Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 24 of 292
Found at i:6160132 original size:619 final size:621
Alignment explanation
Indices: 6158728--6160728 Score: 3625
Period size: 619 Copynumber: 3.2 Consensus size: 621
6158718 CAAATTCTAC
* * * ** *
6158728 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCA
1 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
6158793 ATTTCTGTTTTTCAATTTCTGTTCATCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 ATTTCTG----------TCT-TTCA--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
6158858 CTCAGGACACGTTAAGGTAATTTTAATTTCTGTTCATC-AAAAAATCAACTCATATTGCGAGAGG
118 CTCAGGACACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAGG
6158922 TGAGTTGAGTCTCAGCTCACGCGCTGAGGTA-TTTCTAATTTCTGTTTTTCAATTTCTGTTCGTC
183 TGAGTTGAGTCTCAGCTCACGCGCTGAGGTATTTTC-AATTTCTGTTTTTCAATTTCTGTTCGTC
6158986 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCT
247 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCT
6159051 GTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTA
312 GTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTA
6159116 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
377 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
6159181 GCCTCAAGACACGTTGAGGTAATTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGT
442 GCCTCAAGACACGTTGAGGTAA--TTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGT
*
6159246 GAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTATTTTCAAAATTCAACTCATATTGC
505 GAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGC
6159311 GAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTT
570 GAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTT
6159363 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
1 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
*
6159428 ATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGTT
66 ATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTT
*
6159493 GAGGTAATTTTAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGTCTC
131 GAGGTAATTTTAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC
*
6159558 AGCTCACGCGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTAATA
196 AGCTCACGCGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATA
6159623 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAA
261 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAA
6159688 TCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAATTTCTGT
326 TCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAATTTCTGT
6159753 TTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
391 TTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
*
6159818 TGAGGTAA-T-ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGA
456 TGAGGTAATTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
6159881 CACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
521 CACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
6159946 CTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTT
586 CTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTT
6159982 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
1 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
6160047 ATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTT
66 ATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTT
6160112 GAGGTAATTTTAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC
131 GAGGTAATTTTAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC
* *
6160177 AGCTCACGCGCTGAGGTATTTTCAATTTCTATTTTTCAATTTCTGTTCGTTAAAATCAACTCATA
196 AGCTCACGCGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATA
6160242 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAA
261 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAA
6160307 TCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAATTTCTGT
326 TCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAATTTCTGT
6160372 TTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
391 TTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
6160437 TGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
456 TGAGGTAA-TT-AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
6160502 GACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGA
519 GACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGA
6160567 GCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTT
584 GCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTT
6160605 C-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
1 CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
* *
6160669 ATTTCTGTCTTTCAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCTTCAG
66 ATTTCTGTCTTTC---AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
6160729 ATCACACACT
Statistics
Matches: 1336, Mismatches: 21, Indels: 28
0.96 0.02 0.02
Matches are distributed among these distances:
619 611 0.46
620 1 0.00
621 1 0.00
622 150 0.11
623 454 0.34
624 8 0.01
625 45 0.03
635 66 0.05
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (621 bp):
CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTCTCA
ATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTT
GAGGTAATTTTAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC
AGCTCACGCGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATA
TTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAA
TCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAATTTCTGT
TTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
TGAGGTAATTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
CACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
CTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTT
Found at i:6160377 original size:14 final size:14
Alignment explanation
Indices: 6160358--6160386 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6160348 CGCTGAGGTA
6160358 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6160372 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
6160386 T
1 T
6160387 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:6161121 original size:44 final size:44
Alignment explanation
Indices: 6161038--6161136 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
6161028 TGAAGCTGTT
** *
6161038 AATCTTATATTTTTGAAGTCACAGTAAAGCAGATCGAAGCTACA
1 AATCTTATATCCTTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* * ** *
6161082 AATCTTATATCCTTGAAGTTACATTAAAGTGGATTGAAGCCACA
1 AATCTTATATCCTTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* *
6161126 AAGCATATATC
1 AATCTTATATC
6161137 AGAAGATGCA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (44 bp):
AATCTTATATCCTTGAAGTCACAGTAAAGCAGATCGAAGCCACA
Found at i:6161487 original size:35 final size:35
Alignment explanation
Indices: 6161448--6161518 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
6161438 CACTTGCCTC
*
6161448 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
6161483 TTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
6161518 T
1 T
6161519 CACACACTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.25
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:6161919 original size:12 final size:12
Alignment explanation
Indices: 6161898--6161940 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
6161888 TTAAAACATA
6161898 AAAAAAATATAC
1 AAAAAAATATAC
*
6161910 AAAAAGATATAC
1 AAAAAAATATAC
6161922 AAAAAAATATAC
1 AAAAAAATATAC
6161934 AAAAAAA
1 AAAAAAA
6161941 AAATTTACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAAAATATAC
Found at i:6162070 original size:11 final size:11
Alignment explanation
Indices: 6162037--6162070 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6162027 CGAATTCCCC
6162037 TCCCT-TCTCT
1 TCCCTCTCTCT
6162047 CTCCCTCTCTCT
1 -TCCCTCTCTCT
6162059 TCCCTCTCTCT
1 TCCCTCTCTCT
6162070 T
1 T
6162071 TTTTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
TCCCTCTCTCT
Found at i:6162554 original size:3 final size:3
Alignment explanation
Indices: 6162546--6162582 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6162536 TGCATTTCAA
6162546 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6162583 GAAATACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6162693 original size:3 final size:3
Alignment explanation
Indices: 6162685--6162732 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
6162675 TTGTGTTTCA
6162685 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6162733 ATATCCTTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6163006 original size:33 final size:30
Alignment explanation
Indices: 6162948--6163018 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
6162938 TAATATTATG
*
6162948 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
*
6162978 CTATATGATTTCTAATACTATTA-TT-TATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
6163009 TATATATTTT
1 TATATATTTT
6163019 CTTAGTACCA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 1 0.03
29 4 0.11
30 5 0.14
31 11 0.31
32 6 0.17
33 9 0.25
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.55
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:6168134 original size:26 final size:26
Alignment explanation
Indices: 6168097--6168154 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
6168087 TGATACAAAT
6168097 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
6168123 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
6168149 TGATAA
1 TGATAA
6168155 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:6171664 original size:14 final size:15
Alignment explanation
Indices: 6171640--6171668 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6171630 TTTTAAGCTA
6171640 AGAATAAAGAACAAT
1 AGAATAAAGAACAAT
6171655 AGAA-AAAGAACAAT
1 AGAATAAAGAACAAT
6171669 GGACACATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.14, T:0.10
Consensus pattern (15 bp):
AGAATAAAGAACAAT
Found at i:6185448 original size:11 final size:11
Alignment explanation
Indices: 6185432--6185460 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6185422 CAAAAACATA
6185432 AAAATCGAGCT
1 AAAATCGAGCT
6185443 AAAATCGAGCT
1 AAAATCGAGCT
6185454 AAAATCG
1 AAAATCG
6185461 TACCTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (11 bp):
AAAATCGAGCT
Found at i:6187919 original size:10 final size:10
Alignment explanation
Indices: 6187900--6187959 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
6187890 TGAAATTCTA
6187900 AAAGATAAAT
1 AAAGATAAAT
6187910 ACAA-ATAAAT
1 A-AAGATAAAT
*
6187920 AAAGATAATT
1 AAAGATAAAT
6187930 AAAGATAAAT
1 AAAGATAAAT
6187940 AAAGATAAAT
