Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 98 of 193
Found at i:31693966 original size:29 final size:27
Alignment explanation
Indices: 31693926--31694144 Score: 86
Period size: 29 Copynumber: 7.5 Consensus size: 27
31693916 TTTAGGGTTA
* *
31693926 AAAATGGGATTTTGGAAGGTTCAAGGGT
1 AAAATGGAATTTTGGAA-GATCAAGGGT
* *
31693954 AAAATGGTAATTTTTGGTAAAATC-GGGGTT
1 AAAATGG-AA-TTTTGG-AAGATCAAGGG-T
* * * *
31693984 AAAAATAGAGTTTTGGAAAGTTCAAGGAT
1 -AAAATGGAATTTTGG-AAGATCAAGGGT
* *
31694013 AAAATGGTAATTTTTGGTGAA-ATCGAGGTT
1 AAAATGG-AA-TTTT-G-GAAGATCAAGGGT
* *
31694043 AAAAATGGAATTTTGGAAAGCTCGAGGGT
1 -AAAATGGAATTTTGG-AAGATCAAGGGT
31694072 AAAATGGTAATTTTTGGTGAA-ATCAA-GGT
1 AAAATGG-AA-TTTT-G-GAAGATCAAGGGT
* **
31694101 CAAAAATGGAATTTTGGAAAGCTCGGGGGT
1 --AAAATGGAATTTTGG-AAGATCAAGGGT
31694131 AAAATGGTAATTTT
1 AAAATGG-AATTTT
31694145 TGGTGAAATC
Statistics
Matches: 145, Mismatches: 23, Indels: 45
0.68 0.11 0.21
Matches are distributed among these distances:
27 2 0.01
28 33 0.23
29 44 0.30
30 36 0.25
31 28 0.19
32 2 0.01
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.31
Consensus pattern (27 bp):
AAAATGGAATTTTGGAAGATCAAGGGT
Found at i:31693969 original size:30 final size:29
Alignment explanation
Indices: 31693935--31694147 Score: 104
Period size: 30 Copynumber: 7.2 Consensus size: 29
31693925 AAAAATGGGA
*
31693935 TTTTGGAAGGTTCAAGGGTAAAATGGTAAT
1 TTTTGGAA-GATCAAGGGTAAAATGGTAAT
* * * *
31693965 TTTTGGTAAAATC-GGGGTTAAAA--ATAGAG
1 TTTTGG-AAGATCAAGGG-TAAAATGGTA-AT
* *
31693994 TTTTGGAAAGTTCAAGGATAAAATGGTAAT
1 TTTTGG-AAGATCAAGGGTAAAATGGTAAT
* *
31694024 TTTTGGTGAA-ATCGAGGTTAAAAATGG-AA-
1 TTTT-G-GAAGATCAAGGGT-AAAATGGTAAT
* *
31694053 TTTTGGAAAGCTCGAGGGTAAAATGGTAAT
1 TTTTGG-AAGATCAAGGGTAAAATGGTAAT
31694083 TTTTGGTGAA-ATCAA-GGTCAAAAATGG-AA-
1 TTTT-G-GAAGATCAAGGGT--AAAATGGTAAT
* **
31694112 TTTTGGAAAGCTCGGGGGTAAAATGGTAAT
1 TTTTGG-AAGATCAAGGGTAAAATGGTAAT
31694142 TTTTGG
1 TTTTGG
31694148 TGAAATCAGG
Statistics
Matches: 139, Mismatches: 22, Indels: 44
0.68 0.11 0.21
Matches are distributed among these distances:
27 2 0.01
28 22 0.16
29 43 0.31
30 46 0.33
31 24 0.17
32 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (29 bp):
TTTTGGAAGATCAAGGGTAAAATGGTAAT
Found at i:31695683 original size:17 final size:16
Alignment explanation
Indices: 31695658--31695704 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
31695648 CAATTTAATT
*
31695658 TTAATTTTAAATTTATA
1 TTAAATTTAAATTT-TA
31695675 TTAAATTTAAATTTTA
1 TTAAATTTAAATTTTA
*
31695691 TGCAAATTTAAATT
1 T-TAAATTTAAATT
31695705 CAAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 3 0.11
17 24 0.89
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
TTAAATTTAAATTTTA
Found at i:31695714 original size:17 final size:18
Alignment explanation
Indices: 31695694--31695734 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
31695684 AATTTTATGC
31695694 AAATTTAAATTCAAAA-T
1 AAATTTAAATTCAAAACT
* *
31695711 AAATCT-AATTTAAAACT
1 AAATTTAAATTCAAAACT
31695728 AAATTTA
1 AAATTTA
31695735 TCTCATTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTAAATTCAAAACT
Found at i:31698622 original size:27 final size:27
Alignment explanation
Indices: 31698584--31698637 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
31698574 TAATTAGTTA
31698584 TGTCATGGATCTCTTCAGGAATCCTCG
1 TGTCATGGATCTCTTCAGGAATCCTCG
31698611 TGTCATGGATCTCTTCAGGAATCCTCG
1 TGTCATGGATCTCTTCAGGAATCCTCG
31698638 CCTCAACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
TGTCATGGATCTCTTCAGGAATCCTCG
Found at i:31700377 original size:166 final size:166
Alignment explanation
Indices: 31700102--31700439 Score: 622
Period size: 166 Copynumber: 2.0 Consensus size: 166
31700092 TAGACATTCA
* *
31700102 CTTCAAGGAATGTGTAAAAAGAAAATAGTTCGGACAATAATGTAAGCATATACCATATTGCTTAC
1 CTTCAAGGAATGTGTAAAAAGAAAATAGTTAGGACAATAATGTAAGCATATACCATATTCCTTAC
*
31700167 CAATAAGATTATATAGATATCATTTGCTTCAAGGAATGATTAATTAGTATGAATCATTGGTCATT
66 CAATAAGATTATATAGATATCATTCGCTTCAAGGAATGATTAATTAGTATGAATCATTGGTCATT
31700232 TTGTTCTAAGAATGAACAGTTAGCAACATTTCAAAT
131 TTGTTCTAAGAATGAACAGTTAGCAACATTTCAAAT
31700268 CTTCAAGGAATGTGTAAAAAGAAAATAGTTAGGACAATAATGTAAGCATATACCATATTCCTTAC
1 CTTCAAGGAATGTGTAAAAAGAAAATAGTTAGGACAATAATGTAAGCATATACCATATTCCTTAC
* *
31700333 CAATAAGATTATATAGATATCATTCGCTTCAAGGAATTATTAATTAGTCTGAATCATTGGTCATT
66 CAATAAGATTATATAGATATCATTCGCTTCAAGGAATGATTAATTAGTATGAATCATTGGTCATT
31700398 TTGTTCTAAGAATGAACAGTTAGCAACATTTCAAAT
131 TTGTTCTAAGAATGAACAGTTAGCAACATTTCAAAT
31700434 CATTCA
1 C-TTCA
31700440 TCTTCTTTTT
Statistics
Matches: 166, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
166 162 0.98
167 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (166 bp):
CTTCAAGGAATGTGTAAAAAGAAAATAGTTAGGACAATAATGTAAGCATATACCATATTCCTTAC
CAATAAGATTATATAGATATCATTCGCTTCAAGGAATGATTAATTAGTATGAATCATTGGTCATT
TTGTTCTAAGAATGAACAGTTAGCAACATTTCAAAT
Found at i:31704762 original size:30 final size:29
Alignment explanation
Indices: 31704673--31704920 Score: 146
Period size: 30 Copynumber: 8.3 Consensus size: 29
31704663 AAATACTATA
* * *
31704673 TTTTAACCCCAAACTTCTCTAAAAATTCAAA
1 TTTTAACCCCAAACTT-TTTAAAATTTC-AT
* * * *
31704704 TTTT-ACCCTCGAGCTTTCTAAAAATTCAT
1 TTTTAACCC-CAAACTTTTTAAAATTTCAT
* * *
31704733 TTTTAACCCTCGAATTTTTTAGAATTTCAT
1 TTTTAACCC-CAAACTTTTTAAAATTTCAT
** * *
31704763 TTTCGACTCCCGAACTTTTTAAAAATTCA-
1 TTTTAAC-CCCAAACTTTTTAAAATTTCAT
**
31704792 TTTTAACCCCTAAACTTTTTAAAATTAAAT
1 TTTTAACCCC-AAACTTTTTAAAATTTCAT
** *
31704822 TTTTAACTCTTAAA-TTTTCTAGAATTTCAT
1 TTTTAAC-CCCAAACTTTT-TAAAATTTCAT
** *
31704852 TTTCGACCCCAAAACTTTCTAAAAATTTCA-
1 TTTTAACCCC-AAACTTT-TTAAAATTTCAT
*
31704882 TTTTAACCCCTAAACCTTTTTAAAATTACA-
1 TTTTAACCCC-AAA-CTTTTTAAAATTTCAT
31704912 TTTTAACCC
1 TTTTAACCC
31704921 TTAAATTTTC
Statistics
Matches: 171, Mismatches: 35, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
28 3 0.02
29 29 0.17
30 111 0.65
31 27 0.16
32 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTTAACCCCAAACTTTTTAAAATTTCAT
Found at i:31704824 original size:89 final size:91
Alignment explanation
Indices: 31704731--31704932 Score: 295
Period size: 89 Copynumber: 2.3 Consensus size: 91
31704721 CTAAAAATTC
* * * *
31704731 ATTTTTAACCCTCGAATTTTTTAGAATTTCATTTTCGACTCCC-GAACTTTTTAAAAA-TTCATT
1 ATTTTTAACCCTCAAATTTTCTAGAATTTCATTTTCGAC-CCCAAAACTTTCTAAAAATTTCATT
31704794 TTAACCCCTAAA-CTTTTTAAAATTAA
65 TTAACCCCTAAACCTTTTTAAAATTAA
* *
31704820 ATTTTTAACTCTTAAATTTTCTAGAATTTCATTTTCGACCCCAAAACTTTCTAAAAATTTCATTT
1 ATTTTTAACCCTCAAATTTTCTAGAATTTCATTTTCGACCCCAAAACTTTCTAAAAATTTCATTT
*
31704885 TAACCCCTAAACCTTTTTAAAATTAC
66 TAACCCCTAAACCTTTTTAAAATTAA
*
31704911 A-TTTTAACCCTTAAATTTTCTA
1 ATTTTTAACCCTCAAATTTTCTA
31704933 AAAAATTACA
Statistics
Matches: 102, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
88 3 0.03
89 47 0.46
90 38 0.37
91 14 0.14
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.44
Consensus pattern (91 bp):
ATTTTTAACCCTCAAATTTTCTAGAATTTCATTTTCGACCCCAAAACTTTCTAAAAATTTCATTT
TAACCCCTAAACCTTTTTAAAATTAA
Found at i:31704931 original size:60 final size:58
Alignment explanation
Indices: 31704775--31704947 Score: 163
Period size: 60 Copynumber: 2.9 Consensus size: 58
31704765 TCGACTCCCG
* * *
31704775 AACTTTTTAAAAATTCATTTTAACCCCTAAACTTTT-T-AAAATTAAATTTTTAACTCTTA
1 AACTTTTT-AAAATTCATTTTAACCCCTAAA-TTTTCTAAAAATTACA-TTTTAACCCCTA
* * * * *
31704834 AA-TTTTCTAGAATTTCATTTTCGACCCCAAAACTTTCTAAAAATTTCATTTTAACCCCTA
1 AACTTTT-TA-AAATTCATTTT-AACCCCTAAATTTTCTAAAAATTACATTTTAACCCCTA
*
31704894 AACCTTTTTAAAATTACATTTTAACCCTTAAATTTTCTAAAAAATTACATTTTA
1 AA-CTTTTTAAAATT-CATTTTAACCCCTAAATTTTCT-AAAAATTACATTTTA
31704948 GCCTATAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
58 5 0.05
59 16 0.18
60 37 0.41
61 29 0.32
62 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.43
Consensus pattern (58 bp):
AACTTTTTAAAATTCATTTTAACCCCTAAATTTTCTAAAAATTACATTTTAACCCCTA
Found at i:31716684 original size:37 final size:39
Alignment explanation
Indices: 31716632--31717471 Score: 307
Period size: 38 Copynumber: 21.8 Consensus size: 39
31716622 ATTTTACATG
* **
31716632 TCTCTTACCCCAATCATGGGGCAGA-CGAAG-CACTTAA
1 TCTCTTACCCTAATCATGGGGCAGATCGAAGACACACAA
* * *
31716669 TCTCTTACCCTAATCA-GAGGGTAGATTGAAGACAGACAA
1 TCTCTTACCCTAATCATG-GGGCAGATCGAAGACACACAA
* *
31716708 TCTCTTACCCTGATCATGGGGCAGATTGAAG-CA-ACCAA
1 TCTCTTACCCTAATCATGGGGCAGATCGAAGACACA-CAA
* * * * *
31716746 TCTTTTACCTTAATCA-GAAGGTAGATTGAAGACACACCAA
1 TCTCTTACCCTAATCATG-GGGCAGATCGAAGACACA-CAA
* * * * *
31716786 TCTCTTACTCC-GATCATGGAGCAGGTTGAAG-CACTCAA
1 TCTCTTAC-CCTAATCATGGGGCAGATCGAAGACACACAA
* * * * * *
31716824 CCTCTTACCCTAATTA-GAGGGCAAATTGTAGACAGACAA
1 TCTCTTACCCTAATCATG-GGGCAGATCGAAGACACACAA
* * * *
31716863 TCTCTTA-CCTCGATCATGGGGTAGATTGAAG-CATC-TAA
1 TCTCTTACCCT-AATCATGGGGCAGATCGAAGACA-CACAA
* * * * *
31716901 TCTTTTACCTTAATTA-GAAGGCAGATTGAAGACA-ACCAA
1 TCTCTTACCCTAATCATG-GGGCAGATCGAAGACACA-CAA
* ** *
31716940 TCTCTTACTCC-GATCATGGATCAGATTGAAG-CATC-CAA
1 TCTCTTAC-CCTAATCATGGGGCAGATCGAAGACA-CACAA
* * * * **
31716978 TCTTTTACCCTAATTA-GAGGGCAGATTGAAGATAGGCAA
1 TCTCTTACCCTAATCATG-GGGCAGATCGAAGACACACAA
* *
31717017 TCTCTTACCCTGATCATGGGGCAGATTGAAG-CATC-CAA
1 TCTCTTACCCTAATCATGGGGCAGATCGAAGACA-CACAA
* * * * *
31717055 TCTTTTACCTTAATCA-GAAGGTAGATTGAAGACACACCAA
1 TCTCTTACCCTAATCATG-GGGCAGATCGAAGACACA-CAA
* * * * *
31717095 TCTCTTACTCC-GATCATGGAGCAGGTTGAAG-CACTCAA
1 TCTCTTAC-CCTAATCATGGGGCAGATCGAAGACACACAA
** ** * **
31717133 TCTCTTACCCTAATCAAAGGGCAGATTAAAGAGATGCAA
1 TCTCTTACCCTAATCATGGGGCAGATCGAAGACACACAA
** *
31717172 TCTCTTACCCCGATCATGGGGCAGATTGAAG-CATC-CAA
1 TCTCTTACCCTAATCATGGGGCAGATCGAAGACA-CACAA
* * * *
31717210 TCTTTTACCTTAATCA-GAAGGCAGATTGAAGACA-ACCAA
1 TCTCTTACCCTAATCATG-GGGCAGATCGAAGACACA-CAA
* * * * *
31717249 TCTCTTACTCC-GATCATAGAGTAGATTGAAG-CATC-CAA
1 TCTCTTAC-CCTAATCATGGGGCAGATCGAAGACA-CACAA
* *
31717287 TCTTTTACCCTAATCA-GAGGGCAGATTGAAGACA-ACCAA
1 TCTCTTACCCTAATCATG-GGGCAGATCGAAGACACA-CAA
* * * **
31717326 TCTTTTACTCC-GATCATGGAGCAGATTTAAG-CATC-CAA
1 TCTCTTAC-CCTAATCATGGGGCAGATCGAAGACA-CACAA
* * * * **
31717364 TCTTTTACCTTAATCA-GAGGGCAGATTGAACACAGGCAA
1 TCTCTTACCCTAATCATG-GGGCAGATCGAAGACACACAA
** * *
31717403 TCTCTTACCCCGATCAT-GGGCAGATTGAA-ACCACCCAA
1 TCTCTTACCCTAATCATGGGGCAGATCGAAGA-CACACAA
** * *
31717441 TCTCTTACCCCGATCATGAGGCAGATTGAAG
1 TCTCTTACCCTAATCATGGGGCAGATCGAAG
31717472 TCATCTTCTT
Statistics
Matches: 612, Mismatches: 126, Indels: 127
0.71 0.15 0.15
Matches are distributed among these distances:
36 1 0.00
37 39 0.06
38 278 0.45
39 233 0.38
40 57 0.09
41 4 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (39 bp):
TCTCTTACCCTAATCATGGGGCAGATCGAAGACACACAA
Found at i:31716762 original size:77 final size:77
Alignment explanation
Indices: 31716632--31717471 Score: 945
Period size: 77 Copynumber: 10.9 Consensus size: 77
31716622 ATTTTACATG
* * * * *
31716632 TCTCTTACCCCAATCATGGGGCAGA-CGAAGCA-CTTAATCTCTTACCCTAATCAGAGGGTAGAT
1 TCTCTTA-CCCGATCATGGGGCAGATTGAAGCATC-CAATCTTTTACCCTAATCAGAGGGCAGAT
31716695 TGAAGACAGA-CAA
64 TGAAGACAGACCAA
* * * *
31716708 TCTCTTACCCTGATCATGGGGCAGATTGAAGCAACCAATCTTTTACCTTAATCAGAAGGTAGATT
1 TCTCTTACCC-GATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
*
31716773 GAAGACACACCAA
65 GAAGACAGACCAA
* * * * * *
31716786 TCTCTTACTCCGATCATGGAGCAGGTTGAAGCA-CTCAACCTCTTACCCTAATTAGAGGGCAAAT
1 TCTCTTAC-CCGATCATGGGGCAGATTGAAGCATC-CAATCTTTTACCCTAATCAGAGGGCAGAT
*
31716850 TGTAGACAGA-CAA
64 TGAAGACAGACCAA
* * * * *
31716863 TCTCTTACCTCGATCATGGGGTAGATTGAAGCATCTAATCTTTTACCTTAATTAGAAGGCAGATT
