGCATTGTATTTTTGAATGTTTAG
1 TGCATAACATGCATTGCATTTGAGAATGTCTAG
*
20565052 TGCATAACATGCATTGCATTTGAGAATGTCTAT
1 TGCATAACATGCATTGCATTTGAGAATGTCTAG
20565085 TGCAT
1 TGCAT
20565090 GAAGCAGGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.41
Consensus pattern (33 bp):
TGCATAACATGCATTGCATTTGAGAATGTCTAG
Found at i:20565373 original size:43 final size:43
Alignment explanation
Indices: 20565316--20565466 Score: 250
Period size: 43 Copynumber: 3.5 Consensus size: 43
20565306 GTTGAGAAGC
*
20565316 TTTATTTTTTAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTA
1 TTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTA
* *
20565359 TTTATTTTTCAAAGTCGTTGAG-CTTCTGTTTAGAGGAGCCTTA
1 TTTATTTTTCAAAGTTGTTGAGCCTT-TGTTTAGAGGAGCTTTA
*
20565402 TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTA
1 TTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTA
20565445 TTTATTTTTCAAAGTTGTTGAG
1 TTTATTTTTCAAAGTTGTTGAG
20565467 TCATTGCTTA
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
42 3 0.03
43 95 0.95
44 2 0.02
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (43 bp):
TTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTA
Found at i:20567758 original size:13 final size:13
Alignment explanation
Indices: 20567740--20567766 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20567730 TAAGTTCTCT
20567740 TAGCTATGCATAC
1 TAGCTATGCATAC
20567753 TAGCTATGCATAC
1 TAGCTATGCATAC
20567766 T
1 T
20567767 CTTGATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TAGCTATGCATAC
Found at i:20568834 original size:48 final size:47
Alignment explanation
Indices: 20568777--20568867 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 47
20568767 AAAGAAAAAG
20568777 AATTTTTAAATAGAC-CTAAATGGT-GAAAATTTTAGAAATCAAAAAGAA
1 AATTTTTAAATAGACAC-AAATGGTAGAAAA-TTTAGAAAT-AAAAAGAA
* *
20568825 AATTTTTAAATTGGCACAAATGGTAGAAAATTTAGAAATAAAA
1 AATTTTTAAATAGACACAAATGGTAGAAAATTTAGAAATAAAA
20568868 CTTGTAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
47 4 0.10
48 29 0.74
49 6 0.15
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (47 bp):
AATTTTTAAATAGACACAAATGGTAGAAAATTTAGAAATAAAAAGAA
Found at i:20575811 original size:12 final size:12
Alignment explanation
Indices: 20575796--20575826 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20575786 AAAAATTAAA
*
20575796 AAAAATATTTAC
1 AAAAATAATTAC
20575808 AAAAATAATTAC
1 AAAAATAATTAC
20575820 AAAAATA
1 AAAAATA
20575827 CTAGATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAATAATTAC
Found at i:20581912 original size:15 final size:15
Alignment explanation
Indices: 20581892--20581921 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20581882 GGAAAAATAC
20581892 TTAAAAGGGCTAAAT
1 TTAAAAGGGCTAAAT
20581907 TTAAAAGGGCTAAAT
1 TTAAAAGGGCTAAAT
20581922 GGTTATAGCA
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:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (15 bp):
TTAAAAGGGCTAAAT
Found at i:20583969 original size:25 final size:25
Alignment explanation
Indices: 20583922--20583971 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
20583912 AATTGATGAA
20583922 AAAATCTAAAATAATAAAGTAAAAG
1 AAAATCTAAAATAATAAAGTAAAAG
* *
20583947 AAAATCTATAAGTATTAAA-TAAAAG