1 AAAGATAAAT
6187950 GAAA-ATAAAT
1 -AAAGATAAAT
6187960 TCTTAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:6199803 original size:76 final size:75
Alignment explanation
Indices: 6199720--6199951 Score: 288
Period size: 76 Copynumber: 3.1 Consensus size: 75
6199710 GAGTAATTGC
* * *
6199720 CGATATTAATTGTGTTG-CCAGCACCAGTCAAATAAATAGATAAAGATTTGCACCCAGTGCTAGT
1 CGATATTAATTGTG-TGACCAGCACTAGTCAAATAAATCGACAAAGATTTGCACCCAGTGCTAGT
6199784 TGGATAAATCGA
65 TGGATAAA-CGA
* * * * *
6199796 CGATATTAATTGTATGCCCAGCACTAGTCGAATAAATCGACAAAGATTTGCCCCCAGTGCTAGTC
1 CGATATTAATTGTGTGACCAGCACTAGTCAAATAAATCGACAAAGATTTGCACCCAGTGCTAGTT
*
6199861 AGATAAACTGA
66 GGATAAAC-GA
* * * *
6199872 CGATATTAAGTGTGTGACCATCACTAGTCAAATAAATCGACAAAGATTTG-AGCTCAGCGCTAGT
1 CGATATTAATTGTGTGACCAGCACTAGTCAAATAAATCGACAAAGATTTGCA-CCCAGTGCTAGT
6199936 TGGATAAACCGA
65 TGGATAAA-CGA
6199948 CGAT
1 CGAT
6199952 CGCATATGTA
Statistics
Matches: 134, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
75 3 0.02
76 130 0.97
77 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (75 bp):
CGATATTAATTGTGTGACCAGCACTAGTCAAATAAATCGACAAAGATTTGCACCCAGTGCTAGTT
GGATAAACGA
Found at i:6199859 original size:152 final size:152
Alignment explanation
Indices: 6199669--6199951 Score: 383
Period size: 152 Copynumber: 1.9 Consensus size: 152
6199659 TGCCCTGCAA
** * * *
6199669 AGTCGAATAAATCAACAAAAATTTGTGCCCAATGCTAGTCAGAGT-AATTGCCGATATTAATTGT
1 AGTCGAATAAATCAACAAAAATTTGCCCCCAATGCTAGTCAGA-TAAACTGACGATATTAAGTGT
* * *
6199733 GTTG-CCAGCACCAGTCAAATAAATAGATAAAGATTTGCA-CCCAGTGCTAGTTGGATAAATCGA
65 G-TGACCAGCACCAGTCAAATAAATAGACAAAGATTTG-AGCCCAGCGCTAGTTGGATAAACCGA
6199796 CGATATTAATTGTATGCCCAGCACT
128 CGATATTAATTGTATGCCCAGCACT
* * *
6199821 AGTCGAATAAATCGACAAAGATTTGCCCCCAGTGCTAGTCAGATAAACTGACGATATTAAGTGTG
1 AGTCGAATAAATCAACAAAAATTTGCCCCCAATGCTAGTCAGATAAACTGACGATATTAAGTGTG
* * * *
6199886 TGACCATCACTAGTCAAATAAATCGACAAAGATTTGAGCTCAGCGCTAGTTGGATAAACCGACGA
66 TGACCAGCACCAGTCAAATAAATAGACAAAGATTTGAGCCCAGCGCTAGTTGGATAAACCGACGA
6199951 T
131 T
6199952 CGCATATGTA
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
151 4 0.04
152 109 0.96
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (152 bp):
AGTCGAATAAATCAACAAAAATTTGCCCCCAATGCTAGTCAGATAAACTGACGATATTAAGTGTG
TGACCAGCACCAGTCAAATAAATAGACAAAGATTTGAGCCCAGCGCTAGTTGGATAAACCGACGA
TATTAATTGTATGCCCAGCACT
Found at i:6203985 original size:144 final size:144
Alignment explanation
Indices: 6203748--6204172 Score: 629
Period size: 144 Copynumber: 3.0 Consensus size: 144
6203738 CTTATTGGAG
* * * * * *
6203748 GATAGATCCAGTGTAACCAAA-TTCGTTAGCCTACCAATGTCTTGTGGAATGGATCCATTAAGTT
1 GATAGAGCCAATGTAATCAAATTTC-TTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTT
* ** * ** *
6203812 GGTTGTGC-TGAAGGAGCAACGACCCTAGATTGGTTACATTGCTGATAGAAGATGGGATTGGACC
65 GGTTG-CCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACC
6203876 AACAAGCATATTAAAC
129 AACAAGCATATTAAAC
*
6203892 GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGTTCCATTAAGTTG
1 GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
* *
6203957 GTTGCCTTGAAGGAGCAACGATTGTAGATTAGTTAGGTTGGTAATAGAAGATGGGATTGGACCAA
66 GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
*
6204022 CAAGCATATTAGAC
131 CAAGCATATTAAAC
* * * *
6204036 GATAGAGCCAATGTAATCAAATTTGTCAATCTCCCAATTTCTCGTGGAATGGATCCATTAAGTTG
1 GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
6204101 GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
66 GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
6204166 CAAGCAT
131 CAAGCAT
6204173 GTTGCTTGAG
Statistics
Matches: 255, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
143 1 0.00
144 251 0.98
145 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (144 bp):
GATAGAGCCAATGTAATCAAATTTCTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
GTTGCCTTGAAGGAGCAACGACTGTAGATTAGTTAGGTTGGTGATAGAAGATGGGATTGGACCAA
CAAGCATATTAAAC
Found at i:6207760 original size:55 final size:55
Alignment explanation
Indices: 6207669--6207789 Score: 172
Period size: 55 Copynumber: 2.2 Consensus size: 55
6207659 TTGCTAAAAT
* * *
6207669 ATAATATCCTATAATATCCCTTCAGGAATCAAATTGCTAAGAGATAGTATCCACA
1 ATAATATCCTATAATATCCATTCAGGAATCAAATTGCTAAAAGATAATATCCACA
* * *
6207724 ATAGTATCCTATAATATCTCATT-AGGAATCAGATTGCTAAAAGATAATATCCATA
1 ATAATATCCTATAATATC-CATTCAGGAATCAAATTGCTAAAAGATAATATCCACA
6207779 ATAATATCCTA
1 ATAATATCCTA
6207790 ACAGACTTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 55 0.95
56 3 0.05
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (55 bp):
ATAATATCCTATAATATCCATTCAGGAATCAAATTGCTAAAAGATAATATCCACA
Found at i:6208460 original size:2 final size:2
Alignment explanation
Indices: 6208453--6208479 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6208443 GTGCTAGTTT
6208453 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
6208480 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6213661 original size:9 final size:9
Alignment explanation
Indices: 6213647--6213683 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
6213637 TGCGTTGACA
6213647 TTCTTTTCT
1 TTCTTTTCT
6213656 TTC-TTTCT
1 TTCTTTTCT
*
6213664 TTATTTTCT
1 TTCTTTTCT
6213673 TTCTTTTCT
1 TTCTTTTCT
6213682 TT
1 TT
6213684 TGATTAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTTTCT
Found at i:6213665 original size:13 final size:13
Alignment explanation
Indices: 6213647--6213683 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
6213637 TGCGTTGACA
6213647 TTCTTTTCTTTCT
1 TTCTTTTCTTTCT
6213660 TTCTTTAT-TTTCT
1 TTCTTT-TCTTTCT
6213673 TTCTTTTCTTT
1 TTCTTTTCTTT
6213684 TGATTAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTTCTTTCT
Found at i:6214321 original size:16 final size:16
Alignment explanation
Indices: 6214286--6214326 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
6214276 GACGTTCCTC
*
6214286 TTCTTCTTTCTTTTTA
1 TTCTTCTTTATTTTTA
6214302 TTCTTCTTTATTATTT-
1 TTCTTCTTTATT-TTTA
6214318 TTC-TCTTTA
1 TTCTTCTTTA
6214327 AAAAAAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 14 0.61
17 3 0.13
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTTCTTTATTTTTA
Found at i:6215381 original size:48 final size:48
Alignment explanation
Indices: 6215327--6215423 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
6215317 GCGTGTCTGC
* * *
6215327 TTCCATTTGATTGTCCGTTGACGTGTACAATATTTCTGTGGATTTGTA
1 TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
6215375 TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
1 TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
6215423 T
1 T
6215424 GCATACATAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.46
Consensus pattern (48 bp):
TTCCATTTGATTATCCATTGACATGTACAATATTTCTGTGGATTTGTA
Found at i:6223686 original size:18 final size:19
Alignment explanation
Indices: 6223671--6223706 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6223661 AGAAAAAGAG
6223671 GAAAAA-TGCAAAAAAGTA
1 GAAAAAGTGCAAAAAAGTA
6223689 GAAAAAGTGCAAAAAAGT
1 GAAAAAGTGCAAAAAAGT
6223707 GGGATTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.64, C:0.06, G:0.19, T:0.11
Consensus pattern (19 bp):
GAAAAAGTGCAAAAAAGTA
Found at i:6223694 original size:19 final size:19
Alignment explanation
Indices: 6223663--6223706 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
6223653 ATTGCTGAAG
*
6223663 AAAAAG-AGGAAAAATGCA
1 AAAAAGTAGAAAAAATGCA
*
6223681 AAAAAGTAGAAAAAGTGCA
1 AAAAAGTAGAAAAAATGCA
6223700 AAAAAGT
1 AAAAAGT
6223707 GGGATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.66, C:0.05, G:0.20, T:0.09
Consensus pattern (19 bp):
AAAAAGTAGAAAAAATGCA
Found at i:6224674 original size:2 final size:2
Alignment explanation
Indices: 6224667--6224695 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6224657 TATTTAGCAC
6224667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6224696 GAATTAGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6225152 original size:24 final size:24
Alignment explanation
Indices: 6225123--6225170 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
6225113 ATTAAATATA
6225123 TATTTA-AAAATTATAAAAATAAAT
1 TATTTAGAAAATTA-AAAAATAAAT
*
6225147 TATTTAGTAAACTTAAAAAATAAA
1 TATTTAG-AAAATTAAAAAATAAA
6225171 CAAGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 9 0.43
26 6 0.29
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
TATTTAGAAAATTAAAAAATAAAT
Found at i:6225939 original size:3 final size:3
Alignment explanation
Indices: 6225865--6225929 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
6225855 CATTAAAAAA
* *
6225865 ATT ATG ATT ATG ATT ATT -TT -TT ATGT -TT AATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -ATT ATT ATT ATT ATT
6225909 ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
6225930 TGATATTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 46 0.85
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6244897 original size:18 final size:18
Alignment explanation
Indices: 6244871--6244910 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6244861 AATTAGAAAC
* **
6244871 AAAATTATAAAATCATAA
1 AAAAATATAAAAAAATAA
6244889 AAAAATATAAAAAAATAA
1 AAAAATATAAAAAAATAA
6244907 AAAA
1 AAAA
6244911 TCAATATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATATAAAAAAATAA
Found at i:6244937 original size:13 final size:13
Alignment explanation
Indices: 6244919--6244947 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6244909 AATCAATATT
6244919 TTAAAATTATAAA
1 TTAAAATTATAAA
6244932 TTAAAATTATAAA
1 TTAAAATTATAAA
6244945 TTA
1 TTA
6244948 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAAATTATAAA
Found at i:6244940 original size:6 final size:7
Alignment explanation
Indices: 6244922--6244951 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
6244912 CAATATTTTA
6244922 AAATTAT
1 AAATTAT
6244929 AAATTA-
1 AAATTAT
6244935 AAATTAT
1 AAATTAT
6244942 AAATTAT
1 AAATTAT
6244949 AAA
1 AAA
6244952 AATTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
AAATTAT
Found at i:6249099 original size:13 final size:13
Alignment explanation
Indices: 6249078--6249133 Score: 85
Period size: 13 Copynumber: 4.3 Consensus size: 13
6249068 TGACGAGATA
*
6249078 CAAATGTGCAAAC
1 CAAAAGTGCAAAC
6249091 CAAAAGTGCAAAC
1 CAAAAGTGCAAAC
6249104 CAAAAGTGCAAAC
1 CAAAAGTGCAAAC
* *
6249117 CAAAAATGTAAAC
1 CAAAAGTGCAAAC
6249130 CAAA
1 CAAA
6249134 GTGATGGACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.55, C:0.21, G:0.12, T:0.11
Consensus pattern (13 bp):
CAAAAGTGCAAAC
Found at i:6249324 original size:28 final size:28