1 TCTCTTACC-CGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31716928 GAAGACA-ACCAA
65 GAAGACAGACCAA
** *
31716940 TCTCTTACTCCGATCATGGATCAGATTGAAGCATCCAATCTTTTACCCTAATTAGAGGGCAGATT
1 TCTCTTAC-CCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
* *
31717005 GAAGATAG-GCAA
65 GAAGACAGACCAA
* * *
31717017 TCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGTAGATT
1 TCTCTTACCC-GATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
*
31717082 GAAGACACACCAA
65 GAAGACAGACCAA
* * * *
31717095 TCTCTTACTCCGATCATGGAGCAGGTTGAAGCA-CTCAATCTCTTACCCTAATCAAAGGGCAGAT
1 TCTCTTAC-CCGATCATGGGGCAGATTGAAGCATC-CAATCTTTTACCCTAATCAGAGGGCAGAT
* *
31717159 T-AA-AGAGATGCAA
64 TGAAGACAGA-CCAA
* *
31717172 TCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGATT
1 TCTCTTA-CCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31717237 GAAGACA-ACCAA
65 GAAGACAGACCAA
* * *
31717249 TCTCTTACTCCGATCATAGAGTAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
1 TCTCTTAC-CCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
31717314 GAAGACA-ACCAA
65 GAAGACAGACCAA
* * * *
31717326 TCTTTTACTCCGATCATGGAGCAGATTTAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATT
1 TCTCTTAC-CCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
* *
31717391 GAACACAG-GCAA
65 GAAGACAGACCAA
* * * **
31717403 TCTCTTACCCCGATCAT-GGGCAGATTGAAACCACCCAATCTCTTACCCCGATCATGA-GGCAGA
1 TCTCTTA-CCCGATCATGGGGCAGATTG-AAGCATCCAATCTTTTACCCTAATCA-GAGGGCAGA
31717466 TTGAAG
63 TTGAAG
31717472 TCATCTTCTT
Statistics
Matches: 654, Mismatches: 85, Indels: 49
0.83 0.11 0.06
Matches are distributed among these distances:
75 3 0.00
76 36 0.06
77 481 0.74
78 128 0.20
79 6 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (77 bp):
TCTCTTACCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTG
AAGACAGACCAA
Found at i:31717032 original size:154 final size:153
Alignment explanation
Indices: 31716632--31717471 Score: 1136
Period size: 154 Copynumber: 5.4 Consensus size: 153
31716622 ATTTTACATG
* * * * * *
31716632 TCTCTTACCCCAATCATGGGGCAGA-CGAAGCACTTAATCTCTTACCCTAATCAGAGGGTAGATT
1 TCTCTTACTCCGATCATGGAGCAGATTGAAGCAC-CAATCTCTTACCCTAATCAGAGGGCAGATT
*
31716696 GAAGACAGACAATCTCTTACCCTGATCATGGGGCAGATTGAAGCAACCAATCTTTTACCTTAATC
65 GAAGACAGACAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATC
*
31716761 AGAAGGTAGATTGAAGACACACCAA
130 AGAAGGCAGATTGAAGACA-ACCAA
* * * *
31716786 TCTCTTACTCCGATCATGGAGCAGGTTGAAGCACTCAACCTCTTACCCTAATTAGAGGGCAAATT
1 TCTCTTACTCCGATCATGGAGCAGATTGAAGCAC-CAATCTCTTACCCTAATCAGAGGGCAGATT
* * *
31716851 GTAGACAGACAATCTCTTA-CCTCGATCATGGGGTAGATTGAAGCATCTAATCTTTTACCTTAAT
65 GAAGACAGACAATCTCTTACCCT-GATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAAT
*
31716915 TAGAAGGCAGATTGAAGACAACCAA
129 CAGAAGGCAGATTGAAGACAACCAA
* * *
31716940 TCTCTTACTCCGATCATGGATCAGATTGAAGCATCCAATCTTTTACCCTAATTAGAGGGCAGATT
1 TCTCTTACTCCGATCATGGAGCAGATTGAAGCA-CCAATCTCTTACCCTAATCAGAGGGCAGATT
* *
31717005 GAAGATAGGCAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATC
65 GAAGACAGACAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATC
*
31717070 AGAAGGTAGATTGAAGACACACCAA
130 AGAAGGCAGATTGAAGACA-ACCAA
* *
31717095 TCTCTTACTCCGATCATGGAGCAGGTTGAAGCACTCAATCTCTTACCCTAATCAAAGGGCAGATT
1 TCTCTTACTCCGATCATGGAGCAGATTGAAGCAC-CAATCTCTTACCCTAATCAGAGGGCAGATT
* * *
31717160 AAAGAGATG-CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAAT
65 GAAGACA-GACAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAAT
31717224 CAGAAGGCAGATTGAAGACAACCAA
129 CAGAAGGCAGATTGAAGACAACCAA
* * *
31717249 TCTCTTACTCCGATCATAGAGTAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATT
1 TCTCTTACTCCGATCATGGAGCAGATTGAAGCA-CCAATCTCTTACCCTAATCAGAGGGCAGATT
* * *
31717314 GAAGACA-ACCAATCTTTTACTCC-GATCATGGAGCAGATTTAAGCATCCAATCTTTTACCTTAA
65 GAAGACAGA-CAATCTCTTAC-CCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAA
* * **
31717377 TCAGAGGGCAGATTGAACACAGGCAA
128 TCAGAAGGCAGATTGAAGACAACCAA
* * **
31717403 TCTCTTACCCCGATCATGG-GCAGATTGAAACCACCCAATCTCTTACCCCGATCATGA-GGCAGA
1 TCTCTTACTCCGATCATGGAGCAGATTG-AAGCA-CCAATCTCTTACCCTAATCA-GAGGGCAGA
31717466 TTGAAG
63 TTGAAG
31717472 TCATCTTCTT
Statistics
Matches: 614, Mismatches: 59, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
153 7 0.01
154 349 0.57
155 257 0.42
156 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (153 bp):
TCTCTTACTCCGATCATGGAGCAGATTGAAGCACCAATCTCTTACCCTAATCAGAGGGCAGATTG
AAGACAGACAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCA
GAAGGCAGATTGAAGACAACCAA
Found at i:31717232 original size:309 final size:309
Alignment explanation
Indices: 31716667--31717450 Score: 1213
Period size: 309 Copynumber: 2.5 Consensus size: 309
31716657 CGAAGCACTT
* *
31716667 AATCTCTTACCCTAATCAGAGGGTAGATTGAAGACAGACAATCTCTTACCCTGATCATGGGGCAG
1 AATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAGACAATCTCTTACCCTGATCATGGGGCAG
*
31716732 ATTGAAGCAACCAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACACCAATCTCTTACTCC
66 ATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACACCAATCTCTTACTCC
* * * **
31716797 GATCATGGAGCAGGTTGAAGCACTCAACCTCTTACCCTAATTAGAGGGCAAATTGTAGACAGACA
131 GATCATGGAGCAGGTTGAAGCACTCAATCTCTTACCCTAATCAAAGGGCAAATTAAAGACAGACA
* * * *
31716862 ATCTCTTACCTCGATCATGGGGTAGATTGAAGCATCTAATCTTTTACCTTAATTAGAAGGCAGAT
196 ATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGAT
*
31716927 TGAAGACAACCAATCTCTTACTCCGATCATGGA-TCAGATTGAAGCATCC
261 TGAAGACAACCAATCTCTTACTCCGATCATAGAGT-AGATTGAAGCATCC
* * *
31716976 AATCTTTTACCCTAATTAGAGGGCAGATTGAAGATAGGCAATCTCTTACCCTGATCATGGGGCAG
1 AATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAGACAATCTCTTACCCTGATCATGGGGCAG
31717041 ATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACACCAATCTCTTACTCC
66 ATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACACCAATCTCTTACTCC
* *
31717106 GATCATGGAGCAGGTTGAAGCACTCAATCTCTTACCCTAATCAAAGGGCAGATTAAAGAGATG-C
131 GATCATGGAGCAGGTTGAAGCACTCAATCTCTTACCCTAATCAAAGGGCAAATTAAAGACA-GAC
31717170 AATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGA
195 AATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGA
31717235 TTGAAGACAACCAATCTCTTACTCCGATCATAGAGTAGATTGAAGCATCC
260 TTGAAGACAACCAATCTCTTACTCCGATCATAGAGTAGATTGAAGCATCC
* *
31717285 AATCTTTTACCCTAATCAGAGGGCAGATTGAAGACA-ACCAATCTTTTACTCC-GATCATGGAGC
1 AATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAGA-CAATCTCTTAC-CCTGATCATGGGGC
* * * *
31717348 AGATTTAAGCATCCAATCTTTTACCTTAATCAGAGGGCAGATTG-A-ACACAGGCAATCTCTTAC
64 AGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACA-CCAATCTCTTAC
* * * *
31717411 CCCGATCATGG-GCAGATTGAAACCACCCAATCTCTTACCC
128 TCCGATCATGGAGCAGGTTG-AAGCACTCAATCTCTTACCC
31717451 CGATCATGAG
Statistics
Matches: 438, Mismatches: 31, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
307 12 0.03
308 40 0.09
309 382 0.87
310 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (309 bp):
AATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAGACAATCTCTTACCCTGATCATGGGGCAG
ATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACACCAATCTCTTACTCC
GATCATGGAGCAGGTTGAAGCACTCAATCTCTTACCCTAATCAAAGGGCAAATTAAAGACAGACA
ATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAGAT
TGAAGACAACCAATCTCTTACTCCGATCATAGAGTAGATTGAAGCATCC
Found at i:31719286 original size:30 final size:29
Alignment explanation
Indices: 31719250--31719415 Score: 115
Period size: 30 Copynumber: 5.6 Consensus size: 29
31719240 TAAAAATTTG
** * *
31719250 TTTTAACCCTTGAATTTTCTAGATTTTCAT
1 TTTTAACCCTT-AAACTTCTAAAATTTCAT
*
31719280 TTTTAACCCCTAAACTTCTAAAATTTCAT
1 TTTTAACCCTTAAACTTCTAAAATTTCAT
* * *
31719309 TTTTAACCCTCAAAATTTTTAAAATTTCAT
1 TTTTAACCCT-TAAACTTCTAAAATTTCAT
*
31719339 TTTCT-ACCCTTAAACTTTCTAAAAATATCA-
1 TTT-TAACCCTTAAAC-TTCT-AAAATTTCAT
* * *
31719369 TTTTAA-CCTTCAAACCTTTTTTAAATTACA-
1 TTTTAACCCTT-AAA-C-TTCTAAAATTTCAT
*
31719399 TTTTAACCCTCAAACTT
1 TTTTAACCCTTAAACTT
31719416 TTTGAAAATT
Statistics
Matches: 110, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
28 2 0.02
29 32 0.29
30 59 0.54
31 17 0.15
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.45
Consensus pattern (29 bp):
TTTTAACCCTTAAACTTCTAAAATTTCAT
Found at i:31719313 original size:59 final size:60
Alignment explanation
Indices: 31719225--31719448 Score: 160
Period size: 59 Copynumber: 3.8 Consensus size: 60
31719215 ATTCAAATTT
* * ** ** * *
31719225 TACCCCCAAGCTTTCTAAAAAT-TTGTTTTAACCCT-TGAATTTTCTAGATTTTCATTTT-
1 TACCCCTAAACTTTCTAAAAATATCATTTTAACCCTCAAAATTTT-TAAAATTTCATTTTC
*
31719283 TAACCCCTAAAC-TTCT-AAAATTTCATTTTTAACCCTCAAAATTTTTAAAATTTCATTTTC
1 T-ACCCCTAAACTTTCTAAAAATATCA-TTTTAACCCTCAAAATTTTTAAAATTTCATTTTC
* * * * *
31719343 TACCCTTAAACTTTCTAAAAATATCATTTTAACCTTCAAACCTTTTTTAAATTACA-TTT-
1 TACCCCTAAACTTTCTAAAAATATCATTTTAACCCTCAAA-ATTTTTAAAATTTCATTTTC
* * * *
31719402 TAACCCTCAAACTTTTTGAAAAT-TGCATTTT-AGCCTCTAAAATTTTT
1 TACCCCT-AAACTTTCTAAAAATAT-CATTTTAACCCTC-AAAATTTTT
31719449 CAAGATTTTA
Statistics
Matches: 134, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
57 5 0.04
58 6 0.04
59 54 0.40
60 49 0.37
61 20 0.15
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (60 bp):
TACCCCTAAACTTTCTAAAAATATCATTTTAACCCTCAAAATTTTTAAAATTTCATTTTC
Found at i:31719341 original size:29 final size:29
Alignment explanation
Indices: 31719274--31719448 Score: 138
Period size: 30 Copynumber: 5.9 Consensus size: 29
31719264 TTTTCTAGAT
* * *
31719274 TTTCATTTTTAACCC-CTAAACTTCTAAAA
1 TTTCA-TTTTAACCCTCAAAATTTTTAAAA
31719303 TTTCATTTTTAACCCTCAAAATTTTTAAAA
1 TTTCA-TTTTAACCCTCAAAATTTTTAAAA
* * * *
31719333 TTTCATTTTCTACCCTTAAACTTTCTAAAAA
1 TTTCATTTT-AACCCTCAAAATTT-TTAAAA
* * * *
31719364 TATCATTTTAACCTTCAAACCTTTTTTAAA
1 TTTCATTTTAACCCTCAAA-ATTTTTAAAA
* *
31719394 TTACATTTTAACCCTCAAACTTTTTGAAAA
1 TTTCATTTTAACCCTCAAAATTTTT-AAAA
* *
31719424 TTGCATTTT-AGCCTCTAAAATTTTT
1 TTTCATTTTAACCCTC-AAAATTTTT
31719449 CAAGATTTTA
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
29 30 0.25
30 73 0.61
31 17 0.14
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTCATTTTAACCCTCAAAATTTTTAAAA
Found at i:31719373 original size:60 final size:58
Alignment explanation
Indices: 31719235--31719467 Score: 184
Period size: 60 Copynumber: 3.9 Consensus size: 58
31719225 TACCCCCAAG
** ** * * *
31719235 CTTTCTAAAAATTTGTTTTAACCCT-TGAATTTTCTAGATTTTCATTTTTAACCCCTAAA
1 CTTTCTAAAAATTCATTTTAACCCTCAAAATTTT-TAAAATTTCATTTTT-ACCCTTAAA
*
31719294 C-TTCTAAAATTTCATTTTTAACCCTCAAAATTTTTAAAATTTCATTTTCTACCCTTAAA
1 CTTTCTAAAAATTCA-TTTTAACCCTCAAAATTTTTAAAATTTCATTTT-TACCCTTAAA
* * * * * *
31719353 CTTTCTAAAAATATCATTTTAACCTTCAAACCTTTTTTAAATTACATTTTAACCCTCAAA
1 CTTTCTAAAAAT-TCATTTTAACCCTCAAA-ATTTTTAAAATTTCATTTTTACCCTTAAA
* * * * * *
31719413 CTTTTTGAAAATTGCATTTT-AGCCTCTAAAATTTTTCAAGATTTTAATTTTACCC
1 CTTTCTAAAAATT-CATTTTAACCCTC-AAAATTTTT-AAAATTTCATTTTTACCC
31719468 CTTTTTTCCT
Statistics
Matches: 139, Mismatches: 26, Indels: 17
0.76 0.14 0.09
Matches are distributed among these distances:
58 10 0.07
59 42 0.30
60 68 0.49
61 19 0.14
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (58 bp):
CTTTCTAAAAATTCATTTTAACCCTCAAAATTTTTAAAATTTCATTTTTACCCTTAAA
Found at i:31719425 original size:30 final size:29
Alignment explanation
Indices: 31719280--31719433 Score: 141
Period size: 30 Copynumber: 5.2 Consensus size: 29
31719270 AGATTTTCAT
* *
31719280 TTTTAACCC-CTAAAC-TTCTAAAATTTCA
1 TTTTAACCCTC-AAACTTTTTAAAATTACA
* *
31719308 TTTTTAACCCTCAAAATTTTTAAAATTTCA
1 -TTTTAACCCTCAAACTTTTTAAAATTACA
* * * *
31719338 TTTTCTACCCTTAAACTTTCTAAAAATATCA