1 AAAATCTA-AAATAATAAAGTAAAAG
20583972 TTATTCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (25 bp):
AAAATCTAAAATAATAAAGTAAAAG
Found at i:20585682 original size:106 final size:107
Alignment explanation
Indices: 20585542--20585742 Score: 307
Period size: 106 Copynumber: 1.9 Consensus size: 107
20585532 GCTCACTTCT
* * *
20585542 ACCATTTGGTGTTTTCTTTTGAATGTTTTAAAGTTCTACTTGTGTTTATTCTGTTGTTTCTTTAG
1 ACCATTTGGTGTTTTCTTCTGAATGTTTTAAAGTTCTACTTATGTTTATTCTGTTGCTTCTTTAG
* *
20585607 GTTAATACAAAATCTTGGTGAATTTGTTGTACAAAAAAGTCC
66 GTTAATACAAAACCCTGGTGAATTTGTTGTACAAAAAAGTCC
*
20585649 ACCATTT-GTTTTTTCTTCTGAATGTTATT-AAGTTCTACTTATGTTTATTCTGTTGCTTCTTTA
1 ACCATTTGGTGTTTTCTTCTGAATGTT-TTAAAGTTCTACTTATGTTTATTCTGTTGCTTCTTTA
* *
20585712 GGTTAATGCAGAACCCTGGTGAATTTGTTGT
65 GGTTAATACAAAACCCTGGTGAATTTGTTGT
20585743 GACTTTTCCA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
106 76 0.89
107 9 0.11
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (107 bp):
ACCATTTGGTGTTTTCTTCTGAATGTTTTAAAGTTCTACTTATGTTTATTCTGTTGCTTCTTTAG
GTTAATACAAAACCCTGGTGAATTTGTTGTACAAAAAAGTCC
Found at i:20590230 original size:19 final size:21
Alignment explanation
Indices: 20590181--20590230 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 21
20590171 AATAAATAAA
20590181 TATTAATATACAAAATTTAATCT
1 TATTAATA-A-AAAATTTAATCT
20590204 TATT--TAAAAAATTT-A-CT
1 TATTAATAAAAAATTTAATCT
20590221 TATTAATAAA
1 TATTAATAAA
20590231 GTTCATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 6 0.24
18 1 0.04
19 11 0.44
20 1 0.04
21 2 0.08
23 4 0.16
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTAATAAAAAATTTAATCT
Found at i:20590834 original size:18 final size:18
Alignment explanation
Indices: 20590793--20590837 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
20590783 TATTAAAAAT
*
20590793 TTATTAAAT--TATTTTA
1 TTATTAAATAATAATTTA
*
20590809 -TATCAAATAATAATTTA
1 TTATTAAATAATAATTTA
20590826 TTATTAAATAAT
1 TTATTAAATAAT
20590838 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 7 0.30
17 6 0.26
18 10 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATTAAATAATAATTTA
Found at i:20593012 original size:21 final size:22
Alignment explanation
Indices: 20592988--20593029 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
20592978 CATTATATAT
* *
20592988 TTAATAAATAA-ATATGTACAA
1 TTAAGAAATAATATACGTACAA
20593009 TTAAGAAATAATATACGTACA
1 TTAAGAAATAATATACGTACA
20593030 TCTATAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (22 bp):
TTAAGAAATAATATACGTACAA
Found at i:20595856 original size:16 final size:16
Alignment explanation
Indices: 20595835--20595881 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
20595825 AAAATCAACA
*
20595835 ATTTGAACTTAATTTG
1 ATTTGAACTTAAATTG
20595851 ATTTGAA-TCTAAATTG
1 ATTTGAACT-TAAATTG
20595867 ATTTGAACTTCAAAT
1 ATTTGAACTT-AAAT
20595882 CTGAATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 1 0.04
16 21 0.78
17 5 0.19
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (16 bp):
ATTTGAACTTAAATTG
Found at i:20599803 original size:20 final size:21
Alignment explanation
Indices: 20599777--20599826 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
20599767 CAAGAATCAA
20599777 CCAAGAATCACT-AAGAAATTT