Alignment explanation
Indices: 6249292--6249347 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
6249282 GCAAGTTGTC
*
6249292 AACTTGTTAGAAAAAGTTGTCAAATTAT
1 AACTTGCTAGAAAAAGTTGTCAAATTAT
6249320 AACTTGCTAGAAAAAGTTGTCAAATTAT
1 AACTTGCTAGAAAAAGTTGTCAAATTAT
6249348 TTATCTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (28 bp):
AACTTGCTAGAAAAAGTTGTCAAATTAT
Found at i:6250538 original size:2 final size:2
Alignment explanation
Indices: 6250533--6250563 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6250523 AGAGAGGGCT
6250533 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
6250564 CTTTTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6251015 original size:3 final size:3
Alignment explanation
Indices: 6251007--6251068 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
6250997 CTTTATTAAA
* * * *
6251007 TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT AAA TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
6251052 TAT TAT T-T TAT ATAT TA
1 TAT TAT TAT TAT -TAT TA
6251069 GTGTATGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 3 0.06
3 41 0.87
4 3 0.06
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:6251033 original size:18 final size:17
Alignment explanation
Indices: 6251010--6251068 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 17
6251000 TATTAAATAT
6251010 TATTATTATTATTTCTAA
1 TATTATTATTATTT-TAA
* *
6251028 TATTATTAATATTATAAA
1 TATTATTATTATT-TTAA
6251046 TATTATTATTATTTTATA
1 TATTATTATTATTTTA-A
6251064 TATTA
1 TATTA
6251069 GTGTATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.06
18 32 0.91
19 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTATTATTTTAA
Found at i:6251180 original size:12 final size:12
Alignment explanation
Indices: 6251147--6251273 Score: 65
Period size: 12 Copynumber: 10.7 Consensus size: 12
6251137 TTTCATATTG
6251147 TTATTATTAGTAT
1 TTATTATTA-TAT
*
6251160 TATAATATTATAT
1 T-TATTATTATAT
6251173 TTATTATTAATAT
1 TTATTATT-ATAT
6251186 TGGTA-TA-TAT-T
1 T--TATTATTATAT
6251197 TTATTA-TATAT
1 TTATTATTATAT
* *
6251208 GTA-TATATACACT
1 TTATTAT-TATA-T
6251221 TT-TTA-TATA-
1 TTATTATTATAT
* *
6251230 GTATTATCAT-T
1 TTATTATTATAT
6251241 TCTATTATTATAT
1 T-TATTATTATAT
*
6251254 TTATTATTATGT
1 TTATTATTATAT
6251266 TTATTATT
1 TTATTATT
6251274 TTCACTATTA
Statistics
Matches: 88, Mismatches: 11, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
9 3 0.03
10 10 0.11
11 10 0.11
12 37 0.42
13 17 0.19
14 9 0.10
15 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (12 bp):
TTATTATTATAT
Found at i:6251193 original size:26 final size:24
Alignment explanation
Indices: 6251141--6251203 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
6251131 TTTTAATTTC
*
6251141 ATATTGTTATTATTAGTATTATAAT
1 ATATT-TTATTATTAATATTATAAT
*
6251166 ATTATATTTATTATTAATATTGGT-AT
1 A-TAT-TTTATTATTAATATT-ATAAT
6251192 ATATTTTATTAT
1 ATATTTTATTAT
6251204 ATATGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 8 0.24
25 4 0.12
26 19 0.58
27 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (24 bp):
ATATTTTATTATTAATATTATAAT
Found at i:6251211 original size:20 final size:21
Alignment explanation
Indices: 6251151--6251263 Score: 66
Period size: 20 Copynumber: 5.6 Consensus size: 21
6251141 ATATTGTTAT
*
6251151 TATTAGTATTATAATAT-TATA
1 TATTATTATTAT-ATATGTATA
6251172 T-TTATTATTA-ATATTGGTATA
1 TATTATTATTATATA-T-GTATA
6251193 TATT-TTATTATATATGTATA
1 TATTATTATTATATATGTATA
* *
6251213 TATACACTTTTTATATA-GTAT-
1 TAT-TA-TTATTATATATGTATA
*
6251234 TATCATT-TCTAT-TAT-TATA
1 TATTATTAT-TATATATGTATA
6251253 T-TTATTATTAT
1 TATTATTATTAT
6251264 GTTTATTATT
Statistics
Matches: 76, Mismatches: 4, Indels: 27
0.71 0.04 0.25
Matches are distributed among these distances:
18 16 0.21
19 8 0.11
20 18 0.24
21 16 0.21
22 9 0.12
23 9 0.12
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TATTATTATTATATATGTATA
Found at i:6251282 original size:21 final size:21
Alignment explanation
Indices: 6251245--6251284 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6251235 ATCATTTCTA
*
6251245 TTATTATATTTATTATTATGT
1 TTATTATATTTACTATTATGT
6251266 TTATTAT-TTTCACTATTAT
1 TTATTATATTT-ACTATTAT
6251285 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (21 bp):
TTATTATATTTACTATTATGT
Found at i:6251375 original size:30 final size:30
Alignment explanation
Indices: 6251332--6251393 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
6251322 TTTTAAATAC
* **
6251332 TTATTATGAATATATTATTTTCTTATTATA
1 TTATTACGAATATATTATTTTAATATTATA
* *
6251362 TTATTACGTATATATTTTTTTAATATTATA
1 TTATTACGAATATATTATTTTAATATTATA
6251392 TT
1 TT
6251394 TTTATATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (30 bp):
TTATTACGAATATATTATTTTAATATTATA
Found at i:6251402 original size:15 final size:15
Alignment explanation
Indices: 6251355--6251405 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
6251345 ATTATTTTCT
*
6251355 TATTATATTATTACGTA
1 TATTATATTTTTA--TA
*
6251372 TA-TATTTTTTTA-A
1 TATTATATTTTTATA
6251385 TATTATATTTTTATA
1 TATTATATTTTTATA
6251400 TATTAT
1 TATTAT
6251406 GCATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 3 0.10
14 9 0.31
15 7 0.24
16 8 0.28
17 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TATTATATTTTTATA
Found at i:6251462 original size:24 final size:23
Alignment explanation
Indices: 6251400--6251462 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
6251390 TATTTTTATA
*
6251400 TATTATGCATATATATATATATTT
1 TATTATGTATATAT-TATATATTT
* *
6251424 TAATATCCTAT-TATTCATATATTT
1 TATTAT-GTATATATT-ATATATTT
6251448 TATTATGTATATATT
1 TATTATGTATATATT
6251463 TTTAATAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
23 4 0.13
24 25 0.81
25 2 0.06
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTATGTATATATTATATATTT
Found at i:6251556 original size:20 final size:22
Alignment explanation
Indices: 6251499--6251557 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 22
6251489 TGTAACACTA
*
6251499 TATTATATACATACTTTTAATAT
1 TATTATGTACATA-TTTTAATAT
**
6251522 TATTATGTATTTATTTTAATA-
1 TATTATGTACATATTTTAATAT
6251543 TA-TATGTACATATTT
1 TATTATGTACATATTT
6251558 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 11 0.35
21 2 0.06
22 8 0.26
23 10 0.32
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (22 bp):
TATTATGTACATATTTTAATAT
Found at i:6251556 original size:24 final size:22
Alignment explanation
Indices: 6251513--6251559 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
6251503 ATATACATAC
**
6251513 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
6251535 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
6251559 T
1 T
6251560 GTAGTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 3 0.14
24 9 0.43
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:6255119 original size:72 final size:72
Alignment explanation
Indices: 6255040--6255196 Score: 199
Period size: 72 Copynumber: 2.2 Consensus size: 72
6255030 TTTGATTAAA
* *
6255040 GGATAAGTCCAACAATTCCAAATTGGTTAAGTT-GCCTAATGTAGAAGGGACAGGACCAATAATT
1 GGATAAGTCCAACAATTCCAAATTGGTTAAGTTGGCC-AAGGTAGAAGGGACAGGACCAAGAATT
*
6255104 TGGTTTTT
65 TGGTTATT
* * ** * * *
6255112 GGATAAGTTCAACATTTTTAAATTGGTTAAGTTGGCCAAGGTAGGAGGGATAGGACCACGAATTT
1 GGATAAGTCCAACAATTCCAAATTGGTTAAGTTGGCCAAGGTAGAAGGGACAGGACCAAGAATTT
6255177 GGTTATT
66 GGTTATT
*
6255184 GGATAGGTCCAAC
1 GGATAAGTCCAAC
6255197 TGTTTCAACC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 69 0.96
73 3 0.04
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (72 bp):
GGATAAGTCCAACAATTCCAAATTGGTTAAGTTGGCCAAGGTAGAAGGGACAGGACCAAGAATTT
GGTTATT
Found at i:6256212 original size:20 final size:20
Alignment explanation
Indices: 6256175--6256213 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6256165 ATTGTTTGCA
6256175 TTTTATTTTGTTTATTAAAC
1 TTTTATTTTGTTTATTAAAC
*
6256195 TTTTGATTTT-TTTTTTAAA
1 TTTT-ATTTTGTTTATTAAA
6256214 AATTTTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTTATTTTGTTTATTAAAC
Found at i:6256219 original size:21 final size:20
Alignment explanation
Indices: 6256174--6256221 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
6256164 TATTGTTTGC
6256174 ATTTTATTTTGTTTATTAAA
1 ATTTTATTTTGTTTATTAAA
* *
6256194 CTTTTGATTTT-TTTTTTAAAA
1 ATTTT-ATTTTGTTTATT-AAA
6256215 ATTTTAT
1 ATTTTAT
6256222 CACTAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
ATTTTATTTTGTTTATTAAA
Found at i:6266507 original size:47 final size:46
Alignment explanation
Indices: 6266438--6266612 Score: 217
Period size: 47 Copynumber: 3.7 Consensus size: 46
6266428 TGATAAGGTT
*
6266438 CTTCCGTATAAGACCATATCTGGGACATGACATCGGTATCATATGAG
1 CTTCCGTATAAGACCATATCTGGGATATGACATCGGTAT-ATATGAG
* *
6266485 CTTCCGTATAATACCATATCTGGGATATGGCATCGGTGATATATGAG
1 CTTCCGTATAAGACCATATCTGGGATATGACATCGGT-ATATATGAG
* * *
6266532 CTTTCGTATAAGACCATATCTGGGATAT-AGCATCGGTGTTATATGTG
1 CTTCCGTATAAGACCATATCTGGGATATGA-CATCGGT-ATATATGAG
** * *
6266579 CTTCTATGTAAGACCATATCTGGGATATGGCATC
1 CTTCCGTATAAGACCATATCTGGGATATGACATC
6266613 AATATGATAT
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
47 110 0.98
48 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (46 bp):
CTTCCGTATAAGACCATATCTGGGATATGACATCGGTATATATGAG
Found at i:6266582 original size:94 final size:99
Alignment explanation
Indices: 6266378--6266612 Score: 277
Period size: 94 Copynumber: 2.4 Consensus size: 99
6266368 AAAAGATGTG
* * *
6266378 ATATGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATAAGGTTCTTC
1 ATATGTGCTT-CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGATAAGG-TCTTC
6266442 CGTATAAGACCATATCTGGGACATGACATCGGTATC
64 CGTATAAGACCATATCTGGGACATGACATCGGTATC
* * * *
6266478 ATATGAGCTTCCGTATAATACCATATCTGGGATATGGCATC-G-GTGATAT-ATGA-G-CTTTCG
1 ATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGATAAGGTCTTCCG
* * *
6266538 TATAAGACCATATCTGGGATAT-AGCATCGGTGTT
66 TATAAGACCATATCTGGGACATGA-CATCGGTATC
** *
6266572 ATATGTGCTTCTATGTAAGACCATATCTGGGATATGGCATC
1 ATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATC
6266613 AATATGATAT
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
93 1 0.01
94 70 0.59
96 1 0.01
97 3 0.03
98 6 0.05
99 1 0.01
100 34 0.29
101 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (99 bp):
ATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGATAAGGTCTTCCG
TATAAGACCATATCTGGGACATGACATCGGTATC
Found at i:6266810 original size:42 final size:42
Alignment explanation
Indices: 6266763--6266848 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
6266753 GTGAAAGTAA