1 TTTT-AACCCTCAAACTTTTTAAAATTA-CA
* *
31719369 TTTTAACCTTCAAACCTTTTTTAAATTACA
1 TTTTAACCCTCAAA-CTTTTTAAAATTACA
*
31719399 TTTTAACCCTCAAACTTTTTGAAAATTGCA
1 TTTTAACCCTCAAACTTTTT-AAAATTACA
31719429 TTTTA
1 TTTTA
31719434 GCCTCTAAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
29 22 0.22
30 64 0.63
31 16 0.16
ACGTcount: A:0.34, C:0.20, G:0.01, T:0.44
Consensus pattern (29 bp):
TTTTAACCCTCAAACTTTTTAAAATTACA
Found at i:31721340 original size:10 final size:9
Alignment explanation
Indices: 31721312--31721359 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
31721302 GAGAAATTTA
31721312 TTTTTTTTC
1 TTTTTTTTC
*
31721321 TTTATTTTC
1 TTTTTTTTC
31721330 TTTTTTATTC
1 TTTTTT-TTC
31721340 TTTATTTTTC
1 TTT-TTTTTC
* *
31721350 ATTCTTTTC
1 TTTTTTTTC
31721359 T
1 T
31721360 GCTTCTTCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 18 0.56
10 11 0.34
11 3 0.09
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:31721340 original size:19 final size:18
Alignment explanation
Indices: 31721312--31721347 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
31721302 GAGAAATTTA
31721312 TTTTTTTTCTTTATTTTC
1 TTTTTTTTCTTTATTTTC
31721330 TTTTTTATTCTTTATTTT
1 TTTTTT-TTCTTTATTTT
31721348 TCATTCTTTT
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:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTCTTTATTTTC
Found at i:31721359 original size:19 final size:18
Alignment explanation
Indices: 31721316--31721359 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
31721306 AATTTATTTT
* *
31721316 TTTTCTTTATTTTCTTTT
1 TTTTCTTTATTTTCATTC
31721334 TTATTCTTTATTTTTCATTC
1 TT-TTCTTTA-TTTTCATTC
31721354 TTTTCT
1 TTTTCT
31721360 GCTTCTTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.50
20 9 0.41
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTTTATTTTCATTC
Found at i:31728644 original size:31 final size:29
Alignment explanation
Indices: 31728590--31728725 Score: 89
Period size: 31 Copynumber: 4.4 Consensus size: 29
31728580 ATTTCTTTAA
* *
31728590 ATGTATATGATTAAATCAAAATTAAAGTTTC
1 ATGTATAT-ATTGAA-CCAAATTAAAGTTTC
*
31728621 ATGTATATATGTGAACCACAATTAGAAATTTAC
1 ATGTATATAT-TGAACCA-AATTA-AAGTTT-C
* *
31728654 GTGTATA-ATTGCACCAAATTAAAG-TTC
1 ATGTATATATTGAACCAAATTAAAGTTTC
** *
31728681 ATGTATATAATTGCACATTAAATTAATG-TTC
1 ATGTATAT-ATTG-A-ACCAAATTAAAGTTTC
31728712 ATGTATAATATTGA
1 ATGTAT-ATATTGA
31728726 GATTTATCCC
Statistics
Matches: 85, Mismatches: 11, Indels: 19
0.74 0.10 0.17
Matches are distributed among these distances:
27 7 0.08
28 2 0.02
29 6 0.07
30 10 0.12
31 44 0.52
32 9 0.11
33 7 0.08
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.38
Consensus pattern (29 bp):
ATGTATATATTGAACCAAATTAAAGTTTC
Found at i:31728691 original size:29 final size:29
Alignment explanation
Indices: 31728608--31728718 Score: 98
Period size: 31 Copynumber: 3.7 Consensus size: 29
31728598 GATTAAATCA
*
31728608 AAATTAAAGTTTCATGTATAT-ATGTGAACC
1 AAATTAAAG-TTCATGTATATAAT-TGCACC
* * * *
31728638 ACAATTAGAAATTTACGTGTATAATTGCACC
1 A-AATTA-AAGTTCATGTATATAATTGCACC
*
31728669 AAATTAAAGTTCATGTATATAATTGCACATT
1 AAATTAAAGTTCATGTATATAATTGCAC--C
*
31728700 AAATTAATGTTCATGTATA
1 AAATTAAAGTTCATGTATA
31728719 ATATTGAGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
29 18 0.28
30 6 0.09
31 37 0.57
32 4 0.06
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (29 bp):
AAATTAAAGTTCATGTATATAATTGCACC
Found at i:31732891 original size:8 final size:8
Alignment explanation
Indices: 31732878--31732974 Score: 62
Period size: 8 Copynumber: 12.2 Consensus size: 8
31732868 ATAACACAAA
31732878 TATTTAAT
1 TATTTAAT
31732886 TATTTAAT
1 TATTTAAT
*
31732894 TATTAAAAAT
1 TATT--TAAT
* *
31732904 AATTCAAAAT
1 TATT--TAAT
31732914 T-TTTAAT
1 TATTTAAT
*
31732921 TGTTTAAT
1 TATTTAAT
31732929 TATTTAAT
1 TATTTAAT
31732937 TATTT-A-
1 TATTTAAT
31732943 -ATTTAA-
1 TATTTAAT
*
31732949 TATTTAAA
1 TATTTAAT
31732957 TATTTAAT
1 TATTTAAT
31732965 T-TATTAAT
1 TAT-TTAAT
31732973 TA
1 TA
31732975 AATATTAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.05
6 1 0.01
7 12 0.16
8 44 0.59
9 2 0.03
10 11 0.15
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (8 bp):
TATTTAAT
Found at i:31732927 original size:35 final size:34
Alignment explanation
Indices: 31732848--31732932 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
31732838 TTCTACAAAA
31732848 TAATTATTTAATTATTAAAAATAACACAAATATT
1 TAATTATTTAATTATTAAAAATAACACAAATATT
*
31732882 TAATTATTTAATTATTAAAAATAATTCA-AAATTTT
1 TAATTATTTAATTATTAAAAATAA--CACAAATATT
*
31732917 TAATTGTTTAATTATT
1 TAATTATTTAATTATT
31732933 TAATTATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 24 0.51
35 21 0.45
36 2 0.04
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (34 bp):
TAATTATTTAATTATTAAAAATAACACAAATATT
Found at i:31732954 original size:20 final size:21
Alignment explanation
Indices: 31732923--31732984 Score: 85
Period size: 20 Copynumber: 3.1 Consensus size: 21
31732913 TTTTTAATTG
*
31732923 TTTAATTATTTAATTATTTAA
1 TTTAATTATTTAAATATTTAA
31732944 TTTAA-TATTTAAATATTTAA
1 TTTAATTATTTAAATATTTAA
*
31732964 TTT-ATTAATTAAATA-TTAA
1 TTTAATTATTTAAATATTTAA
31732983 TT
1 TT
31732985 ATTAAAAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.18
20 26 0.68
21 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAATTATTTAAATATTTAA
Found at i:31732954 original size:28 final size:28
Alignment explanation
Indices: 31732923--31732987 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
31732913 TTTTTAATTG
*
31732923 TTTAATTATTTAA-TTATTTAATTTAATA
1 TTTAATTATTTAATTTA-TTAATTAAATA
*
31732951 TTTAAATATTTAATTTATTAATTAAATA
1 TTTAATTATTTAATTTATTAATTAAATA
31732979 -TTAATTATT
1 TTTAATTATT
31732988 AAAAACTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 8 0.24
28 22 0.67
29 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTAATTATTTAATTTATTAATTAAATA
Found at i:31733037 original size:34 final size:34
Alignment explanation
Indices: 31732974--31733055 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
31732964 TTTATTAATT
*
31732974 AAATA-TTAATTATTAAAAACTCACCAAATATTC
1 AAATATTTAATTATTAAAAACTAACCAAATATTC
* * *
31733007 AATTATTTAATTATTAAAAGC-AACCTAAATATTT
1 AAATATTTAATTATTAAAAACTAACC-AAATATTC
*
31733041 AAATATTCAATTATT
1 AAATATTTAATTATT
31733056 TAATTATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.17
34 34 0.83
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (34 bp):
AAATATTTAATTATTAAAAACTAACCAAATATTC
Found at i:31733067 original size:8 final size:8
Alignment explanation
Indices: 31733036--31733079 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
31733026 GCAACCTAAA
*
31733036 TATTTAAA
1 TATTTAAT
*
31733044 TATTCAAT
1 TATTTAAT
31733052 TATTTAAT
1 TATTTAAT
31733060 TATTTAAT
1 TATTTAAT
* *
31733068 TAGTTATT
1 TATTTAAT
31733076 TATT
1 TATT
31733080 AAACTCTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (8 bp):
TATTTAAT
Found at i:31733202 original size:33 final size:34
Alignment explanation
Indices: 31733160--31733231 Score: 128
Period size: 33 Copynumber: 2.1 Consensus size: 34
31733150 AATATTTAGT
31733160 TATTTAATTAGTTAATTATT-AAAACAAACCAAA
1 TATTTAATTAGTTAATTATTAAAAACAAACCAAA
*
31733193 TATTTAATTAGTTAATTATTAAAAACAACCCAAA
1 TATTTAATTAGTTAATTATTAAAAACAAACCAAA
31733227 TATTT
1 TATTT
31733232 TTTCTAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 20 0.54
34 17 0.46
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.39
Consensus pattern (34 bp):
TATTTAATTAGTTAATTATTAAAAACAAACCAAA
Found at i:31733208 original size:41 final size:41
Alignment explanation
Indices: 31733129--31733214 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
31733119 AGGCAAATAT
* *
31733129 TTAATTATTAAAAATAACCCAAATATTTAGTTATTTAATTA
1 TTAATTATTAAAAATAACCCAAATATTTAATTAGTTAATTA
31733170 GTTAATTATTAAAACA-AA-CCAAATATTTAATTAGTTAATTA
1 -TTAATTATTAAAA-ATAACCCAAATATTTAATTAGTTAATTA
31733211 TTAA
1 TTAA
31733215 AAACAACCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 4 0.10
41 21 0.51
42 15 0.37
43 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (41 bp):
TTAATTATTAAAAATAACCCAAATATTTAATTAGTTAATTA
Found at i:31735731 original size:43 final size:42
Alignment explanation
Indices: 31735634--31735983 Score: 279
Period size: 43 Copynumber: 8.2 Consensus size: 42
31735624 CTGTTAATGC
* * * *
31735634 TAGCGACGTTTGTGGGGAAAACTCCACTAAAGAACATGTTCTA
1 TAGCGGCGTTTGT-GGGAAAACGCCGCTAAAGACCATGTTCTA
* *** ** *
31735677 TAACAATGTTTGTGGGACAAACGTTGCTAAAGAACATGTTCTA
1 TAGCGGCGTTTGTGGGA-AAACGCCGCTAAAGACCATGTTCTA
* * *
31735720 TAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGATCATGTCCTA
1 TAGCGGCGTTTGTGGG-AAAACGCCGCTAAAGACCATGTTCTA
* * *
31735763 TAGTGGCGTTTGTGGGAAAA-GCACTGCTAAAGACCATGTTATT
1 TAGCGGCGTTTGTGGGAAAACGC-C-GCTAAAGACCATGTTCTA
* * * *
31735806 TAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGGCCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAA-CGCCGCTAAAGACCATGTTCTA
* * ** * * *
31735849 TAGTGGCGTTTTTGTTATAAACGCCGTTAAAAACCATGTTCTT
1 TAGCGGCGTTTGTGGGA-AAACGCCGCTAAAGACCATGTTCTA
*** * * * *
31735892 TAGCGAAATTTGTGAGAATAGCGTCGCTAAAGACCATGTTCTT
1 TAGCGGCGTTTGTGGGAA-AACGCCGCTAAAGACCATGTTCTA
* **
31735935 TAGCGACGTTTGTATGAAAACGCCGCTAAAGACCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAACGCCGCTAAAGACCATGTTCTA
31735977 TAGCGGC
1 TAGCGGC
31735984 ATTTTTTCTT
Statistics
Matches: 251, Mismatches: 48, Indels: 17
0.79 0.15 0.05
Matches are distributed among these distances:
41 2 0.01
42 37 0.15
43 205 0.82
44 5 0.02
45 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGAAAACGCCGCTAAAGACCATGTTCTA
Found at i:31738643 original size:14 final size:14
Alignment explanation
Indices: 31738624--31738655 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
31738614 TATACGAATG
31738624 AATAAATATAAGAA
1 AATAAATATAAGAA
*
31738638 AATAAATATAATAA
1 AATAAATATAAGAA
31738652 AATA
1 AATA
31738656 CGAATCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
AATAAATATAAGAA
Found at i:31738927 original size:29 final size:28
Alignment explanation
Indices: 31738806--31739179 Score: 281
Period size: 29 Copynumber: 13.1 Consensus size: 28
31738796 GAAAGTTTAG
* * * *
31738806 GGGGTGAAAATGTCATTTTGGGAAAATTC
1 GGGGTAAAAATGTAATTTTTGG-AAGTTC
* *
31738835 AGGGTAAAAATGTGATTTTTGGGAAGTTC
1 GGGGTAAAAATGTAATTTTT-GGAAGTTC
* * *
31738864 -GAG-CAAAATGTAATTTTTTGAAGTTC
1 GGGGTAAAAATGTAATTTTTGGAAGTTC
** *
31738890 GGGACAAAAATGTAATTTTTGAGAAGTTT
1 GGGGTAAAAATGTAATTTTTG-GAAGTTC
* * * *
31738919 GGGGTAAAAATATGATTTTTGAAAGTTTA
1 GGGGTAAAAATGTAATTTTTGGAAG-TTC
* *
31738948 GGGGTAAAAATATAATTTTTGGAAGATC
1 GGGGTAAAAATGTAATTTTTGGAAGTTC
* *
31738976 GAGGGTAAACATGTGATTTTTGGAAGTTC
1 G-GGGTAAAAATGTAATTTTTGGAAGTTC
*
31739005 GAGGGAAAAAATGT-ATTTTTGGAAGTTC
1 G-GGGTAAAAATGTAATTTTTGGAAGTTC
*
31739033 GAGGG-CAAAATGTAATTTTTGAGAAGTTC
1 G-GGGTAAAAATGTAATTTTTG-GAAGTTC
* * *
31739062 GAGGGCAAAAATGTGATTTTTGGAAGTTTA
1 G-GGGTAAAAATGTAATTTTTGGAAG-TTC
* * ** *
31739092 GGGGCAAAAATGTGATTTTTAAAAGATTA
1 GGGGTAAAAATGTAATTTTTGGAAG-TTC
*
31739121 GGGG-AAAAATATAATTTTTGGAAGTTC
1 GGGGTAAAAATGTAATTTTTGGAAGTTC
* * * * *
31739148 AGAGATAAAAATATGATTTTTAGAAGTTC
1 -GGGGTAAAAATGTAATTTTTGGAAGTTC
31739177 GGG
1 GGG
31739180 TGCCTTTTGG
Statistics
Matches: 286, Mismatches: 47, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
26 7 0.02
27 23 0.08
28 67 0.23
29 170 0.59
30 19 0.07
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (28 bp):
GGGGTAAAAATGTAATTTTTGGAAGTTC
Found at i:31739003 original size:86 final size:83
Alignment explanation