1 CCAAGAATCACTCAAG-AATTT
*
20599798 -CAAGAATC-TTCAAGAATTT
1 CCAAGAATCACTCAAGAATTT
20599817 CCAAGAATCA
1 CCAAGAATCA
20599827 TTCTTTTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (21 bp):
CCAAGAATCACTCAAGAATTT
Found at i:20600435 original size:641 final size:641
Alignment explanation
Indices: 20599030--20601575 Score: 3643
Period size: 641 Copynumber: 4.0 Consensus size: 641
20599020 TCCATAACAT
* *
20599030 TTGCCAAAGCCTATCTTGAACA-TTTTCCCTATTCTTGAACTTCAAAATTGTCAAGAAAATCAAA
1 TTGCCAAAGCCAATCTTGAACATTTTTCCC-ATTCTTGAACTTCAAAATTTTCAAGAAAATCAAA
*
20599094 AACTT-TAAAAAATATCTCAAA-TATCCATAATATGATCAAGAATCAACCAAGAATCACTAAGAA
65 AACTTCT-AAAAACATCT-AAACTATCCATAATATGATCAAGAATCAACCAAGAATCACTAAGAA
* * *
20599157 ACTTTAAGAATCTTCAAGAATTTCCAAGAATCATTCTTTTCTTCAAGAAAACCTACAAAACAGAA
128 ACTTCAAGAATCTTCAAGAATTTCCAAGAATCATTATTTTCTTCAAGAAAACCTACAAAACAAAA
* *
20599222 AATTCAAAACTTT-AGAAGTAAAAATAACTTTATTTTACTAAGAATCAAGAAAAAATCAACCTTT
193 AATTCAACACTTTAAG-AGTAAAAATAACTTTATTTTACTAAGAATCAAGCAAAAATCAACCTTT
* * *
20599286 AAAACACTAGAATTAACTCTTTAAAATAAAGTTATCAAACCCCTAAACTTAAACTTTTACTTGTC
257 AAAACACTAGAAATAACTCTATAAAATAAAGTTATCAAACCCCCAAACTTAAACTTTTACTTGTC
*
20599351 CTCAAGCAAAAAATAAAAATAACTAAATGCATGCTAGAGAT-AAAATAAACACTCCCAATATGAA
322 CTCAAGCAAAAAATAAAAATAACTAAATACATGCTAGAGATCAAAATAAACACTCCCAATATGAA
* * * *
20599415 ATTCTTATGAATCTTAAAAAATTGCATGATAAGTATATTTGGAAAGAAAATCAAGAGCATAAATC
387 ATTCTTATGAATCTTAAAAAATTGCATGATAAGTATATCTAGAAAGAAAATCAAGAACATAGATC
*** * *
20599480 CCATGTAAAAATCATTCAAGAATAAGC-TGCATTCCAATCATAAATTTTCATGTTTGTGTGAATC
452 CCACACAAAAATCATTCAAGAATAAGCTTGCATTCCAATCACAAATTTTCATGTGTGTGTGAATC
20599544 ATCTTT-TTCAAATCCATGCAAGATATTCAACTAAAGCTAAGCAAACATGAAATTAGAAAAT-CT
517 ATCTTTCTT-AAATCCATGCAAGATATTCAACTAAAGCTAAGCAAACATGAAATTAGAAAATCCT
*
20599607 CTTCAAAGCATGCACAAATTTCATAAGTTT--TTTTCACACACTCTCTCCACTAATGTAGCC
581 -TTCAAAGCATGCACAAATTTCATAAGTTTGCTTTTCACACACTCTCTCCACTAATATAGCC
* * * *
20599667 TTGCCAAAGCCAATCTTGAATATTTTTCCCATTCTTGAACTTCAAGATTTTAAAGAAAATCAAGA
1 TTGCCAAAGCCAATCTTGAACATTTTTCCCATTCTTGAACTTCAAAATTTTCAAGAAAATCAAAA
* * *
20599732 ATTTCTAAAAACATCTCAACTATCCATAATATGATCAAGAATCAACCAAGAATCACTAAGAAATT
66 ACTTCTAAAAACATCTAAACTATCCATAATATGATCAAGAATCAACCAAGAATCACTAAGAAACT
* *
20599797 TCAAGAATCTTCAAGAATTTCCAAGAATCATTCTTTTCCTCAAGAAAACCTACAAAACAAAAAAT
131 TCAAGAATCTTCAAGAATTTCCAAGAATCATTATTTTCTTCAAGAAAACCTACAAAACAAAAAAT
* * *
20599862 TTAACACTTTAAGAGTAAAAATAACTTTATTTTACTAAGAATCAAG-AAAACTTAACCTTTAAAA
196 TCAACACTTTAAGAGTAAAAATAACTTTATTTTACTAAGAATCAAGCAAAAATCAACCTTTAAAA
*
20599926 CACTAGAAATAACTCTATAAAATAAAGTTATCAAACCCCCAAACTTGAACTTTTACTTGTCCTCA
261 CACTAGAAATAACTCTATAAAATAAAGTTATCAAACCCCCAAACTTAAACTTTTACTTGTCCTCA
* * ** * **
20599991 AGCAAAAAAAAAAAAAATACTAGGTACATGCTAGAGATCAAAATACACACTCATAATATGAAATT
326 AGCAAAAAATAAAAATA-ACTAAATACATGCTAGAGATCAAAATAAACACTCCCAATATGAAATT
* * *
20600056 CTTATGAATGC-TAAAAAATTGCATGCTAAGTATATTTGGAAAGAAAATCAAGAACATAGATCCC
390 CTTATGAAT-CTTAAAAAATTGCATGATAAGTATATCTAGAAAGAAAATCAAGAACATAGATCCC
* *
20600120 ACACAAAAATCATTCAAGAATAAGCTTGCATTCCAATTACAAATTTTCGTGTGTGTGTGAATCAT
454 ACACAAAAATCATTCAAGAATAAGCTTGCATTCCAATCACAAATTTTCATGTGTGTGTGAATCAT
* *