6266763 ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAGTG
1 ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAGTG
*
6266805 ATGAAAAATGGGCCCAAGAGTTCTAAAATTTGGTGAATAGTG
1 ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAGTG
6266847 AT
1 AT
6266849 ATCGAAATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (42 bp):
ATGAAAAATAGGCCCAAGAGTTCTAAAATTTGGTGAATAGTG
Found at i:6267464 original size:13 final size:13
Alignment explanation
Indices: 6267446--6267470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6267436 CAGCTTTAAC
6267446 ATGGCCATGTGAT
1 ATGGCCATGTGAT
6267459 ATGGCCATGTGA
1 ATGGCCATGTGA
6267471 AGTCTGCACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (13 bp):
ATGGCCATGTGAT
Found at i:6274155 original size:41 final size:43
Alignment explanation
Indices: 6274051--6274160 Score: 109
Period size: 41 Copynumber: 2.6 Consensus size: 43
6274041 TTGCACAATA
* * * *
6274051 CCAACGTCCCAGATGTGGTCTTACA-TATGATCAAATATCTATG
1 CCAATGTCCCAGATATGGTCTTACACGA-GATCAAATATCGATG
* * * * *
6274094 CCACTGTCCCTGACAGGGTCTTACACGA-ATCATATA-CGATG
1 CCAATGTCCCAGATATGGTCTTACACGAGATCAAATATCGATG
6274135 CCAATGTCCCAGATATGGTCTTACAC
1 CCAATGTCCCAGATATGGTCTTACAC
6274161 ATACATCTCA
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
41 26 0.49
42 7 0.13
43 19 0.36
44 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
CCAATGTCCCAGATATGGTCTTACACGAGATCAAATATCGATG
Found at i:6275476 original size:12 final size:12
Alignment explanation
Indices: 6275459--6275484 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6275449 CGAAATAGAG
6275459 TTTTAGCGGCGT
1 TTTTAGCGGCGT
6275471 TTTTAGCGGCGT
1 TTTTAGCGGCGT
6275483 TT
1 TT
6275485 GAATAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:6276096 original size:12 final size:12
Alignment explanation
Indices: 6276079--6276111 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
6276069 AATAAATAAT
6276079 ATATATATATGG
1 ATATATATATGG
*
6276091 ATATATATATTG
1 ATATATATATGG
6276103 ATATATATA
1 ATATATATA
6276112 GATATTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (12 bp):
ATATATATATGG
Found at i:6280602 original size:240 final size:240
Alignment explanation
Indices: 6280313--6281754 Score: 2591
Period size: 240 Copynumber: 6.0 Consensus size: 240
6280303 AATAAGTATG
*
6280313 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGTTGACCTTCTCAC
1 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
* *
6280378 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACTTGACAGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTA
6280443 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
131 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
*
6280508 AAAATTCAAAAAGACTTGCAAAAAGTTCTATTGAGCTCATTTACT
196 AAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACT
*
6280553 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAATTTACAATAATAGCTGACCTTCTCAC
1 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
*
6280618 CAACCTTATTTTAAATATTTTAAATATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTA
*
6280683 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGTCACGTATGATGAATCTTAA
131 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
*
6280748 AAAATTCAAAAAGACTTGCAAAAAGTTCTATCCAGCTCATTTACT
196 AAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACT
6280793 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
1 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
* *
6280858 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGACACCTGACGGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTA
*
6280923 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAA
131 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
*
6280988 AAAATTCAAAAAGACTTGCAAAAAGTTCTATCCAGCTCATTTACT
196 AAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACT
6281033 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
1 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
*
6281098 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATATAGGCTAGAAACCTGACGGGTTGCAT
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAG--TATATAGGCTAGAAACCTGACGGGTTGCCT
6281163 TATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT
129 TATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT
*
6281228 AAAAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCGTTTACT
194 AAAAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACT
* * *
6281275 -ATTGAATATTATTACCATGTAGCTTGCTTGTCCATTAATATTACAATAATAGTTGACCTTCTCA
1 AATT-AATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCA
* * *
6281339 CCAACCTTATTTTAAATATTTTAAAGAATCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTT
65 CCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTT
*
6281404 ATATCGAGCTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTA
130 ATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTA
6281469 AAAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACT
195 AAAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACT
* * *
6281515 AATTAATTTTATTACCATGTAGCTTGCTTGTCCA-TAAACTTACAACAATAGCTGACCTTCTCTC
1 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
*
6281579 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTA
* *
6281644 TATCGAGCTGTAAGATATAATGGATCCTTCCTAGATGTAACAACGCCACGTATGATGAATCTTAA
131 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
*
6281709 AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
196 AAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACT
6281754 A
1 A
6281755 TTGAATATTT
Statistics
Matches: 1157, Mismatches: 41, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
239 195 0.17
240 730 0.63
241 6 0.01
242 226 0.20
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (240 bp):
AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTA
TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
AAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACT
Found at i:6281380 original size:482 final size:480
Alignment explanation
Indices: 6280321--6281763 Score: 2620
Period size: 482 Copynumber: 3.0 Consensus size: 480
6280311 TGAATTAATT
6280321 TTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGTTGACCTTCTCACCAACCTTA
1 TTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGTTGACCTTCTCACCAACCTTA
* *
6280386 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACTTGACAGGTTGCCTTATATCGAGC
66 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAGC
6280451 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
131 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
*
6280516 AAAAGACTTGCAAAAAGTTCTATTGAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCT
196 AAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCT
* *
6280581 TGTCCATTAAATTTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAATATT
261 TGTCCATTAAAATTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAAGATT
6280646 CAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCT
326 CAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCT
*
6280711 CCCTAGGTGTAACAACGTCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCAAAAAGTTC
391 CCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCAAAAAGTTC
* *
6280776 TATCCAGCTCATTTACTAATT-AATT
456 TATCGAGCTCATTTACT-ATTGAATA
*
6280801 TTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCACCAACCTTA
1 TTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGTTGACCTTCTCACCAACCTTA
* *
6280866 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGACACCTGACGGGTTGCCTTATATCGAGC
66 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAGC
*
6280931 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAAAAAATTCA
131 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
*
6280996 AAAAGACTTGCAAAAAGTTCTATCCAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCT
196 AAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCT
6281061 TGTCCATTAAAATTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAAGATT
261 TGTCCATTAAAATTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAAGATT
*
6281126 CAAAGTATATATAGGCTAGAAACCTGACGGGTTGCATTATATCGAGCTGTAAGATATAATGGATC
326 CAAAG--TATATAGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
6281191 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCAAAAAGT
389 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCAAAAAGT
*
6281256 TCTATCGAGCTCGTTTACTATTGAATA
454 TCTATCGAGCTCATTTACTATTGAATA
*
6281283 TTATTACCATGTAGCTTGCTTGTCCATTAATATTACAATAATAGTTGACCTTCTCACCAACCTTA
1 TTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGTTGACCTTCTCACCAACCTTA
*
6281348 TTTTAAATATTTTAAAGAATCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAGC
66 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAGC
*
6281413 TGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
131 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
6281478 AAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCT
196 AAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCT
* * *
6281543 TGTCCA-TAAACTTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATT
261 TGTCCATTAAAATTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAAGATT
*
6281607 CAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCT
326 CAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCT
* * *
6281672 TCCTAGATGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTC
391 CCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCAAAAAGTTC
6281737 TATCGAGCTCATTTACTATTGAATA
456 TATCGAGCTCATTTACTATTGAATA
6281762 TT
1 TT
6281764 TATATAACCT
Statistics
Matches: 928, Mismatches: 32, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
479 146 0.16
480 320 0.34
481 63 0.07
482 399 0.43
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (480 bp):
TTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGTTGACCTTCTCACCAACCTTA
TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAGC
TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
AAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCT
TGTCCATTAAAATTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAAGATT
CAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCT
CCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCAAAAAGTTC
TATCGAGCTCATTTACTATTGAATA
Found at i:6281528 original size:722 final size:719
Alignment explanation
Indices: 6280313--6281754 Score: 2609
Period size: 722 Copynumber: 2.0 Consensus size: 719
6280303 AATAAGTATG
*
6280313 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGTTGACCTTCTCAC
1 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
* *
6280378 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACTTGACAGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACAGGTTGCATTA
6280443 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
131 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
* *
6280508 AAAATTCAAAAAGACTTGCAAAAAGTTCTATTGAGCTCATTTACTAATTAATTTTATTACCATGT
196 AAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACTAATTAATATTATTACCATGT
6280573 AGCTTGCTTGTCCATTAAATTTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTT
261 AGCTTGCTTGTCCATTAAATTTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTT
* *
6280638 TAAATATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAA
326 TAAAGAATCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAA
*
6280703 TGGATCCTCCCTAGGTGTAACAACGTCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCA
391 TGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCA
6280768 AAAAGTTCTATCCAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAA
456 AAAAGTTCTATCCAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCTTGTCCA-TAAAA
*
6280833 TTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAG
520 TTACAACAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAG
* *
6280898 GCTGGACACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
585 GCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGATGTAA
* *
6280963 CAATGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCAAAAAGTTCTATCCAGCTCAT
650 CAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCCAGCTCAT
6281028 TTACT
715 TTACT
6281033 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
1 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
*
6281098 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATATAGGCTAGAAACCTGACGGGTTGCAT
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAG--TATATAGGCTAGAAACCTGACAGGTTGCAT
6281163 TATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT
129 TATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT
*
6281228 AAAAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCGTTTACT-ATTGAATATTATTACCA
194 AAAAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACTAATT-AATATTATTACCA
*
6281292 TGTAGCTTGCTTGTCCATT-AATATTACAATAATAGTTGACCTTCTCACCAACCTTATTTTAAAT
258 TGTAGCTTGCTTGTCCATTAAAT-TTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAAT
* *
6281356 ATTTTAAAGAATCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAGCTGTAAGAT
322 ATTTTAAAGAATCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGAT
*
6281421 ATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACT
387 ATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACT
*
6281486 TGCAAAAAGTTCTATCGAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCTTGTCCATA
452 TGCAAAAAGTTCTATCCAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCTTGTCCATA
* *
6281551 AACTTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATA
517 AAATTACAACAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATA
*
6281616 TAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTTCCTAGATG
582 TAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGATG
*
6281681 TAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCT
647 TAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCCAGCT
6281746 CATTTACT
712 CATTTACT
6281754 A
1 A
6281755 TTGAATATTT
Statistics
Matches: 694, Mismatches: 24, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
720 97 0.14
721 203 0.29
722 394 0.57
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (719 bp):
AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACAGGTTGCATTA
TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
AAAATTCAAAAAGACTTGCAAAAAGTTCTATCGAGCTCATTTACTAATTAATATTATTACCATGT
AGCTTGCTTGTCCATTAAATTTACAATAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTT
TAAAGAATCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAA
TGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGCA
AAAAGTTCTATCCAGCTCATTTACTAATTAATTTTATTACCATGTAGCTTGCTTGTCCATAAAAT
TACAACAATAGCTGACCTTCTCACCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGG
CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGATGTAAC
AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCCAGCTCATT
TACT
Found at i:6282017 original size:39 final size:39
Alignment explanation
Indices: 6281965--6282108 Score: 195
Period size: 39 Copynumber: 4.0 Consensus size: 39
6281955 TAAATTACAT
*
6281965 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
6282004 AACTTACATAACTCACAT-A---AC-----TT---TAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
6282031 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
6282070 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
6282109 TCACATAACG
Statistics
Matches: 92, Mismatches: 1, Indels: 24
0.79 0.01 0.21
Matches are distributed among these distances:
27 22 0.24
28 1 0.01
30 2 0.02
31 2 0.02
35 2 0.02
36 2 0.02
38 1 0.01
39 60 0.65
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:6282071 original size:66 final size:66
Alignment explanation
Indices: 6281954--6282125 Score: 274
Period size: 66 Copynumber: 2.6 Consensus size: 66
6281944 CATTACTTAA
* * *
6281954 ATAAATTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTCA
1 ATAACTTACACAACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCA
6282019 C
66 C
6282020 ATAACTTTA-ACAACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTC
1 ATAAC-TTACACAACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTC
6282084 AC
65 AC
* * *
6282086 ATAACTTACATAATTTACATAACTCACATAACGTACATAA
1 ATAACTTACACAACTTACATAACTCACATAACTTACATAA
6282126 CAACTTACAT
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
65 3 0.03
66 92 0.94
67 3 0.03
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (66 bp):
ATAACTTACACAACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCA
C
Found at i:6282080 original size:21 final size:21
Alignment explanation
Indices: 6281965--6282024 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
6281955 TAAATTACAT
*
6281965 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
6281983 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
6282004 AACTTACATAACTCACATAAC
1 AACTTACATAACTCACATAAC
6282025 TTTAACAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.34
20 3 0.09
21 20 0.57
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:6282139 original size:9 final size:9
Alignment explanation
Indices: 6281948--6282126 Score: 171
Period size: 9 Copynumber: 19.2 Consensus size: 9
6281938 ATTGATCATT
*
6281948 ACTTAAATA
1 ACTTACATA
*
6281957 AATTACATA
1 ACTTACATA
6281966 ACTTACATA
1 ACTTACATA
* *
6281975 ACTCATATA
1 ACTTACATA
6281984 ACTTACATA
1 ACTTACATA
*
6281993 ATTTACATAACA
1 ACTTACAT---A
6282005 ACTTACATA
1 ACTTACATA
*
6282014 ACTCACATA
1 ACTTACATA
*
6282023 ACTTTA-ACA
1 AC-TTACATA
6282032 ACTTACATA
1 ACTTACATA
*
6282041 ACTCACATA
1 ACTTACATA
6282050 ACTTACATA
1 ACTTACATA
*
6282059 ATTTACATAACA
1 ACTTACAT---A
6282071 ACTTACATA
1 ACTTACATA
*
6282080 ACTCACATA
1 ACTTACATA
6282089 ACTTACATA
1 ACTTACATA
*
6282098 ATTTACATA
1 ACTTACATA
*
6282107 ACTCACATA
1 ACTTACATA
*
6282116 ACGTACATA
1 ACTTACATA
6282125 AC
1 AC
6282127 AACTTACATA
Statistics
Matches: 138, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
8 3 0.02
9 117 0.85
10 2 0.01
12 16 0.12
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:6287670 original size:21 final size:21
Alignment explanation
Indices: 6287646--6287689 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6287636 CTTAGAGCGA
*
6287646 AGGCAGCAGCGCGAGAGGCGG
1 AGGCAGCAGCGAGAGAGGCGG
*
6287667 AGGCAGCAGCGAGGGAGGCGG
1 AGGCAGCAGCGAGAGAGGCGG
6287688 AG
1 AG
6287690 CAGAACAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.20, G:0.55, T:0.00
Consensus pattern (21 bp):
AGGCAGCAGCGAGAGAGGCGG
Found at i:6288080 original size:42 final size:42
Alignment explanation
Indices: 6287985--6288425 Score: 602
Period size: 42 Copynumber: 10.4 Consensus size: 42
6287975 TGGGCAAATT
* * ** * *
6287985 AGCGGCGTTTTTATAAAAAAGCGCCGCCAAAAGTCCTATTATTT
1 AGCGGCGTTTTTCT--AAAAGCGCCGCTAAAAGTCCTGGTCTTC
* * * * * *
6288029 AGCGACGTTTTTCTAGAAGCGTCGCTAAAAGTCTTAGTATTC
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTC
*
6288071 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTT
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTC
*
6288113 AGCGGCGTTTTT-TAAAAAAGCGCCGCTAAAACTCCTGGTCTTC
1 AGCGGCGTTTTTCT--AAAAGCGCCGCTAAAAGTCCTGGTCTTC
*
6288156 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTT
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTC
*
6288198 AGCGGCGTTTTT-TAAAAAAGCGCCGCTAAAAGTCCTGATCTTC
1 AGCGGCGTTTTTCT--AAAAGCGCCGCTAAAAGTCCTGGTCTTC
*
6288241 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGATCTTC
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTC
6288283 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTC
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTC
* *
6288325 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCTTGATCTTC
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTC
* *
6288367 AGCGGCGTTTTTATAAAAGCAG-CGCTAAAAGTCCTGGTCTTT
1 AGCGGCGTTTTTCTAAAAGC-GCCGCTAAAAGTCCTGGTCTTC
6288409 AGCGGCGTTTTT-TAAAA
1 AGCGGCGTTTTTCTAAAA
6288426 AAGCACTGCT
Statistics
Matches: 362, Mismatches: 28, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
41 7 0.02
42 264 0.73
43 77 0.21
44 14 0.04
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (42 bp):
AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTC
Found at i:6288345 original size:84 final size:83
Alignment explanation
Indices: 6287985--6288425 Score: 609
Period size: 85 Copynumber: 5.2 Consensus size: 83
6287975 TGGGCAAATT
* * * * *
6287985 AGCGGCGTTTTTATAAAAAAGCGCCGCCAAAAGTCCT-ATTATTTAGCGACGTTTTTCTAGAAGC
1 AGCGGCGTTTTTCT--AAAAGCGCCGCTAAAAGTCCTGA-TCTTTAGCGGCGTTTTT-TAAAAGC
* * * *
6288049 GTCGCTAAAAGTCTTAGTATTC
62 GCCGCTAAAAGTCCTGGTCTTC
*
6288071 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTAAAAAAGCGC
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGATCTTTAGCGGCGTTTTTT--AAAAGCGC
*
6288136 CGCTAAAACTCCTGGTCTTC
64 CGCTAAAAGTCCTGGTCTTC
*
6288156 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTAAAAAAGCGC
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGATCTTTAGCGGCGTTTTTT--AAAAGCGC
*
6288221 CGCTAAAAGTCCTGATCTTC
64 CGCTAAAAGTCCTGGTCTTC
*
6288241 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGATCTTCAGCGGCGTTTTTCTAAAAGCGCC