Indices: 31738868--31739175 Score: 325
Period size: 86 Copynumber: 3.6 Consensus size: 83
31738858 AAGTTCGAGC
* * *
31738868 AAAATGTAATTTTTTGAAGTTCG-GGACAAAAATGTAATTTTTGAGAAGTTTGGGGTAAAAATAT
1 AAAATATAATTTTTGGAAGTTCGAGGACAAAAATGTGATTTTTG-GAAGTTTGGGG-AAAAATAT
31738932 GATTTTTGAAAGTTTAGGGGTA
64 GATTTTTGAAAG-TTAGGGG-A
* ** * *
31738954 AAAATATAATTTTTGGAAGATCGAGGGTAAACATGTGATTTTTGGAAGTTCGAGGGAAAAA-ATG
1 AAAATATAATTTTTGGAAGTTCGAGGACAAAAATGTGATTTTTGGAAGTTTG-GGGAAAAATATG
* * *
31739018 TATTTTTGGAAGTTCGAGGGC
65 -ATTTTTGAAAGTTAG-GGGA
* * *
31739039 AAAATGTAATTTTTGAGAAGTTCGAGGGCAAAAATGTGATTTTTGGAAGTTTAGGGGCAAAAATG
1 AAAATATAATTTTTG-GAAGTTCGAGGACAAAAATGTGATTTTTGGAAGTTT-GGGG-AAAAATA
*
31739104 TGATTTTTAAAAGATTAGGGGA
63 TGATTTTTGAAAG-TTAGGGGA
* * *
31739126 AAAATATAATTTTTGGAAGTTC-AGAGATAAAAATATGATTTTTAGAAGTT
1 AAAATATAATTTTTGGAAGTTCGAG-GACAAAAATGTGATTTTTGGAAGTT
31739176 CGGGTGCCTT
Statistics
Matches: 186, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
85 22 0.12
86 108 0.58
87 51 0.27
88 5 0.03
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (83 bp):
AAAATATAATTTTTGGAAGTTCGAGGACAAAAATGTGATTTTTGGAAGTTTGGGGAAAAATATGA
TTTTTGAAAGTTAGGGGA
Found at i:31739059 original size:57 final size:58
Alignment explanation
Indices: 31738835--31739177 Score: 284
Period size: 57 Copynumber: 6.0 Consensus size: 58
31738825 GGGAAAATTC
* * * *
31738835 AGGGTAAAAATGTGATTTTTGGGAAGTTCGA--GCAAAATGTAATTTTT-TGAAGTTC-
1 AGGGAAAAAATGTAATTTTT-GGAAGTTCGAGGGCAAAATGTGATTTTTGAGAAGTTCG
* * * *
31738890 -GGGACAAAAATGTAATTTTTGAGAAGTTTG-GGGTAAAAATATGATTTTTGA-AAGTT-T
1 AGGGA-AAAAATGTAATTTTTG-GAAGTTCGAGGG-CAAAATGTGATTTTTGAGAAGTTCG
* * * *
31738947 AGGGGTAAAAATATAATTTTTGGAAGATCGAGGGTAAACATGTGATTTTTG-GAAGTTCG
1 A-GGGAAAAAATGTAATTTTTGGAAGTTCGAGGGCAAA-ATGTGATTTTTGAGAAGTTCG
*
31739006 AGGGAAAAAATGT-ATTTTTGGAAGTTCGAGGGCAAAATGTAATTTTTGAGAAGTTCG
1 AGGGAAAAAATGTAATTTTTGGAAGTTCGAGGGCAAAATGTGATTTTTGAGAAGTTCG
* * * *
31739063 AGGGCAAAAATGTGATTTTTGGAAGTT-TAGGGGCAAAAATGTGATTTTT-AAAAGATT--
1 AGGGAAAAAATGTAATTTTTGGAAGTTCGA-GGGC-AAAATGTGATTTTTGAGAAG-TTCG
* * *** *
31739120 AGGGGAAAAATATAATTTTTGGAAGTTCAGAGATAAAAATATGATTTTT-AGAAGTTCG
1 AGGGAAAAAATGTAATTTTTGGAAGTTC-GAGGGCAAAATGTGATTTTTGAGAAGTTCG
31739178 GGTGCCTTTT
Statistics
Matches: 234, Mismatches: 32, Indels: 41
0.76 0.10 0.13
Matches are distributed among these distances:
54 4 0.02
55 21 0.09
56 14 0.06
57 109 0.47
58 66 0.28
59 20 0.09
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (58 bp):
AGGGAAAAAATGTAATTTTTGGAAGTTCGAGGGCAAAATGTGATTTTTGAGAAGTTCG
Found at i:31739463 original size:35 final size:35
Alignment explanation
Indices: 31739417--31739489 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
31739407 CAAAATAATA
31739417 TATAAGTTAAAAAATCTTCAAAAAAACATTTCTCC
1 TATAAGTTAAAAAATCTTCAAAAAAACATTTCTCC
31739452 TATAAGTTAAAAAATCTTCAAAAAAACATTTCTCC
1 TATAAGTTAAAAAATCTTCAAAAAAACATTTCTCC
31739487 TAT
1 TAT
31739490 TCTTTCTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (35 bp):
TATAAGTTAAAAAATCTTCAAAAAAACATTTCTCC
Found at i:31740913 original size:17 final size:17
Alignment explanation
Indices: 31740891--31740934 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
31740881 GACTCTTTTA
31740891 AATTTAAATTTAGAATG
1 AATTTAAATTTAGAATG
***
31740908 AATTTAAATTTATTTTG
1 AATTTAAATTTAGAATG
31740925 AATTTAAATT
1 AATTTAAATT
31740935 CATTCTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (17 bp):
AATTTAAATTTAGAATG
Found at i:31740945 original size:17 final size:17
Alignment explanation
Indices: 31740908--31740949 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
31740898 ATTTAGAATG
* * *
31740908 AATTTAAATTTATTTTG
1 AATTTAAATTCATTCTA
31740925 AATTTAAATTCATTCTA
1 AATTTAAATTCATTCTA
31740942 AATTTAAA
1 AATTTAAA
31740950 CTTAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (17 bp):
AATTTAAATTCATTCTA
Found at i:31740960 original size:17 final size:17
Alignment explanation
Indices: 31740940--31740974 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
31740930 AAATTCATTC
*
31740940 TAAATTTAAACTTAAAA
1 TAAATTAAAACTTAAAA
*
31740957 TAAATTAAAATTTAAAA
1 TAAATTAAAACTTAAAA
31740974 T
1 T
31740975 TGGGTCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAATTAAAACTTAAAA
Found at i:31741695 original size:77 final size:78
Alignment explanation
Indices: 31741595--31741743 Score: 219
Period size: 77 Copynumber: 1.9 Consensus size: 78
31741585 GGCTGATGGT
* * * * *
31741595 AATCTACCCCAGGCTTGACGTAAGAGATTGGCTGATGGTGATTTTCCTCAGGCTTAGGGTAA-AG
1 AATCTACCCCAAGCTCGACGTAAGAGATTGGCTGATGGTGATTTCCCCCAGGCTCAGGGTAAGAG
31741659 ATCGAATGGCTAC
66 ATCGAATGGCTAC
** *
31741672 AATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATTTCCCCCAGGCTCGGGGTAAGAG
1 AATCTACCCCAAGCTCGACGTAAGAGATTGGCTGATGGTGATTTCCCCCAGGCTCAGGGTAAGAG
31741737 ATCGAAT
66 ATCGAAT
31741744 CTTCTATCTA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
77 54 0.86
78 9 0.14
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (78 bp):
AATCTACCCCAAGCTCGACGTAAGAGATTGGCTGATGGTGATTTCCCCCAGGCTCAGGGTAAGAG
ATCGAATGGCTAC
Found at i:31741727 original size:39 final size:39
Alignment explanation
Indices: 31741478--31741738 Score: 210
Period size: 39 Copynumber: 6.7 Consensus size: 39
31741468 GGATGGTTGC
* * * *
31741478 AATCTGCCCCTGGCTCGAGGTAAAAGATTGGCTGATGGT
1 AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGT
* * * * ** *
31741517 AATCTGCCCCAGGCTCGGGGTAAAAAATCGAATGACT-GC
1 AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGT
*
31741556 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGT
1 AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGT
* **
31741595 AATCTACCCCAGGCTTGACGTAAGAGATTGGCTGATGGT
1 AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGT
* * * * **
31741634 GATTTTCCTCAGGCTTAGGGTAA-AGA-T--C-GAATGGCT
1 AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTG-ATGG-T
*
31741670 ACAATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
1 --AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGT
* * *
31741711 GATTTCCCCCAGGCTCGGGGTAAGAGAT
1 AATCTACCCCAGGCTCGGGGTAAGAGAT
31741739 CGAATCTTCT
Statistics
Matches: 176, Mismatches: 35, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
34 1 0.01
35 5 0.03
36 1 0.01
37 1 0.01
38 20 0.11
39 139 0.79
40 2 0.01
41 1 0.01
42 5 0.03
43 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (39 bp):
AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGT
Found at i:31741734 original size:116 final size:117
Alignment explanation
Indices: 31741478--31741738 Score: 335
Period size: 116 Copynumber: 2.2 Consensus size: 117
31741468 GGATGGTTGC
* * * *
31741478 AATCTGCCCCTGGCTCGAGGTAAAAGATTGGCTGATGGTAATCTGCCCCAGGCTCGGGGTAAAAA
1 AATCTACCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTAATCTGCCCCAGGCTCAGGGTAAAAA
* * *
31741543 ATCGAATGACTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGT
66 ATCGAATGACTACAATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
* * * * * * * *
31741595 AATCTACCCCAGGCTTGACGTAAGAGATTGGCTGATGGTGATTTTCCTCAGGCTTAGGGT-AAAG
1 AATCTACCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTAATCTGCCCCAGGCTCAGGGTAAAAA
*
31741659 ATCGAATGGCTACAATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
66 ATCGAATGACTACAATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
* * * *
31741711 GATTTCCCCCAGGCTCGGGGTAAGAGAT
1 AATCTACCCCAGGCTCGAGGTAAGAGAT
31741739 CGAATCTTCT
Statistics
Matches: 122, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
116 73 0.60
117 49 0.40
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (117 bp):
AATCTACCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTAATCTGCCCCAGGCTCAGGGTAAAAA
ATCGAATGACTACAATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
Found at i:31753510 original size:14 final size:15
Alignment explanation
Indices: 31753481--31753514 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
31753471 CACGAACAAT
31753481 TATACGAATGAATAAA
1 TATACGAA-GAATAAA
31753497 TATACGAA-AATAAA
1 TATACGAAGAATAAA
31753511 TATA
1 TATA
31753515 ATAAAATACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
16 8 0.44
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (15 bp):
TATACGAAGAATAAA
Found at i:31753716 original size:28 final size:29
Alignment explanation
Indices: 31753661--31753875 Score: 198
Period size: 28 Copynumber: 7.6 Consensus size: 29
31753651 GGTTAAAACA
* *
31753661 TAATTTTGGA-AAGTTTAAGGGTGAAAATG
1 TAATTTTTGAGAAGTTT-AGGGTAAAAATG
* *
31753690 TCA-TTTTGAGAAATTTAGGGTAAAAATG
1 TAATTTTTGAGAAGTTTAGGGTAAAAATG
* *
31753718 TGATTTTTGAGAAGTTT-GAGG-CAAAATG
1 TAATTTTTGAGAAGTTTAG-GGTAAAAATG
* *
31753746 TAATTTTTGA-AGGTTCGAGGGTAAAAATG
1 TAATTTTTGAGAAGTT-TAGGGTAAAAATG
31753775 TAATTTTT-AGAAGTTTAGGGGT-AAAATG
1 TAATTTTTGAGAAGTTTA-GGGTAAAAATG
*
31753803 TAATTTTTAAGAAGTTTAGGGGTAAAAATG
1 TAATTTTTGAGAAGTTTA-GGGTAAAAATG
* *
31753833 TGATTTTTG-GATA-TTTAGGGGAAAAATG
1 TAATTTTTGAGA-AGTTTAGGGTAAAAATG
*
31753861 TGATTTTTG-GAAGTT
1 TAATTTTTGAGAAGTT
31753876 CGGAGGCCTT
Statistics
Matches: 158, Mismatches: 16, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.03
28 75 0.47
29 64 0.41
30 14 0.09
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (29 bp):
TAATTTTTGAGAAGTTTAGGGTAAAAATG
Found at i:31753839 original size:58 final size:57
Alignment explanation
Indices: 31753671--31753875 Score: 220
Period size: 58 Copynumber: 3.6 Consensus size: 57
31753661 TAATTTTGGA
* * * *
31753671 AAGTTTAAGGGTGAAAATGTCATTTTGAGAAATTTA-GGGTAAAAATGTGATTTTTGAG
1 AAGTTTAGGGGT-AAAATGTAATTTTTAGAAGTTTAGGGGTAAAAATGTGATTTTT-AG
* * * * *
31753729 AAGTTT-GAGGCAAAATGTAATTTTT-GAAGGTTCGAGGGTAAAAATGTAATTTTTAG
1 AAGTTTAGGGGTAAAATGTAATTTTTAGAAGTTTAG-GGGTAAAAATGTGATTTTTAG
*
31753785 AAGTTTAGGGGTAAAATGTAATTTTTAAGAAGTTTAGGGGTAAAAATGTGATTTTTGG
1 AAGTTTAGGGGTAAAATGTAATTTTT-AGAAGTTTAGGGGTAAAAATGTGATTTTTAG
* * *
31753843 ATA-TTTAGGGGAAAAATGTGATTTTTGGAAGTT
1 A-AGTTTAGGGGTAAAATGTAATTTTTAGAAGTT
31753876 CGGAGGCCTT
Statistics
Matches: 123, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
55 5 0.04
56 20 0.16
57 43 0.35
58 47 0.38
59 8 0.07
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.37
Consensus pattern (57 bp):
AAGTTTAGGGGTAAAATGTAATTTTTAGAAGTTTAGGGGTAAAAATGTGATTTTTAG
Found at i:31755600 original size:6 final size:6
Alignment explanation
Indices: 31755589--31755674 Score: 65
Period size: 6 Copynumber: 15.0 Consensus size: 6
31755579 TTTGAACTCC
* * *
31755589 TTTAAA TTTAAA TTTAGAA --TGAA TTTAAA TTCAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
31755635 TTTAAA -CTAAA TTTAAA ATTAAA -ATAAA TTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
31755675 ATTGAGTTCA
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
4 2 0.03
5 12 0.20
6 45 0.74
7 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:31755615 original size:17 final size:17
Alignment explanation
Indices: 31755591--31755676 Score: 118
Period size: 17 Copynumber: 5.1 Consensus size: 17
31755581 TGAACTCCTT
*
31755591 TAAATTTAAATTTAGAA
1 TAAATTTAAATTTAAAA
* *
31755608 TGAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
*
31755625 TAAATTTAAATTTAAAC
1 TAAATTTAAATTTAAAA
*
31755642 TAAATTTAAAATTAAAA
1 TAAATTTAAATTTAAAA
*
31755659 TAAATTAAAATTTAAAA
1 TAAATTTAAATTTAAAA
31755676 T
1 T
31755677 TGAGTTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 59 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:31765341 original size:20 final size:20
Alignment explanation
Indices: 31765297--31765347 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
31765287 TTTTACCCTT