20600185 CTTTCTTAAATCGATGCAAGATATTCAACTAAAGCTAAGCAAACATGAAATTAGCAAATCCTTTC
519 CTTTCTTAAATCCATGCAAGATATTCAACTAAAGCTAAGCAAACATGAAATTAGAAAATCCTTTC
* **
20600250 AAAGCATGCACAAATTTCATAAGTTTGCTTTGCACACACTCTCTCCACTAGCATAGCC
584 AAAGCATGCACAAATTTCATAAGTTTGCTTTTCACACACTCTCTCCACTAATATAGCC
* * * ** *
20600308 TTACCAAAGCCAATCTTGAACATTTTTCCCATTTTTGAACTTCTAGGTTTTGAAGAAAATCAAAA
1 TTGCCAAAGCCAATCTTGAACATTTTTCCCATTCTTGAACTTCAAAATTTTCAAGAAAATCAAAA
* * * *
20600373 ACTTCCAAAAACATCTAAACTATCCATAATATGATCAATAATCAATCAAGAATCAGTAAGAAACT
66 ACTTCTAAAAACATCTAAACTATCCATAATATGATCAAGAATCAACCAAGAATCACTAAGAAACT
* ** * * *
20600438 TCAAGAATCTTTAAGAATTTTTAAGAATCATTATTTTCTTCAAAAAAACCTAGAAAATAAAAAAT
131 TCAAGAATCTTCAAGAATTTCCAAGAATCATTATTTTCTTCAAGAAAACCTACAAAACAAAAAAT
* * * *
20600503 TCAACATTTTATGAGT-AAAATGAATTTTATTTTACTAAGAATCATGCAAAAATCAACCTTTAAA
196 TCAACACTTTAAGAGTAAAAAT-AACTTTATTTTACTAAGAATCAAGCAAAAATCAACCTTTAAA
* * * * *
20600567 ACACTAGAAATAACTTTATAAAGTAGAGTTATTAAACCCCCAAACTTAAACTTTTACTTGTCTTC
260 ACACTAGAAATAACTCTATAAAATAAAGTTATCAAACCCCCAAACTTAAACTTTTACTTGTCCTC
* * ** * * **
20600632 ATGCAAACAATAAAAATAACTAGGTACATGCTAGAG-TCAAAACACATGCTCCCAATATGAAATT
325 AAGCAAAAAATAAAAATAACTAAATACATGCTAGAGATCAAAATAAACACTCCCAATATGAAATT
* * *
20600696 CTTATGAATCCTAAAAAATTGCATGATAAGTATATCTAGAAATAAAATTAAGAACATAGATCCCA
390 CTTATGAATCTTAAAAAATTGCATGATAAGTATATCTAGAAAGAAAATCAAGAACATAGATCCCA
** * *
20600761 CACAAAAATCATTCAAGAATAAGCTTGCATTTTAAATCACAAATTTCCATGTGTTTGTGAATCAT
455 CACAAAAATCATTCAAGAATAAGCTTGCA-TTCCAATCACAAATTTTCATGTGTGTGTGAATCAT
* * * *
20600826 TTTTCTCAAACCCATGCAAGATATTCAACTAAAGCTAAGCAAACATGAAATTAGAAAATCCCTTC
519 CTTTCTTAAATCCATGCAAGATATTCAACTAAAGCTAAGCAAACATGAAATTAGAAAATCCTTTC
* * * *
20600891 AAAGCATGTACATATTTCATAAGTTTGCTTTTCACACACTCTTTCCACTAATATCGCC
584 AAAGCATGCACAAATTTCATAAGTTTGCTTTTCACACACTCTCTCCACTAATATAGCC
* *
20600949 TTGCCAAAGCCAATCTTGAACATTTTTCCCATTCTTGAACTTCAAAATTTTCAAGAAAACCAAGA
1 TTGCCAAAGCCAATCTTGAACATTTTTCCCATTCTTGAACTTCAAAATTTTCAAGAAAATCAAAA
* * *
20601014 ACTTCTAAAAACATCTCAACTATCTAGAATATGATCAAGAATCAACCAAGAATCACTAAGAAACT
66 ACTTCTAAAAACATCTAAACTATCCATAATATGATCAAGAATCAACCAAGAATCACTAAGAAACT
* * * ** * *
20601079 TCAAGAATCTTAAAAAATTTTCAAGAATTGTTATTTTCTTCAAGAAAACCTACAAAATAGAAAAT
131 TCAAGAATCTTCAAGAATTTCCAAGAATCATTATTTTCTTCAAGAAAACCTACAAAACAAAAAAT
** * *
20601144 TCAACTTTTTAAGAGTAAAAAGAACTCTATTTTACTAAGAATCAAGCAAAAATCAACCTTTAAAA
196 TCAACACTTTAAGAGTAAAAATAACTTTATTTTACTAAGAATCAAGCAAAAATCAACCTTT-AAA
* * * *
20601209 ACACTAGAAATAACTCTATAAAATAGAGTTATCAAACCCCCAAACTTGAACTTTTACTTGTCTTT
260 ACACTAGAAATAACTCTATAAAATAAAGTTATCAAACCCCCAAACTTAAACTTTTACTTGTCCTC
* * * *
20601274 AATCAAAAAATAAAAATAACCAAATACATGCTAGAGATCAAAATAAACTCTCCTAATATGAAATT
325 AAGCAAAAAATAAAAATAACTAAATACATGCTAGAGATCAAAATAAACACTCCCAATATGAAATT
* *
20601339 CTTATGAATCTTAAAAAATTGCATGATAAGTATAACTAGAAAAAAAAGTCAAGAACATAGATCCC
390 CTTATGAATCTTAAAAAATTGCATGATAAGTATATCTAGAAAGAAAA-TCAAGAACATAGATCCC
* * *
20601404 ACAAAAAAATCATTCAAGAGTAAGCTTGCATTCCAATCACAAATTTT--TATGTGTGTGAATCAT
454 ACACAAAAATCATTCAAGAATAAGCTTGCATTCCAATCACAAATTTTCATGTGTGTGTGAATCAT
* * * * *
20601467 CTTTCTTAAATCCATGCAATATACTAAACTAAAGCTAAGCAAACATGACA-TAGCAAATCCTTTC
519 CTTTCTTAAATCCATGCAAGATATTCAACTAAAGCTAAGCAAACATGAAATTAGAAAATCCTTTC