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGATCTTTAGCGGCGTTTTT-TAAAAGCGCC
6288306 GCTAAAAGTCCTGGTCTTC
65 GCTAAAAGTCCTGGTCTTC
* *
6288325 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCTTGATCTTCAGCGGCGTTTTTATAAAAGCAG-
1 AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGATCTTTAGCGGCGTTTTT-TAAAAGC-GC
*
6288389 CGCTAAAAGTCCTGGTCTTT
64 CGCTAAAAGTCCTGGTCTTC
6288409 AGCGGCGTTTTT-TAAAA
1 AGCGGCGTTTTTCTAAAA
6288426 AAGCACTGCT
Statistics
Matches: 331, Mismatches: 19, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
83 6 0.02
84 153 0.46
85 158 0.48
86 14 0.04
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (83 bp):
AGCGGCGTTTTTCTAAAAGCGCCGCTAAAAGTCCTGATCTTTAGCGGCGTTTTTTAAAAGCGCCG
CTAAAAGTCCTGGTCTTC
Found at i:6290413 original size:18 final size:18
Alignment explanation
Indices: 6290390--6290451 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
6290380 TCAAAATATT
6290390 AAAATTATAAAAATACAA
1 AAAATTATAAAAATACAA
*
6290408 AAAATTATAAAATATA-GA
1 AAAATTATAAAA-ATACAA
* *
6290426 AAATTTATAAAGAAT-CAT
1 AAAATTATAAA-AATACAA
6290444 AAAATTAT
1 AAAATTAT
6290452 TAGACATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 32 0.89
19 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATTATAAAAATACAA
Found at i:6290436 original size:36 final size:34
Alignment explanation
Indices: 6290382--6290451 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
6290372 TTGAATATTC
*
6290382 AAAATATTAAAATTATAAA-AATACAAAAAATTAT
1 AAAATATGAAAATTATAAAGAAT-CAAAAAATTAT
*
6290416 AAAATATAGAAAATTTATAAAGAATCATAAAATTAT
1 AAAATAT-GAAAA-TTATAAAGAATCAAAAAATTAT
6290452 TAGACATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 7 0.23
35 4 0.13
36 17 0.55
37 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (34 bp):
AAAATATGAAAATTATAAAGAATCAAAAAATTAT
Found at i:6294414 original size:72 final size:71
Alignment explanation
Indices: 6294254--6294422 Score: 180
Period size: 72 Copynumber: 2.3 Consensus size: 71
6294244 TACCCCAGTG
* * * * *
6294254 ATTTGATTAAAGGATAAGTCCAAC-TGTTTTAAATTGGTTAATTTGCCTAAGGTAGAAGGGAAAG
1 ATTTGATT-ATGGATAGGTCCAACAT-TTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGAAAG
6294318 GACCACTA
64 GACCACTA
* * * *
6294326 ATTTGGTTTTTGGATAGGTTCAACATTTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGATAGG
1 ATTT-GATTATGGATAGGTCCAACATTTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGAAAGG
* *
6294391 GCCAGTA
65 ACCACTA
6294398 ATTCT-ATTATGCGATAGGTCCAACA
1 ATT-TGATTATG-GATAGGTCCAACA
6294423 GCTTCAAACT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
71 4 0.05
72 70 0.89
73 5 0.06
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (71 bp):
ATTTGATTATGGATAGGTCCAACATTTTTAAAGTGGTTAAGTTGCCCAAGGTAGAAGGGAAAGGA
CCACTA
Found at i:6295879 original size:2 final size:2
Alignment explanation
Indices: 6295872--6295896 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6295862 TTAAAAATAA
6295872 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6295897 AGTATACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6295980 original size:17 final size:18
Alignment explanation
Indices: 6295949--6295987 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
6295939 AAATGTGAAA
6295949 AATAACAACAAATTA-AC
1 AATAACAACAAATTATAC
6295966 AATAA-AACAAGATTATAC
1 AATAACAACAA-ATTATAC
6295984 AATA
1 AATA
6295988 TTCAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.25
17 9 0.45
18 6 0.30
ACGTcount: A:0.64, C:0.13, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAACAACAAATTATAC
Found at i:6296794 original size:29 final size:30
Alignment explanation
Indices: 6296762--6296820 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
6296752 TCACGTGTAT
*
6296762 AATT-ATATCAAATTAAAATTCATATATAC
1 AATTAATATCAAATCAAAATTCATATATAC
* *
6296791 AATTACATATTAGATCAAAATTCATATATA
1 AATTA-ATATCAAATCAAAATTCATATATA
6296821 ATTTTAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
31 21 0.84
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (30 bp):
AATTAATATCAAATCAAAATTCATATATAC
Found at i:6297081 original size:22 final size:22
Alignment explanation
Indices: 6297055--6297100 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6297045 CAATAACTTT
6297055 AAATAAATTGTTTAAATATTAA
1 AAATAAATTGTTTAAATATTAA
6297077 AAATAAATTGTTTAAATATTAA
1 AAATAAATTGTTTAAATATTAA
6297099 AA
1 AA
6297101 TTTTCTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
AAATAAATTGTTTAAATATTAA
Found at i:6304056 original size:17 final size:17
Alignment explanation
Indices: 6304024--6304056 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6304014 TTAAAAATTC
6304024 ATATTTTTTTATATTTA
1 ATATTTTTTTATATTTA
6304041 ATATATTTTTTA-ATTT
1 ATAT-TTTTTTATATTT
6304057 CAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATATTTTTTTATATTTA
Found at i:6304195 original size:19 final size:19
Alignment explanation
Indices: 6304171--6304207 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6304161 AATTAATAAT
6304171 AAATTTAATTACGGTGGGC
1 AAATTTAATTACGGTGGGC
6304190 AAATTTAATTACGGTGGG
1 AAATTTAATTACGGTGGG
6304208 TGGTAGGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (19 bp):
AAATTTAATTACGGTGGGC
Found at i:6306902 original size:2 final size:2
Alignment explanation
Indices: 6306895--6306919 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6306885 ACTCGTTGAG
6306895 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6306920 CATCTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6313537 original size:26 final size:26
Alignment explanation
Indices: 6313501--6313584 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6313491 CATGAAATTC
6313501 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6313527 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6313553 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6313579 TTATCA
1 TTATCA
6313585 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6319003 original size:26 final size:25
Alignment explanation
Indices: 6318974--6319025 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
6318964 TCAAACATGC
6318974 ATTTAAGTCAATTTAACCCTAGGGGT
1 ATTTAAGT-AATTTAACCCTAGGGGT
** * *
6319000 ATTTCGGTAATTTATCTCTAGGGGT
1 ATTTAAGTAATTTAACCCTAGGGGT
6319025 A
1 A
6319026 AAACTGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (25 bp):
ATTTAAGTAATTTAACCCTAGGGGT
Found at i:6320542 original size:26 final size:26
Alignment explanation
Indices: 6320506--6320589 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6320496 CATGAAATTC
6320506 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6320532 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6320558 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6320584 TTATCA
1 TTATCA
6320590 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6322376 original size:52 final size:53
Alignment explanation
Indices: 6322309--6322413 Score: 124
Period size: 53 Copynumber: 2.0 Consensus size: 53
6322299 GTCCTCAATA
* *
6322309 AATTTCATTCCTATTGCA-TTGCTATCTTT-GATTAACTTATTCATTTTGAGTT
1 AATTTCATTCCTATTGCATTTGCAAT-TTTCGATTAACTTATTCATTTCGAGTT
* * * * *
6322361 AATTTCCTTCTTATTGTATTTGCAATTTTCGATTGATTTATTCATTTCGAGTT
1 AATTTCATTCCTATTGCATTTGCAATTTTCGATTAACTTATTCATTTCGAGTT
6322414 TTGCTCTCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
52 18 0.41
53 26 0.59
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.53
Consensus pattern (53 bp):
AATTTCATTCCTATTGCATTTGCAATTTTCGATTAACTTATTCATTTCGAGTT
Found at i:6322862 original size:64 final size:64
Alignment explanation
Indices: 6322786--6322977 Score: 339
Period size: 64 Copynumber: 3.0 Consensus size: 64
6322776 TCATTCATAA
6322786 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
* * * * *
6322850 CATATCTAGTTAGGGGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGTAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
6322914 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
6322978 AGATACATGA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 118 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
Found at i:6323295 original size:131 final size:131
Alignment explanation
Indices: 6323041--6323347 Score: 447
Period size: 131 Copynumber: 2.3 Consensus size: 131
6323031 ATCGGTAATT
* * *
6323041 TTGCAGATCTTGCCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCCTGTCTCTCTA
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCCTATCTCCCTA
* * * *
6323106 AAGTTGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
66 AAGTT-CAGTGGAGAAAATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTAAA
6323171 GA
130 GA
* * * *
6323173 TTGCAGATCTTGTCTCTCTGAAGTTGCAGTGGAACAAATCGAAGACGGCGAATCTTATCTCCCTA
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCCTATCTCCCTA
*
6323238 ACCAG-T-AGTGGAGAAAATTTAAGCCACCATCCTATCTTCCTAAGAAGTAGTGGAGTAGGCTAA
66 A--AGTTCAGTGGAGAAAATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTAA
6323301 AGA
129 AGA
* *
6323304 TTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAG
6323348 CCATTAACCT
Statistics
Matches: 157, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
131 95 0.61
132 59 0.38
133 1 0.01
134 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (131 bp):
TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGACGAATCCTATCTCCCTA
AAGTTCAGTGGAGAAAATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTAAAG
A
Found at i:6323371 original size:44 final size:44
Alignment explanation
Indices: 6323316--6323429 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
6323306 GTAGATCTTG
**
6323316 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCATTAACCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAAACCTTA
** * * ** *
6323360 TCTTTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAAACCTTA
*
6323404 TCTCCCTGAAGTTGTAGTGGAGCAGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGA
6323430 CTCATGATAG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAAACCTTA
Found at i:6323489 original size:89 final size:87
Alignment explanation
Indices: 6323310--6323510 Score: 210
Period size: 89 Copynumber: 2.3 Consensus size: 87
6323300 AAGATTGTAG
* * *
6323310 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCATTAACCTTATCTTTCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCA-GAACCTTATCTCTCTGAAGTTGC
* * * *
6323375 AGTGGAGCAGGTTGAAGTTACAA
65 AGTAGAGCAGATTAAAGCTACAA
* * *
6323398 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTCATGATAG-C-GAATCTTATCTCTCTGAATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TC--GA-AGCCAGAACCTTATCTCTCTGAAGT
*