*
31765297 TTTTTTGGTATCCCTTCATA
1 TTTTTTGGTATCCCTACATA
*
31765317 -ATTTTGGTATTCCC-ACATA
1 TTTTTTGGTA-TCCCTACATA
31765336 TTTTTT-GTATCC
1 TTTTTTGGTATCC
31765348 TTTTGTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.12
19 15 0.58
20 8 0.31
ACGTcount: A:0.18, C:0.20, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTTTTGGTATCCCTACATA
Found at i:31765395 original size:18 final size:20
Alignment explanation
Indices: 31765355--31765436 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
31765345 TCCTTTTGTA
* *
31765355 TTTTTGGTACTTACTCCTTT
1 TTTTTGGTACTTACTCATAT
31765375 TTTTTGGTAC-T-CTCATAT
1 TTTTTGGTACTTACTCATAT
* *
31765393 TTTTTGGTA-TTCCTTATAAT
1 TTTTTGGTACTTACTCAT-AT
*
31765413 TTTTT-GTTCTT-CTTCATAT
1 TTTTTGGTACTTAC-TCATAT
31765432 TTTTT
1 TTTTT
31765437 TTGATATTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
18 15 0.29
19 15 0.29
20 22 0.42
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.63
Consensus pattern (20 bp):
TTTTTGGTACTTACTCATAT
Found at i:31765697 original size:24 final size:23
Alignment explanation
Indices: 31765660--31765732 Score: 137
Period size: 23 Copynumber: 3.1 Consensus size: 23
31765650 TATATAATGA
31765660 TAATTTTTAATTTTTTTAAAATT
1 TAATTTTTAATTTTTTTAAAATT
31765683 TAATTTTTAATTTTTTTTAAAATT
1 TAATTTTTAA-TTTTTTTAAAATT
31765707 TAATTTTTAATTTTTTTAAAATT
1 TAATTTTTAATTTTTTTAAAATT
31765730 TAA
1 TAA
31765733 ATAAATGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
23 26 0.53
24 23 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TAATTTTTAATTTTTTTAAAATT
Found at i:31765841 original size:12 final size:12
Alignment explanation
Indices: 31765824--31765850 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31765814 TAACATTTTC
31765824 TTTATTTATTAA
1 TTTATTTATTAA
31765836 TTTATTTATTAA
1 TTTATTTATTAA
31765848 TTT
1 TTT
31765851 TATTAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATTTATTAA
Found at i:31766127 original size:20 final size:20
Alignment explanation
Indices: 31766104--31766154 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
31766094 ACTAGGAAAA
* *
31766104 ACCAAAAATTATGATGGAGT
1 ACCAAAAATTATGAGGGACT
31766124 ACCAAAAATTATGAGGGACT
1 ACCAAAAATTATGAGGGACT
*
31766144 ACCAAATATTA
1 ACCAAAAATTA
31766155 GTTTATCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.24
Consensus pattern (20 bp):
ACCAAAAATTATGAGGGACT
Found at i:31766370 original size:20 final size:20
Alignment explanation
Indices: 31766314--31766372 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
31766304 ATAATAAAAA
* *
31766314 AATTATGAAAAAGTATCAAT
1 AATTATGAAAATGTATTAAT
31766334 AATTAT-AAGAGAT-TATTAAT
1 AATTATGAA-A-ATGTATTAAT
31766354 AATTATGAAAATGTATTAA
1 AATTATGAAAATGTATTAA
31766373 AATCATCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 4 0.12
20 26 0.79
21 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.36
Consensus pattern (20 bp):
AATTATGAAAATGTATTAAT
Found at i:31766565 original size:29 final size:30
Alignment explanation
Indices: 31766531--31766595 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
31766521 ATTCTATTTT
*
31766531 TTTTAT-AATTTTAAAGAAA-TAAATCAAAA
1 TTTTATCAATTTTAAA-AAATTAAAACAAAA
* *
31766560 TTTTATCATTTTTAAAAAATTAAAACATAA
1 TTTTATCAATTTTAAAAAATTAAAACAAAA
31766590 TTTTAT
1 TTTTAT
31766596 TTTATTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (30 bp):
TTTTATCAATTTTAAAAAATTAAAACAAAA
Found at i:31770111 original size:38 final size:40
Alignment explanation
Indices: 31770052--31770142 Score: 141
Period size: 38 Copynumber: 2.3 Consensus size: 40
31770042 TATGCACTCA
* *
31770052 ATGGACACCTTTTGAAGAGTCACAA-CC-TTTCATATTAG
1 ATGGACACCTTTTAAAAAGTCACAACCCTTTTCATATTAG
*
31770090 ATGGACACCTTTTAAAAAGTCACAACCCTTTTCATATTGG
1 ATGGACACCTTTTAAAAAGTCACAACCCTTTTCATATTAG
31770130 ATGGACACCTTTT
1 ATGGACACCTTTT
31770143 GGAAGAGACT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
38 23 0.48
39 2 0.04
40 23 0.48
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (40 bp):
ATGGACACCTTTTAAAAAGTCACAACCCTTTTCATATTAG
Found at i:31771705 original size:30 final size:30
Alignment explanation
Indices: 31771669--31772042 Score: 315
Period size: 30 Copynumber: 12.7 Consensus size: 30
31771659 TCGAACTATC
* *
31771669 CTAAAATCATATTTTAACCCTTAAACTTTT
1 CTAAAATTACATTTTAACCCTTAAACTTTT
* *
31771699 CTAAAATTACATTTTAGCCCTCAAACTTTT
1 CTAAAATTACATTTTAACCCTTAAACTTTT
* *
31771729 CTAAAATTACATTTTACACCATAAATAAACTTCT
1 CTAAAATTACATTTTA-ACCCT---TAAACTTTT
* *
31771763 CCAAAATTACATTTT--CAC---AACTTTT
1 CTAAAATTACATTTTAACCCTTAAACTTTT
*
31771788 C-AAAATTACATTTTGACCCTTAAACTTTT
1 CTAAAATTACATTTTAACCCTTAAACTTTT
*
31771817 CTAAAATTACATTTTAA-CCTCTAAACTTTC
1 CTAAAATTACATTTTAACCCT-TAAACTTTT
* * * *
31771847 CCAAAATCACATTTTGA-CCTTAAAATTTT
1 CTAAAATTACATTTTAACCCTTAAACTTTT
* * * *
31771876 CTAAAACTATATTTTGACCCTCAAAC-TTT
1 CTAAAATTACATTTTAACCCTTAAACTTTT
* *
31771905 CTCAAAGTTACATTTTAACCC-CAAACTTTT
1 CT-AAAATTACATTTTAACCCTTAAACTTTT
* ** * ** *
31771935 CCAAAACCACGA-TTTGACCCCCAAACTTTC
1 CTAAAATTAC-ATTTTAACCCTTAAACTTTT
* *
31771965 CTAAAATCACATTTTAA-CCTCAAACTTTT
1 CTAAAATTACATTTTAACCCTTAAACTTTT
*
31771994 CCAAAATTACATTTTAACCC-TAAACTTTT
1 CTAAAATTACATTTTAACCCTTAAACTTTT
*
31772023 CCAAAATTACATTTTAACCC
1 CTAAAATTACATTTTAACCC
31772043 AGAATTCTAC
Statistics
Matches: 282, Mismatches: 44, Indels: 37
0.78 0.12 0.10
Matches are distributed among these distances:
24 13 0.05
25 7 0.02
26 2 0.01
29 107 0.38
30 128 0.45
31 4 0.01
34 21 0.07
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (30 bp):
CTAAAATTACATTTTAACCCTTAAACTTTT
Found at i:31771876 original size:59 final size:58
Alignment explanation
Indices: 31771679--31772041 Score: 331
Period size: 59 Copynumber: 6.2 Consensus size: 58
31771669 CTAAAATCAT
* * * *
31771679 ATTTTAACCCTTAAACTTTTCTAAAATTACATTTTAGCCCTCAAACTTTTCTAAAATTAC
1 ATTTTAA-CCTTAAACTTTTCCAAAATTACATTTTAACCCT-AAACTTTCCCAAAATTAC
* * *
31771739 ATTTTACACCATAAATAAACTTCTCCAAAATTACATTTT--CAC--AACTTT-TCAAAATTAC
1 ATTTTA-ACC-T---TAAACTTTTCCAAAATTACATTTTAACCCTAAACTTTCCCAAAATTAC
* * *
31771797 ATTTTGACCCTTAAACTTTTCTAAAATTACATTTTAACCTCTAAACTTTCCCAAAATCAC
1 ATTTT-AACCTTAAACTTTTCCAAAATTACATTTTAACC-CTAAACTTTCCCAAAATTAC
* * * * * * * *
31771857 ATTTTGACCTTAAAATTTTCTAAAACTATATTTTGACCCTCAAACTTTCTCAAAGTTAC
1 ATTTTAACCTTAAACTTTTCCAAAATTACATTTTAACCCT-AAACTTTCCCAAAATTAC
** ** * * * * *
31771916 ATTTTAACCCCAAACTTTTCCAAAACCACGATTTGACCCCCAAACTTTCCTAAAATCAC
1 ATTTTAACCTTAAACTTTTCCAAAATTAC-ATTTTAACCCTAAACTTTCCCAAAATTAC
* *
31771975 ATTTTAACCTCAAACTTTTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTAC
1 ATTTTAACCTTAAACTTTTCCAAAATTACATTTTAACCCTAAACTTTCCCAAAATTAC
31772033 ATTTTAACC
1 ATTTTAACC
31772042 CAGAATTCTA
Statistics
Matches: 245, Mismatches: 44, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
54 22 0.09
56 1 0.00
57 2 0.01
58 49 0.20
59 117 0.48
60 28 0.11
61 2 0.01
62 2 0.01
64 22 0.09
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37
Consensus pattern (58 bp):
ATTTTAACCTTAAACTTTTCCAAAATTACATTTTAACCCTAAACTTTCCCAAAATTAC
Found at i:31772038 original size:29 final size:29
Alignment explanation
Indices: 31771754--31772042 Score: 270
Period size: 29 Copynumber: 10.0 Consensus size: 29
31771744 ACACCATAAA
* *
31771754 TAAACTTCTCCAAAATTACATTTT--CAC
1 TAAACTTTTCCAAAATTACATTTTAACCC
*
31771781 --AACTTTT-CAAAATTACATTTTGACCC
1 TAAACTTTTCCAAAATTACATTTTAACCC
*
31771807 TTAAACTTTTCTAAAATTACATTTTAACCTC
1 -TAAACTTTTCCAAAATTACATTTTAACC-C
* * * *
31771838 TAAACTTTCCCAAAATCACATTTTGACCT
1 TAAACTTTTCCAAAATTACATTTTAACCC
* * * * *
31771867 TAAAATTTTCTAAAACTATATTTTGACCC
1 TAAACTTTTCCAAAATTACATTTTAACCC
*
31771896 TCAAAC-TTTCTCAAAGTTACATTTTAACCC
1 T-AAACTTTTC-CAAAATTACATTTTAACCC
* ** * *
31771926 CAAACTTTTCCAAAACCACGATTTGACCCC
1 TAAACTTTTCCAAAATTAC-ATTTTAACCC
* *
31771956 CAAAC-TTTCCTAAAATCACATTTTAA-CC
1 TAAACTTTTCC-AAAATTACATTTTAACCC
31771984 TCAAACTTTTCCAAAATTACATTTTAACCC
1 T-AAACTTTTCCAAAATTACATTTTAACCC
31772014 TAAACTTTTCCAAAATTACATTTTAACCC
1 TAAACTTTTCCAAAATTACATTTTAACCC
31772043 AGAATTCTAC
Statistics
Matches: 214, Mismatches: 33, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
24 14 0.07
25 6 0.03
26 2 0.01
28 2 0.01
29 100 0.47
30 89 0.42
31 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (29 bp):
TAAACTTTTCCAAAATTACATTTTAACCC
Found at i:31776338 original size:15 final size:15
Alignment explanation
Indices: 31776303--31776383 Score: 90
Period size: 15 Copynumber: 5.4 Consensus size: 15
31776293 ATGGACATTA
*
31776303 TGAGCACTAATGATG
1 TGAGCACTAATGCTG
**
31776318 CAAGCACTAATGCTG
1 TGAGCACTAATGCTG
*
31776333 TGAGCACTATTGCTG
1 TGAGCACTAATGCTG
* *
31776348 CGAGCATTAATGCTG
1 TGAGCACTAATGCTG
* *
31776363 TGAGCACTGATGTTG
1 TGAGCACTAATGCTG
31776378 TGAGCA
1 TGAGCA
31776384 TGGATAGAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (15 bp):
TGAGCACTAATGCTG
Found at i:31776384 original size:30 final size:30
Alignment explanation
Indices: 31776303--31776370 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
31776293 ATGGACATTA
* * * *
31776303 TGAGCACTAATGATGCAAGCACTAATGCTG
1 TGAGCACTATTGCTGCGAGCATTAATGCTG
31776333 TGAGCACTATTGCTGCGAGCATTAATGCTG
1 TGAGCACTATTGCTGCGAGCATTAATGCTG
31776363 TGAGCACT
1 TGAGCACT
31776371 GATGTTGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (30 bp):
TGAGCACTATTGCTGCGAGCATTAATGCTG
Found at i:31776539 original size:18 final size:18
Alignment explanation
Indices: 31776505--31776567 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
31776495 GGGAAAACAC
* *
31776505 TTCATACATCCCATGCAT
1 TTCATACAACACATGCAT
* * *
31776523 TTCATACAACTCGTGCAC
1 TTCATACAACACATGCAT
* *
31776541 TTCTTGCAACACATGCAT
1 TTCATACAACACATGCAT
*
31776559 TCCATACAA
1 TTCATACAA
31776568 TGTGCTGCAC
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (18 bp):
TTCATACAACACATGCAT
Found at i:31782272 original size:21 final size:20
Alignment explanation
Indices: 31782248--31782292 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
31782238 AAAGGATTTA
31782248 ATTATA-AAAACTTGAAAAGTT
1 ATTATATAAAACTT-AAAAG-T
*
31782269 ATTATATAATACTTAAAAGT
1 ATTATATAAAACTTAAAAGT
31782289 ATTA
1 ATTA
31782293 AATGATTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 11 0.50
22 6 0.27
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (20 bp):
ATTATATAAAACTTAAAAGT
Found at i:31784276 original size:19 final size:19
Alignment explanation
Indices: 31784252--31784305 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
31784242 CATTTAATAT
31784252 CGTTGGTTTATCCAACTAG
1 CGTTGGTTTATCCAACTAG
* * *
31784271 CGTTGG---ACCCAAATAT
1 CGTTGGTTTATCCAACTAG
*
31784287 TGTTGGTTTATCCAACTAG
1 CGTTGGTTTATCCAACTAG
31784306 AGCTGGACTC
Statistics
Matches: 25, Mismatches: 7, Indels: 6
0.66 0.18 0.16
Matches are distributed among these distances:
16 12 0.48
19 13 0.52
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (19 bp):
CGTTGGTTTATCCAACTAG
Found at i:31784313 original size:35 final size:35
Alignment explanation
Indices: 31784247--31784313 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
31784237 TATATCATTT
* *
31784247 AATATCGTTGGTTTATCCAACTAGCGTTGGACCCA
1 AATATCGTTGGTTTATCCAACTAGAGCTGGACCCA
*
31784282 AATATTGTTGGTTTATCCAACTAGAGCTGGAC
1 AATATCGTTGGTTTATCCAACTAGAGCTGGAC
31784314 TCATTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (35 bp):
AATATCGTTGGTTTATCCAACTAGAGCTGGACCCA
Found at i:31785405 original size:21 final size:22
Alignment explanation
Indices: 31785358--31785406 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
31785348 ATGGCCAAAG
*