*
20601531 ATAGCATGCACAAATTTCATAAGTTTGCTTTTCA-ACACTCTCTCC
584 AAAGCATGCACAAATTTCATAAGTTTGCTTTTCACACACTCTCTCC
20601576 GTTAATGTAG
Statistics
Matches: 1707, Mismatches: 182, Indels: 38
0.89 0.09 0.02
Matches are distributed among these distances:
636 94 0.06
637 227 0.13
638 114 0.07
639 130 0.08
640 162 0.09
641 670 0.39
642 185 0.11
643 81 0.05
644 44 0.03
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.29
Consensus pattern (641 bp):
TTGCCAAAGCCAATCTTGAACATTTTTCCCATTCTTGAACTTCAAAATTTTCAAGAAAATCAAAA
ACTTCTAAAAACATCTAAACTATCCATAATATGATCAAGAATCAACCAAGAATCACTAAGAAACT
TCAAGAATCTTCAAGAATTTCCAAGAATCATTATTTTCTTCAAGAAAACCTACAAAACAAAAAAT
TCAACACTTTAAGAGTAAAAATAACTTTATTTTACTAAGAATCAAGCAAAAATCAACCTTTAAAA
CACTAGAAATAACTCTATAAAATAAAGTTATCAAACCCCCAAACTTAAACTTTTACTTGTCCTCA
AGCAAAAAATAAAAATAACTAAATACATGCTAGAGATCAAAATAAACACTCCCAATATGAAATTC
TTATGAATCTTAAAAAATTGCATGATAAGTATATCTAGAAAGAAAATCAAGAACATAGATCCCAC
ACAAAAATCATTCAAGAATAAGCTTGCATTCCAATCACAAATTTTCATGTGTGTGTGAATCATCT
TTCTTAAATCCATGCAAGATATTCAACTAAAGCTAAGCAAACATGAAATTAGAAAATCCTTTCAA
AGCATGCACAAATTTCATAAGTTTGCTTTTCACACACTCTCTCCACTAATATAGCC
Found at i:20606773 original size:300 final size:302
Alignment explanation
Indices: 20606305--20606858 Score: 740
Period size: 300 Copynumber: 1.8 Consensus size: 302
20606295 ATTTTGTCAA
* **
20606305 TAAAAGAGACTTTTACTAACGGATTTTTAATATTGCTAGAATATACCATACTTATACCAACACTT
1 TAAAAGAGACTTTTACTAACGAATTTTTAATACCGCTAGAATATACCATACTTATACCAACACTT
** * * *
20606370 TATTTAACCATAAGTATAAATAAATTTTTTTTGATGGTATATGACTATTCGTTACTATAAATATG
66 TATTTAACCATAAGTATAAATAAAACTTTTTGGATGGTATATGACTATTCGTCACTATAAATATA
* * *
20606435 TTATATACTGACGGTTATTAACATAATCATCGGTATAGGCTCAAAACAAAAAAACTATTGGC-TA
131 TTATATACTAACGGTTATTAACATAACCATCAGTATAGGCTCAAAACAAAAAAACTATTGGCTTA
** * * * *
20606499 TTAAAAATAAAAAAGGAATTATTGAAGGCATTTTTGGTCAAAAATACCTTCAATAATCCAAGAAA
196 CAAAAAATAAAAAAGG-ATTATTAAAGGCATTTTTGGCCAAAAACACCTGCAATAATCCAAGAAA
20606564 ATTTTTTTGTATGGATTATTTACTGACAGTCAAATTTCGTTAG
260 ATTTTTTTGTATGGATTATTTACTGACAGTCAAATTTCGTTAG
* * *
20606607 TAAAAGAGACTTTTACTAACGAATTTTTAATACCG-TCAGAATATACTATATTTATACCAATACT
1 TAAAAGAGACTTTTACTAACGAATTTTTAATACCGCT-AGAATATACCATACTTATACCAACACT
*** ** *
20606671 TTA-TTAAGTGTTGGTATAAA-AAAACTTTTTGGATGGTATATGACTA-TCTGTCAGTATAAATA
65 TTATTTAACCATAAGTATAAATAAAACTTTTTGGATGGTATATGACTATTC-GTCACTATAAATA
* * *
20606733 TATTATATACTAATGGTTATTAACTTAACCATCAGTATAGGCTCAAAACAAAAAACCTATTGGCT
129 TATTATATACTAACGGTTATTAACATAACCATCAGTATAGGCTCAAAACAAAAAAACTATTGGCT
** * **
20606798 TACAAAAAATTGAATAGGATTATTAAAGGTGTTTTTGGCCAAAAACACCTGCAATAATCCA
194 TACAAAAAATAAAAAAGGATTATTAAAGGCATTTTTGGCCAAAAACACCTGCAATAATCCA
20606859 TTCAAAAATT
Statistics
Matches: 215, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
299 2 0.01
300 128 0.60
301 26 0.12
302 59 0.27
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (302 bp):
TAAAAGAGACTTTTACTAACGAATTTTTAATACCGCTAGAATATACCATACTTATACCAACACTT
TATTTAACCATAAGTATAAATAAAACTTTTTGGATGGTATATGACTATTCGTCACTATAAATATA
TTATATACTAACGGTTATTAACATAACCATCAGTATAGGCTCAAAACAAAAAAACTATTGGCTTA
CAAAAAATAAAAAAGGATTATTAAAGGCATTTTTGGCCAAAAACACCTGCAATAATCCAAGAAAA
TTTTTTTGTATGGATTATTTACTGACAGTCAAATTTCGTTAG