6323461 TGCAGTAGAGCAGATTAAAGCTATAA
62 TGCAGTAGAGCAGATTAAAGCTACAA
* *
6323487 ATCTTATAC-CTCTAAAGTTGCAGT
1 ATCTTAT-CTCCCTGAAGTTGCAGT
6323511 AGGTCGGATC
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
88 30 0.32
89 58 0.62
90 1 0.01
91 3 0.03
92 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (87 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCAGAACCTTATCTCTCTGAAGTTGCA
GTAGAGCAGATTAAAGCTACAA
Found at i:6323713 original size:228 final size:226
Alignment explanation
Indices: 6323365--6323802 Score: 594
Period size: 228 Copynumber: 1.9 Consensus size: 226
6323355 CCTTATCTTT
* * * * *
6323365 CTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 CTGAAGTTGCAGTGGA-CAGGTCGAAGATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAA
* * * * * *
6323430 CTCATGATAGCGAATCTTATCTCTCTGAATTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATA
65 CTCAAGATAGCAAATCTTATCTCTATGAAGTTGCAGCAGAGCAGATTAAAGCTATAAATCCTATA
* * * *
6323495 CCTCTAAAGTTGCAGTAGGTCGGATCAAATCTACCATGACGAATCTCATCTCCCTAAAGTTGCAA
130 CCTCTAAAGTTGCAATAGGTCAGATCAAATCTACCATGACAAATCTCATCTCCCTAAAGTTACAA
6323560 AGGAGTAAATTGAAGTTACAGATCTTATATCC
195 AGGAGTAAATTGAAGTTACAGATCTTATATCC
*
6323592 CTGAAGTTGCAGTGGA-ATGGATCGAAGATAGCAAACCTTAT-TCCCCTGAAGTTGCAGTGGGGC
1 CTGAAGTTGCAGTGGACA-GG-TCGAAGATA-CAAACCTTATCT-CCCTGAAGTTGCAGTGGAGC
*
6323655 AAACT-AAGAATAGCAAATCTTATCTCTATGAAGTTGCAGCAGAGTAGATTAAAGCTATAAATCC
62 AAACTCAAG-ATAGCAAATCTTATCTCTATGAAGTTGCAGCAGAGCAGATTAAAGCTATAAATCC
* * * *
6323719 TATACCTCTGAAGTTGCAATAGGTCAGATCAAATCTATCATGACAAATCTTATCTCCCTGAAGTT
126 TATACCTCTAAAGTTGCAATAGGTCAGATCAAATCTACCATGACAAATCTCATCTCCCTAAAGTT
**
6323784 ACAGTGGAGTAAATTGAAG
191 ACAAAGGAGTAAATTGAAG
6323803 CCACTAATCC
Statistics
Matches: 183, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
225 1 0.01
226 2 0.01
227 26 0.14
228 154 0.84
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (226 bp):
CTGAAGTTGCAGTGGACAGGTCGAAGATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAAC
TCAAGATAGCAAATCTTATCTCTATGAAGTTGCAGCAGAGCAGATTAAAGCTATAAATCCTATAC
CTCTAAAGTTGCAATAGGTCAGATCAAATCTACCATGACAAATCTCATCTCCCTAAAGTTACAAA
GGAGTAAATTGAAGTTACAGATCTTATATCC
Found at i:6323794 original size:94 final size:94
Alignment explanation
Indices: 6323668--6323892 Score: 220
Period size: 94 Copynumber: 2.4 Consensus size: 94
6323658 CTAAGAATAG
** * ** * *
6323668 CAAATCTTATCTCTATGAAGTTGCAGCAGAGTAGATTAAAGCTA-TAAATCCTATACCTC-TGAA
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCACT-AATCCTACACC-CGTGAA
* *
6323731 GTTGCAATAGGTCAGATCAAATCTATCATGA
64 ATTGCAATAGGACAGATCAAATCTATCATGA
* *
6323762 CAAATCTTATCTCCCTGAAGTTACAGTGGAGTAAATTGAAGCCACTAATCCTACACCCGTGAAAT
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCACTAATCCTACACCCGTGAAAT
* * * * * * * *
6323827 TGTAGTGGGACAGATTAAGTTTATCTTGG
66 TGCAATAGGACAGATCAAATCTATCATGA
* * *
6323856 TAAACCTAATCTCCCTGAAGTTACAGTGGAGTAGATT
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATT
6323893 GAAGACACAA
Statistics
Matches: 106, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
93 1 0.01
94 104 0.98
95 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (94 bp):
CAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCACTAATCCTACACCCGTGAAAT
TGCAATAGGACAGATCAAATCTATCATGA
Found at i:6324648 original size:19 final size:18
Alignment explanation
Indices: 6324619--6324668 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
6324609 GTATATATTT
6324619 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
6324637 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
*
6324656 TAAGTTTTATTTA
1 TAA-ATTTATTTA
6324669 TATTCTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.17
19 23 0.79
20 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:6324735 original size:43 final size:43
Alignment explanation
Indices: 6324688--6324772 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
6324678 AATTTTTTTA
6324688 TTTTATCTTTTAGTAGTTTACTAGAATAA-GGAAACTATTTTCT
1 TTTTATCTTTTAGTAGTTTACTAGAATAATGG-AACTATTTTCT
* *
6324731 TTTTATGTTTTAGTAGTTTATTAGAATAATGGAACTATTTTC
1 TTTTATCTTTTAGTAGTTTACTAGAATAATGGAACTATTTTC
6324773 CTAATTACGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 37 0.95
44 2 0.05
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (43 bp):
TTTTATCTTTTAGTAGTTTACTAGAATAATGGAACTATTTTCT
Found at i:6328358 original size:46 final size:45
Alignment explanation
Indices: 6328300--6328475 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
6328290 TATTTGGGCA
*
6328300 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
6328346 TCCGTA-CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCG-AGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
6328393 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
6328439 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6328476 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:6328455 original size:93 final size:93
Alignment explanation
Indices: 6328296--6328468 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
6328286 AGGATATTTG
* *
6328296 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGTACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGTACTCGTTGAG
6328361 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
6328389 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG-AGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGTA-CTCGTTGA
6328453 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
6328469 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 1 0.01
93 75 0.99
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGTACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:6331463 original size:28 final size:27
Alignment explanation
Indices: 6331387--6331485 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 27
6331377 GCAATAAGCC
* **
6331387 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
6331415 CGCACACTTAGTGCTATATAATTAAACT
1 CGCACACTTAGTGCT-TATAATTAAACT
* *
6331443 TGCACACTTAGTGCTGTATAATTTGAA-T
1 CGCACACTTAGTGCT-TATAA-TTAAACT
6331471 CCGCACACTTAGTGC
1 -CGCACACTTAGTGC
6331486 CAATTTGTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
28 43 0.70
29 18 0.30
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:6332335 original size:13 final size:13
Alignment explanation
Indices: 6332317--6332344 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6332307 ATTTTCGGCC
6332317 AAAAGGATGAACA
1 AAAAGGATGAACA
6332330 AAAAGGATGAACA
1 AAAAGGATGAACA
6332343 AA
1 AA
6332345 GCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.21, T:0.07
Consensus pattern (13 bp):
AAAAGGATGAACA
Found at i:6334999 original size:19 final size:19
Alignment explanation
Indices: 6334953--6335000 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
6334943 GTATATATTT
6334953 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
6334971 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
6334990 TAAGTTTTATT
1 TAAATTTTATT
6335001 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:6336531 original size:2 final size:2
Alignment explanation
Indices: 6336524--6336578 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
6336514 TTCTAAAATT
6336524 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6336566 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
6336579 CATCTTTTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6340174 original size:2 final size:2
Alignment explanation
Indices: 6340167--6340222 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
6340157 AAGAGAAAAG
6340167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6340209 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
6340223 CATCTGGTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6345931 original size:31 final size:30
Alignment explanation
Indices: 6345896--6345992 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 30
6345886 AACAACCCAA
6345896 TGACTTAAATAAAAACTTTTTAATAGTTTAG
1 TGACTTAAAT-AAAACTTTTTAATAGTTTAG
*
6345927 TGACTTAAATAAAATTTTTTGAATAGTTTAG
1 TGACTTAAATAAAACTTTTT-AATAGTTTAG
* *
6345958 TGACTTAAATGAAAGCTTTTGAATAGTTTAG
1 TGACTTAAAT-AAAACTTTTTAATAGTTTAG
6345989 TGAC
1 TGAC
6345993 CAAATTGTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
30 9 0.15
31 44 0.73
32 7 0.12
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.41
Consensus pattern (30 bp):
TGACTTAAATAAAACTTTTTAATAGTTTAG
Found at i:6346053 original size:34 final size:34
Alignment explanation
Indices: 6346015--6346079 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
6346005 TTTTCTAGTT
6346015 AAATGACCAAAACAAAAACTTACTCATAATTACG
1 AAATGACCAAAACAAAAACTTACTCATAATTACG
*
6346049 AAATGACCAAAATAAAAACTTACTCATAATT
1 AAATGACCAAAACAAAAACTTACTCATAATT
6346080 TAGTGACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.54, C:0.18, G:0.05, T:0.23
Consensus pattern (34 bp):
AAATGACCAAAACAAAAACTTACTCATAATTACG
Found at i:6346931 original size:2 final size:2
Alignment explanation
Indices: 6346924--6346961 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6346914 AGTTTTAAGT
6346924 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6346962 AAGCAGGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6349525 original size:2 final size:2
Alignment explanation
Indices: 6349520--6349546 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6349510 CTCTTTCTCT
6349520 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
6349547 TATAGACCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:6356727 original size:10 final size:10
Alignment explanation
Indices: 6356708--6356757 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
6356698 TGAAATTCTA
6356708 AAAGATAAAT
1 AAAGATAAAT
6356718 ACAA-ATAAAT
1 A-AAGATAAAT
6356728 AAAGATAAAT
1 AAAGATAAAT
6356738 AAAGATAAAT
1 AAAGATAAAT
6356748 GAAA-ATAAAT
1 -AAAGATAAAT
6356758 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:6359749 original size:27 final size:27
Alignment explanation
Indices: 6359711--6359765 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
6359701 TTTGGGGTGC
* *
6359711 TTTCATTGCATTTTTGGGCTTGAGTTG
1 TTTCATTGCATTTTTGAGCTTAAGTTG
6359738 TTTCATTGCATTTTTGAGCTTAAGTTG
1 TTTCATTGCATTTTTGAGCTTAAGTTG
6359765 T
1 T
6359766 GAACTTTAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.15, C:0.11, G:0.22, T:0.53
Consensus pattern (27 bp):
TTTCATTGCATTTTTGAGCTTAAGTTG
Found at i:6360133 original size:15 final size:15
Alignment explanation
Indices: 6360113--6360162 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
6360103 ATGTGAGTAA