31785358 ACACGGGCGTGTGGATGAGGGC
1 ACACGGGCGTGTGGATGAGGAC
**
31785380 ACACGGGCGTGTGTTTGA-GAC
1 ACACGGGCGTGTGGATGAGGAC
31785401 ACACGG
1 ACACGG
31785407 CCATGTGACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.20, C:0.20, G:0.43, T:0.16
Consensus pattern (22 bp):
ACACGGGCGTGTGGATGAGGAC
Found at i:31799230 original size:22 final size:22
Alignment explanation
Indices: 31799205--31799247 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31799195 TATTCAAACA
31799205 ATAACAATAAAATAATAGCAAT
1 ATAACAATAAAATAATAGCAAT
* * *
31799227 ATAATAGTAAAATGATAGCAA
1 ATAACAATAAAATAATAGCAA
31799248 AACAACAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATAATAGCAAT
Found at i:31799267 original size:22 final size:22
Alignment explanation
Indices: 31799242--31799284 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
31799232 AGTAAAATGA
31799242 TAGCAAAACAACAACATAACAG
1 TAGCAAAACAACAACATAACAG
31799264 TAGCAAAACAACAACATAACA
1 TAGCAAAACAACAACATAACA
31799285 ACAGTAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.23, G:0.07, T:0.09
Consensus pattern (22 bp):
TAGCAAAACAACAACATAACAG
Found at i:31801797 original size:13 final size:14
Alignment explanation
Indices: 31801781--31801809 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
31801771 CTTTTTTTTC
31801781 TCTTTTTTC-ATTT
1 TCTTTTTTCAATTT
31801794 TCTTTTTTCAATTT
1 TCTTTTTTCAATTT
31801808 TC
1 TC
31801810 ATCGCTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (14 bp):
TCTTTTTTCAATTT
Found at i:31808199 original size:13 final size:13
Alignment explanation
Indices: 31808181--31808224 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
31808171 GCAAATAATT
31808181 TTTTCTTCTTTTC
1 TTTTCTTCTTTTC
31808194 TTTTC-TCTTTTC
1 TTTTCTTCTTTTC
*
31808206 TTTT-TTTTCTTTC
1 TTTTCTTCT-TTTC
31808219 TTTTCT
1 TTTTCT
31808225 CATATTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 13 0.48
13 13 0.48
14 1 0.04
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTCTTTTC
Found at i:31808218 original size:25 final size:28
Alignment explanation
Indices: 31808179--31808238 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 28
31808169 TAGCAAATAA
*
31808179 TTTTTTCTTCTTTTCTTTTCTC-TTTTC
1 TTTTTTCTTCTTTTCTTTTCTCATATTC
31808206 TTTTTT-TTC-TTTCTTTTCTCATATTC
1 TTTTTTCTTCTTTTCTTTTCTCATATTC
31808232 TTTTTTC
1 TTTTTTC
31808239 AAGTGACTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 11 0.37
26 13 0.43
27 6 0.20
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTTCTTCTTTTCTTTTCTCATATTC
Found at i:31808795 original size:75 final size:75
Alignment explanation
Indices: 31808672--31808823 Score: 286
Period size: 75 Copynumber: 2.0 Consensus size: 75
31808662 CTAAATACAC
31808672 AAGTAAATTCTAAAAAATGTGACAAATTCCCCCCAAACTTAAAGTGTGCATTGTCCCCAATGCAC
1 AAGTAAATTCTAAAAAATGTGACAAATTCCCCCCAAACTTAAAGTGTGCATTGTCCCCAATGCAC
*
31808737 TGACATTAAT
66 TAACATTAAT
31808747 AAGTAAATTCTAAAAAATGTGACAAATTCCCCCCAAACTTAAAGTGTGCATTGTCCCCAATGCAC
1 AAGTAAATTCTAAAAAATGTGACAAATTCCCCCCAAACTTAAAGTGTGCATTGTCCCCAATGCAC
*
31808812 TAACATTGAT
66 TAACATTAAT
31808822 AA
1 AA
31808824 ATATATACAT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (75 bp):
AAGTAAATTCTAAAAAATGTGACAAATTCCCCCCAAACTTAAAGTGTGCATTGTCCCCAATGCAC
TAACATTAAT
Found at i:31812350 original size:17 final size:17
Alignment explanation
Indices: 31812328--31812362 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31812318 AATAAATAAT
31812328 ATTGGTAGGAGCCACAA
1 ATTGGTAGGAGCCACAA
31812345 ATTGGTAGGAGCCACAA
1 ATTGGTAGGAGCCACAA
31812362 A
1 A
31812363 AATGGGATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (17 bp):
ATTGGTAGGAGCCACAA
Found at i:31823961 original size:41 final size:41
Alignment explanation
Indices: 31823904--31824132 Score: 230
Period size: 41 Copynumber: 5.6 Consensus size: 41
31823894 TAAGTTACAT
* * * **
31823904 TGATAGAAATTCAAGCTACGGCTTAGCAGGCTAGGTGCTAG
1 TGATAGAAATTCAAGCTACGACTTAGCAAGCTACGTGCCGG
* *
31823945 TGATAAAAATTCAAGCTACGACTTAGCAAGCTATGTGCCGG
1 TGATAGAAATTCAAGCTACGACTTAGCAAGCTACGTGCCGG
*
31823986 TGATAGAAATTCAAGTTACGACTTAGCAAGCTACGTGCCGG
1 TGATAGAAATTCAAGCTACGACTTAGCAAGCTACGTGCCGG
* * *** * *
31824027 TGATAGAAATTCAAGCTACGACTTAGTAGGCTATAAGTCAG
1 TGATAGAAATTCAAGCTACGACTTAGCAAGCTACGTGCCGG
* * * *
31824068 TGTTA-AGATAT-AAGCTACGGCTTAGCAAGCTACGAGCCGG
1 TGATAGAAAT-TCAAGCTACGACTTAGCAAGCTACGTGCCGG
* * *
31824108 TGTTA-AAATACAAGCTACGGCTTAG
1 TGATAGAAATTCAAGCTACGACTTAG
31824133 TAGGCTATGA
Statistics
Matches: 158, Mismatches: 28, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
40 47 0.30
41 111 0.70
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (41 bp):
TGATAGAAATTCAAGCTACGACTTAGCAAGCTACGTGCCGG
Found at i:31824041 original size:82 final size:81
Alignment explanation
Indices: 31823904--31824143 Score: 277
Period size: 82 Copynumber: 3.0 Consensus size: 81
31823894 TAAGTTACAT
* * **
31823904 TGATAGAAATTCAAGCTACGGCTTAGCAGGCTAGGTGCTAGTGATAAAAATTCAAGCTACGACTT
1 TGATAGAAATTCAAGCTACGGCTTAGCAAGCTACGTGCCGGTGAT-AAAATTCAAGCTACGACTT
* * * *
31823969 AGCAAGCTATGTGCCGG
65 AGTAGGCTATGAGCCAG
* *
31823986 TGATAGAAATTCAAGTTACGACTTAGCAAGCTACGTGCCGGTGATAGAAATTCAAGCTACGACTT
1 TGATAGAAATTCAAGCTACGGCTTAGCAAGCTACGTGCCGGTGATA-AAATTCAAGCTACGACTT
* *
31824051 AGTAGGCTATAAGTCAG
65 AGTAGGCTATGAGCCAG
* * * * * *
31824068 TGTTA-AGATAT-AAGCTACGGCTTAGCAAGCTACGAGCCGGTGTTAAAATACAAGCTACGGCTT
1 TGATAGAAAT-TCAAGCTACGGCTTAGCAAGCTACGTGCCGGTGATAAAATTCAAGCTACGACTT
31824131 AGTAGGCTATGAG
65 AGTAGGCTATGAG
31824144 TCAATGAATT
Statistics
Matches: 135, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
80 28 0.21
81 34 0.25
82 73 0.54
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (81 bp):
TGATAGAAATTCAAGCTACGGCTTAGCAAGCTACGTGCCGGTGATAAAATTCAAGCTACGACTTA
GTAGGCTATGAGCCAG
Found at i:31824092 original size:40 final size:40
Alignment explanation
Indices: 31824033--31824146 Score: 138
Period size: 40 Copynumber: 2.9 Consensus size: 40
31824023 CCGGTGATAG
* * *
31824033 AAATTCAAGCTACGACTTAGTAGGCTATAAGTCAGTGTTA
1 AAATACAAGCTACGGCTTAGTAGGCTATGAGTCAGTGTTA
* * * * * * *
31824073 AGATATAAGCTACGGCTTAGCAAGCTACGAGCCGGTGTTA
1 AAATACAAGCTACGGCTTAGTAGGCTATGAGTCAGTGTTA
31824113 AAATACAAGCTACGGCTTAGTAGGCTATGAGTCA
1 AAATACAAGCTACGGCTTAGTAGGCTATGAGTCA
31824147 ATGAATTGGT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (40 bp):
AAATACAAGCTACGGCTTAGTAGGCTATGAGTCAGTGTTA
Found at i:31826801 original size:15 final size:14
Alignment explanation
Indices: 31826781--31826843 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 14
31826771 AAAATGTTTA
31826781 TATGCGAACTGATTG
1 TATGCGAACT-ATTG
31826796 TATGCGAACTATTTG
1 TATGCGAACTA-TTG
*
31826811 TATGCGAACTGTT-
1 TATGCGAACTATTG
*
31826824 TATACACGAACTATTG
1 TAT--GCGAACTATTG
31826840 TATG
1 TATG
31826844 TGTAATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 3 0.08
14 3 0.08
15 31 0.77
16 3 0.08
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (14 bp):
TATGCGAACTATTG
Found at i:31826817 original size:30 final size:29
Alignment explanation
Indices: 31826781--31826843 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
31826771 AAAATGTTTA
* **
31826781 TATGCGAACTGATTGTATGCGAACTATTTG
1 TATGCGAACTGATTATACACGAACTA-TTG
*
31826811 TATGCGAACTGTTTATACACGAACTATTG
1 TATGCGAACTGATTATACACGAACTATTG
31826840 TATG
1 TATG
31826844 TGTAATGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (29 bp):
TATGCGAACTGATTATACACGAACTATTG
Found at i:31827690 original size:15 final size:15
Alignment explanation
Indices: 31827666--31827733 Score: 84
Period size: 15 Copynumber: 4.5 Consensus size: 15
31827656 ATATATCACT
*
31827666 AAACTGTTTATATGC
1 AAACTATTTATATGC
31827681 AAACTATTTATATGC
1 AAACTATTTATATGC
*
31827696 AAACT-TATTGTATGC
1 AAACTAT-TTATATGC
* *
31827711 GAACTATTTATACGC
1 AAACTATTTATATGC
31827726 AAACTATT
1 AAACTATT
31827734 GTATGCGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 1 0.02
15 43 0.96
16 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (15 bp):
AAACTATTTATATGC
Found at i:31827753 original size:29 final size:30
Alignment explanation
Indices: 31827676--31827753 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
31827666 AAACTGTTTA
*
31827676 TATGC-AAACTATTTATATGCAAACTTATTG
1 TATGCGAAA-TATTTATACGCAAACTTATTG
*
31827706 TATGCGAACTATTTATACGCAAAC-TATTG
1 TATGCGAAATATTTATACGCAAACTTATTG
* *
31827735 TATGCGAAATGTTTGTACG
1 TATGCGAAATATTTATACG
31827754 AATTGTTGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.50
30 19 0.45
31 2 0.05
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (30 bp):
TATGCGAAATATTTATACGCAAACTTATTG
Found at i:31833960 original size:21 final size:23
Alignment explanation
Indices: 31833921--31833962 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
31833911 GGATAATATA
*
31833921 TTTTGATATAAAAATTAAAGTGT
1 TTTTGATATAAAAAGTAAAGTGT
31833944 TTTTGA-AT-AAAAGTAAAGT
1 TTTTGATATAAAAAGTAAAGT
31833963 TGAACAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 2 0.11
23 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (23 bp):
TTTTGATATAAAAAGTAAAGTGT
Found at i:31838360 original size:21 final size:20
Alignment explanation
Indices: 31838315--31838353 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31838305 ATACCAAGGT
31838315 GAGTACCAAAAATCATGAGA
1 GAGTACCAAAAATCATGAGA
* *
31838335 GAGTAGCAAAAATTATGAG
1 GAGTACCAAAAATCATGAG
31838354 TCGAGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.18
Consensus pattern (20 bp):
GAGTACCAAAAATCATGAGA
Found at i:31838405 original size:19 final size:18
Alignment explanation
Indices: 31838360--31838405 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
31838350 TGAGTCGAGT
*
31838360 AAAAAAACATGGAGAATAC
1 AAAAAAA-ATGGAAAATAC
*
31838379 AAGAAAAATGAGAAAATAC
1 AAAAAAAATG-GAAAATAC
31838398 AAAAAAAA
1 AAAAAAAA
31838406 AATATGAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.72, C:0.07, G:0.13, T:0.09
Consensus pattern (18 bp):
AAAAAAAATGGAAAATAC
Found at i:31841438 original size:33 final size:33
Alignment explanation
Indices: 31841396--31841462 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
31841386 GCACATAATA
*
31841396 TGAACAAATACAGGCTCCACAGATCTCCCTGTC
1 TGAACAAATACAGGCTCAACAGATCTCCCTGTC
31841429 TGAACAAATACAGGCTCAACAGATCTCCCTGTC
1 TGAACAAATACAGGCTCAACAGATCTCCCTGTC
31841462 T
1 T
31841463 CAATCCCTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (33 bp):
TGAACAAATACAGGCTCAACAGATCTCCCTGTC
Found at i:31841663 original size:19 final size:19
Alignment explanation
Indices: 31841639--31841676 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31841629 ACTCATATCG
31841639 AGTTTTAAAGAAAATGACC
1 AGTTTTAAAGAAAATGACC
31841658 AGTTTTAAAGAAAATGACC
1 AGTTTTAAAGAAAATGACC
31841677 TTATCTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (19 bp):
AGTTTTAAAGAAAATGACC
Found at i:31848856 original size:108 final size:108
Alignment explanation
Indices: 31848635--31848847 Score: 281
Period size: 108 Copynumber: 2.0 Consensus size: 108
31848625 AATAAAAAAC
* * *
31848635 ATTTATTGATTTTTAAATAGGATGTTGAATTACTTAGGTTCAAAAAAAGCTCATACCCAATACAT
1 ATTTATCGATTTTTAAATAGGATATTCAATTACTTAGGTTCAAAAAAA-CTCATACCCAATACAT
*
31848700 TAGGGCACAATTTCTGAAGTTTCAAAAAATAAAAGAACATTGAAT
65 TAGGGCACAATTTCTGAAGTTCCAAAAAAT-AAAGAACATTGAAT
* * *
31848745 ATTTATCGA-TTTTAAATAGGATATTCAATTACTTAGGTTTAAACAAAA-TCATACCCAGTACGT
1 ATTTATCGATTTTTAAATAGGATATTCAATTACTTAGGTTCAAA-AAAACTCATACCCAATACAT
**
31848808 TAGGGCACAATTTCTCG-AGTTCCTTAAAAT-AAGAACATTG
65 TAGGGCACAATTTCT-GAAGTTCCAAAAAATAAAGAACATTG
31848848 CCTTTATTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