Found at i:20607003 original size:64 final size:64
Alignment explanation
Indices: 20606902--20607269 Score: 329
Period size: 64 Copynumber: 5.8 Consensus size: 64
20606892 ATTTTTGGCC
** * * *
20606902 ATTGAAGGCATTTTTGGTCGTAAAA-GCCTTCAATAATCCCT-ATCCAAAATTTTTTGAATGGAT
1 ATTGAAGGCATTTTTGG-CCAAAAATACCTTCAATAATCCCTCAT-AAAAATTTTTTGAAGGGAT
20606965 T
64 T
* * * *
20606966 ATTGAAGGCATTTTTGGCGAAAAACACCTTCAATAATCCTTCATAAAAATTTATT-AAGGGGATT
1 ATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCCTCATAAAAATTTTTTGAA-GGGATT
* * * * * ** * * * *
20607030 ATTGCAGGCATTTTTGACCTAAAATACCTTAAATATTCCCCTTGTAAAAA-GTTATGATGGGTTT
1 ATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAAT-CCCTCATAAAAATTTTTTGAAGGGATT
* ** * * * *
20607094 ATTAAAGGTGTTTTTGGGCAAAAATATCTTCAATAATCTCTAATAAAAA--TTTTGAAAGGGATT
1 ATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCCTCATAAAAATTTTTTG-AAGGGATT
* * *
20607157 ATT-ATAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTCATAAAAATTTATTGAGGGGATT
1 ATTGA-AGGCATTTTTGGCCAAAAATACCTTCAATAATCCCTCATAAAAATTTTTTGAAGGGATT
* *
20607221 ATTGAAGGCATTTTAGGCCAAAAACACCTTCAATAATCCC-CTATAAAAA
1 ATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCCTC-ATAAAAA
20607270 GTTGAGGGAA
Statistics
Matches: 244, Mismatches: 49, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
62 5 0.02
63 64 0.26
64 158 0.65
65 17 0.07
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (64 bp):
ATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCCTCATAAAAATTTTTTGAAGGGATT
Found at i:20607267 original size:127 final size:127
Alignment explanation
Indices: 20606907--20607269 Score: 383
Period size: 127 Copynumber: 2.8 Consensus size: 127
20606897 TGGCCATTGA
* * * *
20606907 AGGCATTTTTGGTCGTAAAA-GCCTTCAATAATCCCTATCCAAAATTTTTTGAATGGATTATTGA
1 AGGCATTTTTGG-CCTAAAATGCCTTCAATAATCCCTAT-AAAAATTTATTGAAGGGATTATTGA
* * * * * *
20606971 AGGCATTTTTGGCGAAAAACACCTTCAATAATCCTTCATAAAAATTTATTAAGGGGATTATTGC
64 AGGCATTTTTGGCCAAAAACACCTTCAATAATCCCTAATAAAAATTTATGAAAGGGATTATTAC
* * * * * * * * *
20607035 AGGCATTTTTGACCTAAAATACCTTAAATATTCCCCTTGTAAAAAGTTA-TGATGGGTTTATTAA
1 AGGCATTTTTGGCCTAAAATGCCTTCAATAAT-CCC-TATAAAAATTTATTGAAGGGATTATTGA
** * * * * *
20607099 AGGTGTTTTTGGGCAAAAATATCTTCAATAATCTCTAATAAAAATTT-TGAAAGGGATTATTAT
64 AGGCATTTTTGGCCAAAAACACCTTCAATAATCCCTAATAAAAATTTATGAAAGGGATTATTAC
* *
20607162 AGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTCATAAAAATTTATTGAGGGGATTATTGAA
1 AGGCATTTTTGGCCTAAAATGCCTTCAATAATCCCT-ATAAAAATTTATTGAAGGGATTATTGAA
*
20607227 GGCATTTTAGGCCAAAAACACCTTCAATAATCCCCT-ATAAAAA
65 GGCATTTTTGGCCAAAAACACCTTCAATAAT-CCCTAATAAAAA
20607270 GTTGAGGGAA
Statistics
Matches: 186, Mismatches: 43, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
125 1 0.01
126 12 0.06
127 90 0.48
128 72 0.39
129 9 0.05
130 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (127 bp):
AGGCATTTTTGGCCTAAAATGCCTTCAATAATCCCTATAAAAATTTATTGAAGGGATTATTGAAG
GCATTTTTGGCCAAAAACACCTTCAATAATCCCTAATAAAAATTTATGAAAGGGATTATTAC
Found at i:20608379 original size:24 final size:24
Alignment explanation
Indices: 20608339--20608387 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
20608329 AAACTATAGC
* *
20608339 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