6360113 AAATACAACCTAAAG
1 AAATACAACCTAAAG
**
6360128 AAATAC-A--TAACTC
1 AAATACAACCTAA-AG
6360141 AAATACAACCTAAAG
1 AAATACAACCTAAAG
6360156 AAATACA
1 AAATACA
6360163 TAACTCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 3 0.11
13 6 0.22
14 2 0.07
15 13 0.48
16 3 0.11
ACGTcount: A:0.60, C:0.20, G:0.04, T:0.16
Consensus pattern (15 bp):
AAATACAACCTAAAG
Found at i:6360145 original size:28 final size:28
Alignment explanation
Indices: 6360113--6360172 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
6360103 ATGTGAGTAA
6360113 AAATACAACCTAAAGAAATACATAACTC
1 AAATACAACCTAAAGAAATACATAACTC
6360141 AAATACAACCTAAAGAAATACATAACTC
1 AAATACAACCTAAAGAAATACATAACTC
6360169 AAAT
1 AAAT
6360173 TGACATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.58, C:0.20, G:0.03, T:0.18
Consensus pattern (28 bp):
AAATACAACCTAAAGAAATACATAACTC
Found at i:6361817 original size:18 final size:20
Alignment explanation
Indices: 6361780--6361828 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
6361770 ATTACAAAAT
*
6361780 AATTCAAAATAATTT-TTAA
1 AATTCAAAATAATTTATAAA
6361799 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTTATAAA
6361818 AATTTCAAAAT
1 AA-TTCAAAAT
6361829 TTATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 15 0.56
20 8 0.30
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTCAAAATAATTTATAAA
Found at i:6361830 original size:18 final size:18
Alignment explanation
Indices: 6361797--6361893 Score: 70
Period size: 18 Copynumber: 5.2 Consensus size: 18
6361787 AATAATTTTT
*
6361797 AAAATTCAAAATATTTATA
1 AAAATTTAAAA-ATTTATA
*
6361816 AAAATTTCAAAATTTATA
1 AAAATTTAAAAATTTATA
****
6361834 TTTTTTTAAAAATTTATA
1 AAAATTTAAAAATTTATA
*
6361852 AAAATTATAAAAAATATATAAA
1 AAAATT-T-AAAAAT-T-TATA
*
6361874 AAAAGTTAAAAATTT-TA
1 AAAATTTAAAAATTTATA
6361891 AAA
1 AAA
6361894 TTTTTCTAAA
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
17 4 0.07
18 23 0.38
19 11 0.18
20 12 0.20
21 2 0.03
22 8 0.13
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (18 bp):
AAAATTTAAAAATTTATA
Found at i:6361884 original size:20 final size:20
Alignment explanation
Indices: 6361839--6361886 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
6361829 TTATATTTTT
* *
6361839 TTAAAAATTTATAAAAATTA
1 TTAAAAATATATAAAAATAA
*
6361859 TAAAAAATATATAAAAA-AA
1 TTAAAAATATATAAAAATAA
6361878 GTTAAAAAT
1 -TTAAAAAT
6361887 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
TTAAAAATATATAAAAATAA
Found at i:6370919 original size:33 final size:30
Alignment explanation
Indices: 6370854--6370913 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
6370844 ATTTTGTTAG
6370854 TCTATCAATAATAACCTAGATTGAGTTTTT
1 TCTATCAATAATAACCTAGATTGAGTTTTT
6370884 TCTATCAATAATAACCTAGATTGAGTTTTT
1 TCTATCAATAATAACCTAGATTGAGTTTTT
6370914 CTTTCTTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (30 bp):
TCTATCAATAATAACCTAGATTGAGTTTTT
Found at i:6373650 original size:47 final size:48
Alignment explanation
Indices: 6373567--6373660 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 48
6373557 GCTTAAAAAG
6373567 GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAAT
1 GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAAT
*
6373615 GTCACCCATCTATGCA-AAATGTTCAAAAGATTGAATTCACTTTTAA
1 GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAA
6373661 GTATGATTGG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 29 0.64
48 16 0.36
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (48 bp):
GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAAT
Found at i:6390922 original size:15 final size:15
Alignment explanation
Indices: 6390904--6390971 Score: 109
Period size: 15 Copynumber: 4.5 Consensus size: 15
6390894 GACTTCATGC
*
6390904 TTTGACTTGTCATCT
1 TTTGATTTGTCATCT
*
6390919 TTTGATTTGTCGTCT
1 TTTGATTTGTCATCT
*
6390934 TTTGATTTGTCGTCT
1 TTTGATTTGTCATCT
6390949 TTTGATTTGTCATCT
1 TTTGATTTGTCATCT
6390964 TTTGATTT
1 TTTGATTT
6390972 TTCGCCATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 50 1.00
ACGTcount: A:0.10, C:0.13, G:0.16, T:0.60
Consensus pattern (15 bp):
TTTGATTTGTCATCT
Found at i:6391549 original size:41 final size:41
Alignment explanation
Indices: 6391499--6391589 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
6391489 TAAAAAGCGT
*
6391499 TGAGCTGGCGTTGTTTTCAAGGGAAAAGTAGAAAAGTGTAC
1 TGAGTTGGCGTTGTTTTCAAGGGAAAAGTAGAAAAGTGTAC
6391540 TGAGTTGGCGTTGTTTTCAAGGGAAAAGTAGAAAAGTGTAC
1 TGAGTTGGCGTTGTTTTCAAGGGAAAAGTAGAAAAGTGTAC
6391581 TGAGTTGGC
1 TGAGTTGGC
6391590 ACGCTTTAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.29
Consensus pattern (41 bp):
TGAGTTGGCGTTGTTTTCAAGGGAAAAGTAGAAAAGTGTAC
Found at i:6391801 original size:29 final size:29
Alignment explanation
Indices: 6391765--6391844 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
6391755 GAGGTTTTGA
6391765 AAAAAATAA-TTTGTACAAGATGGGTTCTG
1 AAAAAATAATTTTG-ACAAGATGGGTTCTG
***
6391794 AAAAAATAATTTTGAGGGGATGGGTTCTG
1 AAAAAATAATTTTGACAAGATGGGTTCTG
* *
6391823 AAGAAATAATTTTGGCAAGATG
1 AAAAAATAATTTTGACAAGATG
6391845 AGTTGAGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 38 0.90
30 4 0.10
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (29 bp):
AAAAAATAATTTTGACAAGATGGGTTCTG
Found at i:6406654 original size:25 final size:25
Alignment explanation
Indices: 6406619--6406680 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
6406609 ATTTTTGTCT
* *
6406619 TTTTTGTTCACCCAACTATCTTGGA
1 TTTTTGGTCACCAAACTATCTTGGA
6406644 TTTTTGGTCACCAAACTATCTTGGA
1 TTTTTGGTCACCAAACTATCTTGGA
6406669 TTTTTGGTCACC
1 TTTTTGGTCACC
6406681 TATAACCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTTTGGTCACCAAACTATCTTGGA
Found at i:6406982 original size:6 final size:6
Alignment explanation
Indices: 6406971--6406999 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6406961 AGTTATTCTA
6406971 AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAAT
6407000 ATAGCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:6415818 original size:26 final size:26
Alignment explanation
Indices: 6415787--6415894 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
6415777 TGAAATTCCC
*
6415787 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
6415813 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
6415839 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
6415865 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6415891 ATCA
1 ATCA
6415895 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6419249 original size:32 final size:32
Alignment explanation
Indices: 6419208--6419273 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
6419198 ATCAATTAAC
6419208 ATTATTTTATTCTCAATTTATCATATAACACA
1 ATTATTTTATTCTCAATTTATCATATAACACA
6419240 ATTATTTTATTCTCAATTTATCATATAACACA
1 ATTATTTTATTCTCAATTTATCATATAACACA
6419272 AT
1 AT
6419274 ATGCTTCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (32 bp):
ATTATTTTATTCTCAATTTATCATATAACACA
Found at i:6422062 original size:13 final size:14
Alignment explanation
Indices: 6422044--6422120 Score: 63
Period size: 13 Copynumber: 5.8 Consensus size: 14
6422034 AAAAAAATTA
*
6422044 TATAT-GAATTAGT
1 TATATGGAAATAGT
**
6422057 TATATGGAAATAAA
1 TATATGGAAATAGT
*
6422071 TATATGG-AATGGT
1 TATATGGAAATAGT
* *
6422084 TATAT-GAATTGGT
1 TATATGGAAATAGT
*
6422097 TATATGGAAATAGA
1 TATATGGAAATAGT
6422111 TATAT-GAAAT
1 TATATGGAAAT
6422121 GGAACATTGG
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
12 1 0.02
13 28 0.55
14 22 0.43
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (14 bp):
TATATGGAAATAGT
Found at i:6422099 original size:40 final size:40
Alignment explanation
Indices: 6422044--6422122 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
6422034 AAAAAAATTA
*
6422044 TATATGAATTAGTTATATGGAAATAAATATATGGAATGGT
1 TATATGAATTAGTTATATGGAAATAAATATATGAAATGGT
* *
6422084 TATATGAATTGGTTATATGGAAATAGATATATGAAATGG
1 TATATGAATTAGTTATATGGAAATAAATATATGAAATGG
6422123 AACATTGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.37
Consensus pattern (40 bp):
TATATGAATTAGTTATATGGAAATAAATATATGAAATGGT
Found at i:6427411 original size:8 final size:8
Alignment explanation
Indices: 6427394--6427426 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
6427384 TCCAAACTAC
6427394 TTTT-ATT
1 TTTTAATT
6427401 TTTTAATT
1 TTTTAATT
6427409 TTTTAATT
1 TTTTAATT
6427417 TTTTAATT
1 TTTTAATT
6427425 TT
1 TT
6427427 ATTTTTTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTAATT
Found at i:6427419 original size:16 final size:15
Alignment explanation
Indices: 6427394--6427434 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
6427384 TCCAAACTAC
6427394 TTTTATTTTTTAATT
1 TTTTATTTTTTAATT
6427409 TTTTAATTTTTTAA--
1 TTTT-ATTTTTTAATT
6427423 TTTTATTTTTTA
1 TTTTATTTTTTA
6427435 GCAGATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
15 4 0.16
16 9 0.36
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTTTTAATT
Found at i:6434364 original size:8 final size:8
Alignment explanation
Indices: 6434341--6434381 Score: 64
Period size: 8 Copynumber: 4.9 Consensus size: 8
6434331 TGCAAATGGT
6434341 AATTTTTAA
1 AATTTTT-A
6434350 TAATTTTTA
1 -AATTTTTA
6434359 AATTTTTA
1 AATTTTTA
6434367 AATTTTTA
1 AATTTTTA
6434375 AATTTTT
1 AATTTTT
6434382 TTTCATAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 23 0.74
9 1 0.03
10 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
AATTTTTA
Found at i:6438350 original size:29 final size:29
Alignment explanation
Indices: 6438287--6438362 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
6438277 CCCATCTCGT
* *
6438287 CAAAATTATTTCTTCAAAACCCATCCCCC
1 CAAAATTATTTTTTCAAAACCCATCCCCA
**
6438316 CAAAATTATTTTTTCAAAACCCATCCTGTA
1 CAAAATTATTTTTTCAAAACCCATCC-CCA
6438346 C-AAATTATTTTTTCAAA
1 CAAAATTATTTTTTCAAA
6438363 TTCCCTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 41 0.98
30 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.36
Consensus pattern (29 bp):
CAAAATTATTTTTTCAAAACCCATCCCCA
Found at i:6439128 original size:15 final size:15
Alignment explanation
Indices: 6439108--6439181 Score: 121
Period size: 15 Copynumber: 4.9 Consensus size: 15
6439098 CAATGGCGAA
6439108 AAATCAAAAGATGAC
1 AAATCAAAAGATGAC
6439123 AAATCAAAAGATGAC
1 AAATCAAAAGATGAC
*
6439138 AAATCAAAAGACGAC
1 AAATCAAAAGATGAC
6439153 AAATCAAAAGATGAC
1 AAATCAAAAGATGAC
* *
6439168 AAGTCAAAACATGA
1 AAATCAAAAGATGA
6439182 AGTCGGAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 55 1.00
ACGTcount: A:0.59, C:0.15, G:0.14, T:0.12
Consensus pattern (15 bp):
AAATCAAAAGATGAC
Done.