106 10 0.11
108 38 0.41
109 32 0.35
110 12 0.13
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (108 bp):
ATTTATCGATTTTTAAATAGGATATTCAATTACTTAGGTTCAAAAAAACTCATACCCAATACATT
AGGGCACAATTTCTGAAGTTCCAAAAAATAAAGAACATTGAAT
Found at i:31850724 original size:48 final size:50
Alignment explanation
Indices: 31850577--31851189 Score: 466
Period size: 49 Copynumber: 12.5 Consensus size: 50
31850567 CATTAAGGTG
* * * * *
31850577 TAAGATTTGCCTTTGCAGCTTCAAT-TTTCCCTTCTTCATCTTTAGAGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
* *** * * * *
31850626 TAATATTCATTTTTACGGTTTCAATC-TACCTCTCC-TCATCT-TCAAGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCC-CTCCTTCATCTCT-AGGGTA
* * ** *
31850675 TAAGATTCCCCTTTGCGGATTCAATC-GGCCC-CCTTCATCTTTAGGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
* * **
31850723 TAAGATTCGCCTTTGTGGCTTCAATCTTTCCCTCCAT-ATCTCTATCGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
* *
31850772 TAAGATTTGCCTTTGCGGCTTCAATCTTTCCCTCC-ACATCTCTAGGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
* *
31850821 TAAGATTCGCATTTGCGGCTTCAATCTTTCCCT-CTACATCTCTAGGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
* * * * * * *
31850870 TAAGATTTGCCTTTGTGGCTTAAATTTTTCCCTTC-ACATCTTTAGGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
*** ** * *
31850919 TAAGATTTATCTTTATGGCTTTAATCTTTCCCT-CTAT-ATGTCTTAGGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCT-TCATCTC-TAGGGTA
* * * * **
31850969 TAAGATTTGTCGTTGCGACTTCAATCTTTCCCT-CAACATCTCTAGGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
** * * *
31851018 TAAGATTCAACATTACGGCTTCAATCTTTCCCTCC-ACATCTCTAGGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
* ** * * *
31851067 TAAGATTTGCAATTGTGGCTTCAATCTTTCCCT-CTACATCTCTAAGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
* * * * * * *
31851116 TAAGATTCACGTTTGTGGCTTCAATCTTTCCCTTCAT-ATTTTTAGGGTA
1 TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
* * * *
31851165 TAAGACTCACCTTTGTGACTTCAAT
1 TAAGATTCGCCTTTGCGGCTTCAAT
31851190 TTGCTCCTTC
Statistics
Matches: 462, Mismatches: 85, Indels: 34
0.80 0.15 0.06
Matches are distributed among these distances:
47 2 0.00
48 39 0.08
49 373 0.81
50 48 0.10
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (50 bp):
TAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCTTCATCTCTAGGGTA
Found at i:31850846 original size:98 final size:98
Alignment explanation
Indices: 31850577--31851169 Score: 572
Period size: 98 Copynumber: 6.1 Consensus size: 98
31850567 CATTAAGGTG
* ** * * * ** *
31850577 TAAGATTTGCCTTTGCAGCTTCAAT-TTTCCCTTCTTCATCTTTAGAGTATAATATTCATTTTTA
1 TAAGATTTGCCTTTGCGGCTTCAATCTTTCCC-TCCACATCTCTAGGGTATAAGATTCACATTTG
* * * *
31850641 CGGTTTCAATC-TACCTCTCC-TCATCT-TCAAGGTA
65 TGGCTTCAATCTTTCC-CTCCAT-ATCTCT-AGGGTA
** * ** * * * *
31850675 TAAGATTCCCCTTTGCGGATTCAATC-GGCCC-CCTTCATCTTTAGGGTATAAGATTCGCCTTTG
1 TAAGATTTGCCTTTGCGGCTTCAATCTTTCCCTCC-ACATCTCTAGGGTATAAGATTCACATTTG
**
31850738 TGGCTTCAATCTTTCCCTCCATATCTCTATCGTA
65 TGGCTTCAATCTTTCCCTCCATATCTCTAGGGTA
* *
31850772 TAAGATTTGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCATTTGC
1 TAAGATTTGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCACATTTGT
* *
31850837 GGCTTCAATCTTTCCCTCTACATCTCTAGGGTA
66 GGCTTCAATCTTTCCCTCCATATCTCTAGGGTA
* * * * * * *
31850870 TAAGATTTGCCTTTGTGGCTTAAATTTTTCCCTTCACATCTTTAGGGTATAAGATTTATC-TTTA
1 TAAGATTTGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCA-CATTTG
* * *
31850934 TGGCTTTAATCTTTCCCTCTATATGTCTTAGGGTA
65 TGGCTTCAATCTTTCCCTCCATATCTC-TAGGGTA
* * * * *
31850969 TAAGATTTGTCGTTGCGACTTCAATCTTTCCCTCAACATCTCTAGGGTATAAGATTCAACA-TTA
1 TAAGATTTGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTC-ACATTTG
* *
31851033 CGGCTTCAATCTTTCCCTCCACATCTCTAGGGTA
65 TGGCTTCAATCTTTCCCTCCATATCTCTAGGGTA
** * * * *
31851067 TAAGATTTGCAATTGTGGCTTCAATCTTTCCCTCTACATCTCTAAGGTATAAGATTCACGTTTGT
1 TAAGATTTGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCACATTTGT
* * *
31851132 GGCTTCAATCTTTCCCTTCATATTTTTAGGGTA
66 GGCTTCAATCTTTCCCTCCATATCTCTAGGGTA
31851165 TAAGA
1 TAAGA
31851170 CTCACCTTTG
Statistics
Matches: 411, Mismatches: 72, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
96 1 0.00
97 69 0.17
98 257 0.63
99 83 0.20
100 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (98 bp):
TAAGATTTGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCACATTTGT
GGCTTCAATCTTTCCCTCCATATCTCTAGGGTA
Found at i:31851012 original size:246 final size:246
Alignment explanation
Indices: 31850715--31851169 Score: 685
Period size: 246 Copynumber: 1.8 Consensus size: 246
31850705 CCCTTCATCT
* * * * * * *
31850715 TTAGGGTATAAGATTCGCCTTTGTGGCTTCAATCTTTCCCTCCATATCTCTATCGTATAAGATTT
1 TTAGGGTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCAACATCTCTAGCGTATAAGATTC
** * * *
31850780 GCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCATTTGCGGCTTCAA
66 AACATTACGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCAATTGCGGCTTCAA
* ** *
31850845 TCTTTCCCTCTACATCTCTAGGGTATAAGATTTGCCTTTGTGGCTTAAATTTTTCCCTTCACATC
131 TCTTTCCCTCTACATCTCTAAGGTATAAGATTCACCTTTGTGGCTTAAATCTTTCCCTTCACATC
31850910 TTTAGGGTATAAGATTTATCTTTATGGCTTTAATCTTTCCCTCTATATGTC
196 TTTAGGGTATAAGATTTATCTTTATGGCTTTAATCTTTCCCTCTATATGTC
* * *
31850961 TTAGGGTATAAGATTTGTCGTTGCGACTTCAATCTTTCCCTCAACATCTCTAGGGTATAAGATTC
1 TTAGGGTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCAACATCTCTAGCGTATAAGATTC
* *
31851026 AACATTACGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTTGCAATTGTGGCTTCAA
66 AACATTACGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCAATTGCGGCTTCAA
* * * *
31851091 TCTTTCCCTCTACATCTCTAAGGTATAAGATTCACGTTTGTGGCTTCAATCTTTCCCTTCATATT
131 TCTTTCCCTCTACATCTCTAAGGTATAAGATTCACCTTTGTGGCTTAAATCTTTCCCTTCACATC
31851156 TTTAGGGTATAAGA
196 TTTAGGGTATAAGA
31851170 CTCACCTTTG
Statistics
Matches: 184, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
246 184 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (246 bp):
TTAGGGTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCAACATCTCTAGCGTATAAGATTC
AACATTACGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCAATTGCGGCTTCAA
TCTTTCCCTCTACATCTCTAAGGTATAAGATTCACCTTTGTGGCTTAAATCTTTCCCTTCACATC
TTTAGGGTATAAGATTTATCTTTATGGCTTTAATCTTTCCCTCTATATGTC
Found at i:31851199 original size:49 final size:49
Alignment explanation
Indices: 31850713--31851258 Score: 177
Period size: 49 Copynumber: 11.1 Consensus size: 49
31850703 CCCCCTTCAT
* * * * * *
31850713 CTTT-AGGGTATAAGATTCGCCTTTGTGGCTTCAATCTTTCCCTCCATAT
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAAT-TTGCCCTTCACAG
* ** ** * * * * *
31850762 CTCT-ATCGTATAAGATTTGCCTTTGCGGCTTCAATCTTTCCCTCCACAT
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAAT-TTGCCCTTCACAG
* * * * * * *
31850811 CTCT-AGGGTATAAGATTCGCATTTGCGGCTTCAATCTTTCCC-TCTACAT
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAAT-TTGCCCTTC-ACAG
* ** * * * *
31850860 CTCT-AGGGTATAAGATTTGCCTTTGTGGCTTAAATTTTTCCCTTCACAT
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAA-TTTGCCCTTCACAG
* * * * * * *
31850909 CTTT-AGGGTATAAGATTTATCTTTATGGCTTTAATCTTTCCC-TCTATATG
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAAT-TTGCCCTTC-ACA-G
*** * * * *
31850959 -TCTT-AGGGTATAAGATTTGTCGTTGCGACTTCAATCTTTCCC-TCAACAT
1 CT-TTAAGGGTATAAGATTCACCTTTGTGACTTCAAT-TTGCCCTTC-ACAG
* * * ** * * * *
31851008 CTCT-AGGGTATAAGATTCAACATTACGGCTTCAATCTTTCCCTCCACAT
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAAT-TTGCCCTTCACAG
* ** ** * * *
31851057 CTCT-AGGGTATAAGATTTGCAATTGTGGCTTCAATCTTTCCC-TCTACAT
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAAT-TTGCCCTTC-ACAG
* * * * *
31851106 CTCTAA-GGTATAAGATTCACGTTTGTGGCTTCAATCTTTCCCTTCATA-
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAAT-TTGCCCTTCACAG
* * *
31851154 TTTTTAGGGTATAAGACTCACCTTTGTGACTTCAATTTGCTCCTTCACAG
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAATTTGC-CCTTCACAG
* * * *
31851204 CTTTAAGGGTACAAGATTCGCCCTTGTGACTTCAATTTGCCCCTCTACAG
1 CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAATTTGCCCTTC-ACAG
31851254 CTTTA
1 CTTTA
31851259 GAAGTATCAG
Statistics
Matches: 415, Mismatches: 66, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
48 11 0.03
49 315 0.76
50 89 0.21
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (49 bp):
CTTTAAGGGTATAAGATTCACCTTTGTGACTTCAATTTGCCCTTCACAG
Found at i:31851233 original size:50 final size:50
Alignment explanation
Indices: 31851159--31851258 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
31851149 TCATATTTTT
* * *
31851159 AGGGTATAAGACTCACCTTTGTGACTTCAATTTGCTCCT-TCACAGCTTTA
1 AGGGTACAAGACTCACCCTTGTGACTTCAATTTGCCCCTCT-ACAGCTTTA
* *
31851209 AGGGTACAAGATTCGCCCTTGTGACTTCAATTTGCCCCTCTACAGCTTTA
1 AGGGTACAAGACTCACCCTTGTGACTTCAATTTGCCCCTCTACAGCTTTA
31851259 GAAGTATCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 43 0.98
51 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (50 bp):
AGGGTACAAGACTCACCCTTGTGACTTCAATTTGCCCCTCTACAGCTTTA
Found at i:31851237 original size:246 final size:246
Alignment explanation
Indices: 31850713--31851239 Score: 675
Period size: 246 Copynumber: 2.1 Consensus size: 246
31850703 CCCCCTTCAT
* * * * *
31850713 CTTTAGGGTATAAGATTCGCCTTTGTGGCTTCAATCTTTCCCTCCATATCTCTATCGTATAAGAT
1 CTTTAGGGTATAAGATTCGCCCTTGTGACTTCAATCTTTCCCTCAACATCTCTAGCGTATAAGAT
*** * * *
31850778 TTGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCATTTGCGGCTTC
66 TCAACATTACGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCAATTGCGGCTTC
* ** *
31850843 AATCTTTCCCTCTACATCTCTAGGGTATAAGATTTGCCTTTGTGGCTTAAATTTTTCCCTTCACA
131 AATCTTTCCCTCTACATCTCTAAGGTATAAGATTCACCTTTGTGGCTTAAATCTTTCCCTTCACA
* * * * * *
31850908 TCTTTAGGGTATAAGATTTATCTTTATGGCTTTAATCTTTCCCTCTATATG
196 TCTTTAGGGTATAAGACTCACCTTTATGACTTCAATCTTTCCCTCTACATG
* * * * *
31850959 -TCTTAGGGTATAAGATTTGTCGTTGCGACTTCAATCTTTCCCTCAACATCTCTAGGGTATAAGA
1 CT-TTAGGGTATAAGATTCGCCCTTGTGACTTCAATCTTTCCCTCAACATCTCTAGCGTATAAGA
* *
31851023 TTCAACATTACGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTTGCAATTGTGGCTT
65 TTCAACATTACGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCAATTGCGGCTT
* * *
31851088 CAATCTTTCCCTCTACATCTCTAAGGTATAAGATTCACGTTTGTGGCTTCAATCTTTCCCTTCAT
130 CAATCTTTCCCTCTACATCTCTAAGGTATAAGATTCACCTTTGTGGCTTAAATCTTTCCCTTCAC
* * *
31851153 ATTTTTAGGGTATAAGACTCACCTTTGTGACTTCAAT-TTGCTCCT-TCACA-G
195 ATCTTTAGGGTATAAGACTCACCTTTATGACTTCAATCTTTC-CCTCT-ACATG
*
31851204 CTTTAAGGGTACAAGATTCGCCCTTGTGACTTCAAT
1 CTTT-AGGGTATAAGATTCGCCCTTGTGACTTCAAT
31851240 TTGCCCCTCT
Statistics
Matches: 238, Mismatches: 38, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
245 8 0.03
246 230 0.97
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (246 bp):
CTTTAGGGTATAAGATTCGCCCTTGTGACTTCAATCTTTCCCTCAACATCTCTAGCGTATAAGAT
TCAACATTACGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCAATTGCGGCTTC
AATCTTTCCCTCTACATCTCTAAGGTATAAGATTCACCTTTGTGGCTTAAATCTTTCCCTTCACA
TCTTTAGGGTATAAGACTCACCTTTATGACTTCAATCTTTCCCTCTACATG
Found at i:31851287 original size:50 final size:50
Alignment explanation
Indices: 31851183--31851358 Score: 142
Period size: 50 Copynumber: 3.5 Consensus size: 50
31851173 ACCTTTGTGA
* * ** *
31851183 CTTCAATTTGCTCCT-TCACAGCTTTA-AGGGTA-CAAGATTCGCCCTTGTGA
1 CTTCAATCTGCCCCTCT-ACAGCTTTAGA-GGTATC-AGATTCGCCCTTACGG
* *
31851233 CTTCAATTTGCCCCTCTACAGCTTTAGAAGTATCAGATTCGCCCTTACGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGAGGTATCAGATTCGCCCTTACGG