20608362 ATATTAATAATTAAAAATATAATTA
1 ATATT-ATAATTAAAAATATAATTA
20608387 A
1 A
20608388 AATTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 11 0.50
25 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:20613404 original size:18 final size:18
Alignment explanation
Indices: 20613381--20613441 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
20613371 TGAGGATGAC
*
20613381 ACATTTGTGGT-AGGAGAT
1 ACATTTGTGGTAAAG-GAT
*
20613399 ACATTTATGGTAAAGGAT
1 ACATTTGTGGTAAAGGAT
*
20613417 ACATTTGAGGTAAAGGAT
1 ACATTTGTGGTAAAGGAT
20613435 ACATTTG
1 ACATTTG
20613442 AGGCAGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
18 36 0.95
19 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (18 bp):
ACATTTGTGGTAAAGGAT
Found at i:20613442 original size:18 final size:18
Alignment explanation
Indices: 20613396--20613444 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
20613386 TGTGGTAGGA
20613396 GATACATTT-ATGGTAAAG
1 GATACATTTGA-GGTAAAG
20613414 GATACATTTGAGGTAAAG
1 GATACATTTGAGGTAAAG
20613432 GATACATTTGAGG
1 GATACATTTGAGG
20613445 CAGAAAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 29 0.97
19 1 0.03
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (18 bp):
GATACATTTGAGGTAAAG
Found at i:20613454 original size:18 final size:18
Alignment explanation
Indices: 20613397--20613458 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
20613387 GTGGTAGGAG
* *
20613397 ATACATTT-ATGGTAAAGG
1 ATACATTTGA-GGCAAAGA
* *
20613415 ATACATTTGAGGTAAAGG
1 ATACATTTGAGGCAAAGA
20613433 ATACATTTGAGGCAGAA-A
1 ATACATTTGAGGCA-AAGA
20613451 ATACATTT
1 ATACATTT
20613459 ATGGTGGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 37 0.93
19 3 0.08
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (18 bp):
ATACATTTGAGGCAAAGA
Found at i:20619760 original size:15 final size:15
Alignment explanation
Indices: 20619742--20619785 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
20619732 GATTTTCATA
20619742 AAAAAGAAAATAAAT
1 AAAAAGAAAATAAAT
*
20619757 AAAAATAAAAT-AAT
1 AAAAAGAAAATAAAT
*
20619771 AAAATGATAAATAAA
1 AAAAAGA-AAATAAA
20619786 AAATGATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.33
15 14 0.58
16 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
AAAAAGAAAATAAAT
Found at i:20619788 original size:14 final size:14
Alignment explanation
Indices: 20619751--20619807 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
20619741 AAAAAAGAAA
20619751 ATAAAT-AAAAAT-
1 ATAAATAAAAAATG
20619763 A-AAATAATAAAATG
1 ATAAATAA-AAAATG
20619777 ATAAATAAAAAATG
1 ATAAATAAAAAATG
*
20619791 ATGAAAGAAAAAATG
1 AT-AAATAAAAAATG
20619806 AT
1 AT
20619808 TCTTTTTTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
11 4 0.10
12 2 0.05
13 5 0.13
14 9 0.23
15 19 0.49
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (14 bp):
ATAAATAAAAAATG
Found at i:20620864 original size:111 final size:110
Alignment explanation
Indices: 20620661--20620866 Score: 351
Period size: 111 Copynumber: 1.9 Consensus size: 110
20620651 AAATGATAGA
20620661 TTTTAGTTATGGACAAATGTTGGTCTAGTGCCTTAATGGTTTTTTTTTTTTGTTTCTTATTTTTG
1 TTTTAGTTATGGACAAATGTTGGTCTAGTGCCTTAATGGTTTTTTTTTTTTGTTTCTTATTTTTG
*
20620726 CCCTTTAAATAACATGATAAATGCAAAAATGGTACAAATGGTTGG
66 CCCCTTAAATAACATGATAAATGCAAAAATGGTACAAATGGTTGG
* *
20620771 TTTTAGTTGTGGACAAATGTTGGTCTAGTGGCC-TAATTGTTTTTTTTTTTTTGTTTCTTATTTT
1 TTTTAGTTATGGACAAATGTTGGTCTAGT-GCCTTAA-TGGTTTTTTTTTTTTGTTTCTTATTTT
*
20620835 TTCCCCTTAAATAACATGATAAATGCAAAAAT
64 TGCCCCTTAAATAACATGATAAATGCAAAAAT
20620867 ATCCTTAGAT
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
110 31 0.34
111 59 0.66
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.47
Consensus pattern (110 bp):
TTTTAGTTATGGACAAATGTTGGTCTAGTGCCTTAATGGTTTTTTTTTTTTGTTTCTTATTTTTG
CCCCTTAAATAACATGATAAATGCAAAAATGGTACAAATGGTTGG
Found at i:20623408 original size:12 final size:12
Alignment explanation
Indices: 20623391--20623415 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20623381 TTCAATAGGT
20623391 TATTTGTAAGAA
1 TATTTGTAAGAA
20623403 TATTTGTAAGAA
1 TATTTGTAAGAA
20623415 T
1 T
20623416 TAACCTATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TATTTGTAAGAA
Found at i:20660381 original size:16 final size:16
Alignment explanation
Indices: 20660360--20660401 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
20660350 AAAGAACTAA
**
20660360 AATATTTTTTAAATTT
1 AATATTTTTTAAAAAT
20660376 AATA-TTTTTAAAAAT
1 AATATTTTTTAAAAAT
20660391 -ATATTTTTTAA
1 AATATTTTTTAA
20660402 TTTTCAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 3 0.13
15 16 0.70
16 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATATTTTTTAAAAAT
Found at i:20667075 original size:22 final size:22
Alignment explanation
Indices: 20667047--20667089 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20667037 AATCCATTAG
* *
20667047 CACCAAATTGCCTAACCCTACC
1 CACCAAACTACCTAACCCTACC
*
20667069 CACCAAACTACCTAATCCTAC
1 CACCAAACTACCTAACCCTAC
20667090 TACCACTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.44, G:0.02, T:0.19
Consensus pattern (22 bp):
CACCAAACTACCTAACCCTACC
Found at i:20667576 original size:15 final size:15
Alignment explanation
Indices: 20667556--20667586 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20667546 GCCTCATTCA
20667556 CTTTTTTAGCCAAGC
1 CTTTTTTAGCCAAGC
20667571 CTTTTTTAGCCAAGC
1 CTTTTTTAGCCAAGC
20667586 C
1 C
20667587 GAGCTAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (15 bp):
CTTTTTTAGCCAAGC
Found at i:20668034 original size:58 final size:58
Alignment explanation
Indices: 20667890--20668092 Score: 192
Period size: 58 Copynumber: 3.4 Consensus size: 58
20667880 ATTTTTAAAG
* * * * * * *
20667890 AAAAGTTGAAAGTATCATTTTTCTTAAAAATGAAAATTTTCAGAAAAATGTTTTTTTTTTAGGA
1 AAAAGTTGAAAATATCAATTTTCTTGAAAAT-AAAAATTTCA-AAAAA---TATTTTTTGA-CA
* * * * *
20667954 AAAA-TTGAAAGTATCAATTTTTCTTGAAGATAAAATTTTTAAAAGATATTTTTTGACA
1 AAAAGTTGAAAATATCAA-TTTTCTTGAAAATAAAAATTTCAAAAAATATTTTTTGACA
* * *
20668012 AAAAGTTTAAAATATCAATTTTCTTGAAAATAAAAATTTCAAAAAATGTTTTTTGAGA
1 AAAAGTTGAAAATATCAATTTTCTTGAAAATAAAAATTTCAAAAAATATTTTTTGACA
*
20668070 AAAAGTTGAAAGTATCAATTTTC
1 AAAAGTTGAAAATATCAATTTTC
20668093 CTTAAATAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
58 60 0.50
59 19 0.16
62 4 0.03
63 21 0.18
64 15 0.13
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (58 bp):
AAAAGTTGAAAATATCAATTTTCTTGAAAATAAAAATTTCAAAAAATATTTTTTGACA
Done.