** * * * * * *
31851283 CTTCAATCTGCTGCTCTACAACTTTAGGGGTATAAGATTTTGTCCTCACGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGAGGTATCAGA-TTCGCCCTTACGG
* *
31851334 CTTCAATCTACCCATCTACAGCTTT
1 CTTCAATCTGCCCCTCTACAGCTTT
31851359 TGCAACTTTA
Statistics
Matches: 102, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 69 0.68
51 33 0.32
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (50 bp):
CTTCAATCTGCCCCTCTACAGCTTTAGAGGTATCAGATTCGCCCTTACGG
Found at i:31851597 original size:99 final size:98
Alignment explanation
Indices: 31851363--31851609 Score: 238
Period size: 99 Copynumber: 2.5 Consensus size: 98
31851353 AGCTTTTGCA
* *
31851363 ACTTTAATCCGACCCACTGCT-ACTTCAGGGGTATAAGATTTGGTTTTGTAACTTCACTCCATTC
1 ACTTTAATCTGACCCACTG-TAACTTCAGGGGTATAGGATTTGGTTTTGTAACTTCACTCCATTC
* *
31851427 CACTGTAACCTCAGGGATATTGAGACCCGTTACTT
65 CACTGTAACCTCAAGGACATTGAGACCCGTTA-TT
* * * * * *
31851462 ATTTTAATCT-ACTTCATTGTAACTTTAGGAAG-ATAGGATTT-GTTATTG-AACCTTCACTCTA
1 ACTTTAATCTGAC-CCACTGTAACTTCAGG-GGTATAGGATTTGGTT-TTGTAA-CTTCACTCCA
* * *
31851523 TTCCACTGTAACCTTAAGGACATTGAGATCTGCTT-TT
62 TTCCACTGTAACCTCAAGGACATTGAGACCCG-TTATT
* *
31851560 GGCTTTAATCTGACCCACTGTAACTTCAGGGGTATAGGATTT-CTTTTGTA
1 -ACTTTAATCTGACCCACTGTAACTTCAGGGGTATAGGATTTGGTTTTGTA
31851610 TTGATCCCTC
Statistics
Matches: 118, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
98 14 0.12
99 99 0.84
100 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (98 bp):
ACTTTAATCTGACCCACTGTAACTTCAGGGGTATAGGATTTGGTTTTGTAACTTCACTCCATTCC
ACTGTAACCTCAAGGACATTGAGACCCGTTATT
Found at i:31854360 original size:7 final size:7
Alignment explanation
Indices: 31854348--31854405 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
31854338 TCCTCTTCTT
31854348 TTTTTTC
1 TTTTTTC
31854355 TTTTTTC
1 TTTTTTC
31854362 -TTTTTC
1 TTTTTTC
*
31854368 -TTTTCC
1 TTTTTTC
31854374 TTTTTT-
1 TTTTTTC
31854380 TATTTTT-
1 T-TTTTTC
31854387 TTCTTTTC
1 TT-TTTTC
*
31854395 ATTTTTC
1 TTTTTTC
31854402 TTTT
1 TTTT
31854406 CTTTTCCTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 13 0.30
7 29 0.67
8 1 0.02
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:31854365 original size:6 final size:6
Alignment explanation
Indices: 31854349--31854417 Score: 65
Period size: 6 Copynumber: 11.8 Consensus size: 6
31854339 CCTCTTCTTT
* *
31854349 TTTTTC TTTTTTC TTTTTC TTTTCC TTTTT- TTATT- TTTTTC -TTTTC
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
31854395 ATTTTTC -TTTTC TTTTCC TTTTT
1 -TTTTTC TTTTTC TTTTTC TTTTT
31854418 TTTGTGTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
5 18 0.35
6 23 0.44
7 11 0.21
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:31854368 original size:22 final size:22
Alignment explanation
Indices: 31854343--31854420 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
31854333 TGACCTCCTC
31854343 TTCTTTT-TTTTCTTTTTTCTTT
1 TTCTTTTCTTTT-TTTTTTCTTT
*
31854365 TTCTTTTCCTTTTTTTATT-TTT
1 TTCTTTT-CTTTTTTTTTTCTTT
*
31854387 TTCTTTTCATTTTTCTTTTCTTT
1 TTCTTTTC-TTTTTTTTTTCTTT
*
31854410 TCCTTTT-TTTT
1 TTCTTTTCTTTT
31854421 GTGTGAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
21 5 0.10
22 25 0.52
23 14 0.29
24 4 0.08
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (22 bp):
TTCTTTTCTTTTTTTTTTCTTT
Found at i:31854377 original size:17 final size:16
Alignment explanation
Indices: 31854343--31854417 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 16
31854333 TGACCTCCTC
*
31854343 TTCTTTTT-TTTCTTTT
1 TTCTTTTTCTTT-TCTT
31854359 TTCTTTTTCTTTTCCTT
1 TTCTTTTTCTTTT-CTT
*
31854376 TT-TTTATTTTTTTCTT
1 TTCTTT-TTCTTTTCTT
31854392 TTCATTTTTCTTTTCTT
1 TTC-TTTTTCTTTTCTT
31854409 TTCCTTTTT
1 TT-CTTTTT
31854418 TTTGTGTGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
16 17 0.34
17 29 0.58
18 4 0.08
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTCTTTTTCTTTTCTT
Found at i:31854399 original size:28 final size:28
Alignment explanation
Indices: 31854345--31854418 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
31854335 ACCTCCTCTT
31854345 CTTTTTTTTCTTTTTTCTTTTTCTTTTC
1 CTTTTTTTTCTTTTTTCTTTTTCTTTTC
*
31854373 CTTTTTTTAT-TTTTTTC-TTTTCATTTTT
1 CTTTTTTT-TCTTTTTTCTTTTTC-TTTTC
31854401 CTTTTCTTTTCCTTTTTT
1 CTTTT-TTTT-CTTTTTT
31854419 TTGTGTGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
27 5 0.12
28 25 0.62
29 4 0.10
30 6 0.15
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (28 bp):
CTTTTTTTTCTTTTTTCTTTTTCTTTTC
Found at i:31858696 original size:109 final size:110
Alignment explanation
Indices: 31858481--31858688 Score: 319
Period size: 109 Copynumber: 1.9 Consensus size: 110
31858471 AATAAATAAC
* * * *
31858481 ATTTATCGATTTTTAAATAGGATGTTCAATTGCTTAGATTCAAAGAAAAACCATAACTAATACAT
1 ATTTATCGATTTTTAAATAAGATATTCAATTACTTAGATTCAAAGAAAAACCATAACCAATACAT
31858546 TAGGGCACAATTTCTCGAGTTCCCTAAAATAAAAGAACATTGAAT
66 TAGGGCACAATTTCTCGAGTTCCCTAAAATAAAAGAACATTGAAT
* * * * *
31858591 ATTTATTGA-TTTTAAATAAGATATTCAATTACTTAGGTTCAAAGAAAAACCATACCCAGTACGT
1 ATTTATCGATTTTTAAATAAGATATTCAATTACTTAGATTCAAAGAAAAACCATAACCAATACAT
*
31858655 TAGGGCACAATTTCTCTAGTTCCCTAAAATAAAA
66 TAGGGCACAATTTCTCGAGTTCCCTAAAATAAAA
31858689 TAGCATTGTC
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
109 80 0.91
110 8 0.09
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (110 bp):
ATTTATCGATTTTTAAATAAGATATTCAATTACTTAGATTCAAAGAAAAACCATAACCAATACAT
TAGGGCACAATTTCTCGAGTTCCCTAAAATAAAAGAACATTGAAT
Found at i:31858724 original size:109 final size:107
Alignment explanation
Indices: 31858495--31858714 Score: 291
Period size: 109 Copynumber: 2.1 Consensus size: 107
31858485 ATCGATTTTT
* * * *
31858495 AAATAGGATGTTCAATTGCTTAGATTCAAAGAAAAACCATAACTAATACATTAGGGCACAATTTC
1 AAATAAGATATTCAATTACTTAGATTCAAAGAAAAACCATAACCAATACATTAGGGCACAATTTC
*
31858560 TCGAGTTCCCTAAAATAAAAGAACATTGAATATTTATTGATTTT
66 TCGAGTTCCCTAAAATAAAAGAACATTG-ATATTTATT-ATTTA
* * * *
31858604 AAATAAGATATTCAATTACTTAGGTTCAAAGAAAAACCATACCCAGTACGTTAGGGCACAATTTC
1 AAATAAGATATTCAATTACTTAGATTCAAAGAAAAACCATAACCAATACATTAGGGCACAATTTC
* * * *
31858669 TCTAGTTCCCTAAAATAAAATAGCATTG-TCTTTATT-TTTA
66 TCGAGTTCCCTAAAATAAAAGAACATTGATATTTATTATTTA
31858709 AAATAA
1 AAATAA
31858715 TTTATATATT
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
105 9 0.09
107 7 0.07
109 82 0.84
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (107 bp):
AAATAAGATATTCAATTACTTAGATTCAAAGAAAAACCATAACCAATACATTAGGGCACAATTTC
TCGAGTTCCCTAAAATAAAAGAACATTGATATTTATTATTTA
Found at i:31858745 original size:20 final size:20
Alignment explanation
Indices: 31858701--31858745 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
31858691 GCATTGTCTT
**
31858701 TATTTTTAAAATAATTTATA
1 TATTTTTAAAATAACATATA
31858721 TATTTTTAAAAATAACATATA
1 TATTTTT-AAAATAACATATA
31858742 -ATTT
1 TATTT
31858746 ATTTTGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTTTAAAATAACATATA
Found at i:31858944 original size:3 final size:3
Alignment explanation
Indices: 31858936--31858987 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
31858926 AAATCATATT
31858936 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
31858985 TAA
1 TAA
31858988 AAGGATTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:31860656 original size:18 final size:18
Alignment explanation
Indices: 31860635--31860671 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31860625 TGAGATTGTT
*
31860635 TAAAAGTTTAAGATTTGA
1 TAAAAATTTAAGATTTGA
31860653 TAAAAATTTAAGATTTGA
1 TAAAAATTTAAGATTTGA
31860671 T
1 T
31860672 GTTGAGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.41
Consensus pattern (18 bp):
TAAAAATTTAAGATTTGA
Found at i:31860828 original size:10 final size:9
Alignment explanation
Indices: 31860813--31860840 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
31860803 AGGTTTTTTT
31860813 AATTTTTAA
1 AATTTTTAA
31860822 AATTTTTAA
1 AATTTTTAA
31860831 AATTTTTAA
1 AATTTTTAA
31860840 A
1 A
31860841 TTAGTAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AATTTTTAA
Found at i:31861160 original size:17 final size:19
Alignment explanation
Indices: 31861135--31861172 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
31861125 GATTAATTAA
*
31861135 AAATATATTTTAAAT-TTT
1 AAATATATTTAAAATATTT
31861153 AAAT-TATTTAAAATATTT
1 AAATATATTTAAAATATTT
31861171 AA
1 AA
31861173 CTTCAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATATATTTAAAATATTT
Found at i:31880321 original size:23 final size:23
Alignment explanation
Indices: 31880291--31880338 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
31880281 CATCTAATCA
31880291 CCATAGATTCTTTTTTAGCTCAT
1 CCATAGATTCTTTTTTAGCTCAT
* *
31880314 CCATAGATTCTTTTTTTGCTTAT
1 CCATAGATTCTTTTTTAGCTCAT
31880337 CC
1 CC
31880339 TTTATATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (23 bp):
CCATAGATTCTTTTTTAGCTCAT
Found at i:31884562 original size:30 final size:30
Alignment explanation
Indices: 31884528--31884681 Score: 136
Period size: 30 Copynumber: 5.2 Consensus size: 30
31884518 TTATGTTTTA
*
31884528 ACCCTCGAACTTTTCAAAAATTCAAATTTG
1 ACCCTCAAACTTTTCAAAAATTCAAATTTG
* * **
31884558 ACCCTTAAAC-TTTCCAAAATTTGAATTTG
1 ACCCTCAAACTTTTCAAAAATTCAAATTTG
* * **
31884587 A-CCTCCATACTTTCCAAAAATTTGAATTTG
1 ACCCT-CAAACTTTTCAAAAATTCAAATTTG
* ** *
31884617 ACCCCCAAAC-TTTCTAAAAATTCTTATTTA
1 ACCCTCAAACTTTTC-AAAAATTCAAATTTG
31884647 ACCC-CTAAACTTTTCAAAAATTCAAATTTG
1 ACCCTC-AAACTTTTCAAAAATTCAAATTTG
31884677 ACCCT
1 ACCCT
31884682 GTTTTAATGT
Statistics
Matches: 98, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
28 3 0.03
29 24 0.24
30 65 0.66
31 6 0.06
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (30 bp):
ACCCTCAAACTTTTCAAAAATTCAAATTTG
Found at i:31884667 original size:60 final size:60
Alignment explanation
Indices: 31884504--31884680 Score: 184
Period size: 60 Copynumber: 3.0 Consensus size: 60
31884494 ATTTTGTCCA
* * **
31884504 AAACTTTATAAAAATTATGT-TTTAA-CCCTCGAACTTTTCAAAAATTCAAATTTGACCCTT
1 AAACTTTCTAAAAATT-TGTATTTAACCCCT-AAACTTTTCAAAAATTCAAATTTGACCCCC
* * * * * **
31884564 AAACTTTC-CAAAATTTGAATTTGACCTCC-ATACTTTCCAAAAATTTGAATTTGACCCCC
1 AAACTTTCTAAAAATTTGTATTTAACC-CCTAAACTTTTCAAAAATTCAAATTTGACCCCC
31884623 AAACTTTCTAAAAATTCT-TATTTAACCCCTAAACTTTTCAAAAATTCAAATTTGACCC
1 AAACTTTCTAAAAATT-TGTATTTAACCCCTAAACTTTTCAAAAATTCAAATTTGACCC
31884681 TGTTTTAATG
Statistics
Matches: 93, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
58 2 0.02
59 43 0.46
60 45 0.48
61 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (60 bp):
AAACTTTCTAAAAATTTGTATTTAACCCCTAAACTTTTCAAAAATTCAAATTTGACCCCC
Found at i:31888067 original size:402 final size:403
Alignment explanation
Indices: 31887323--31888127 Score: 1513
Period size: 402 Copynumber: 2.0 Consensus size: 403
31887313 TGAGTAAGAT
*
31887323 TGTCAGTGCAATTATGTTAGATCTGCACACTAAAATAATCAGGAATGTCAATGCAATCAAGGTTA
1 TGTCAGTGCAATTATGTCAGATCTGCACACTAAAATAATCAGGAATGTCAATGCAATCAAGGTTA
*
31887388 ATTGTTAGAGCAACTGAAAGTAAATCAAAGTGCTGTTGAAATGTTGAGTATTTAAATGCATAAAA
66 ATTATTAGAGCAACTGAAAGTAAATCAAAGTGCTGTTGAAATGTTGAGTATTTAAATGCATAAAA
*
31887453 GTAAAGGTTTGATCTAGTGTAAAGAATTGGAGAGGATCACTGACTTCGCTAAGTAGCAACGCTGG
131 GTAAAGGTTTGATATAGTGTAAAGAATTGGAGAGGATCACTGACTTCGCTAAGTAGCAACGCTGG
* *
31887518 ATGCACAGACAAGGTAAAATATAGATGGAATGTCGCTGCAATGAAGTCCTTTTGAGTTCTTACCA
196 ATGCACAAACAAGGTAAAATATAGATGGAATGTCACTGCAATGAAGTCCTTTTGAGTTCTTACCA
31887583 ACAACAACTCTCTACTTAATCCCGACTTAAATATCCACAATCACTCCACCTCTCGGTGCGAGCAA
261 ACAACAACTCTCTACTTAATCCCGACTTAAATATCCACAATCACTCCACCTCTCGGTGCGAGCAA
*
31887648 CGATGTGTATTTAAGAACAAGTAACTGGAGTTTATCCCAGTCCCAAGCAGCTCTCGCCT-ACTTA
326 CGATGTGTATTTAAGAACAAGTAACTGGAGTTTATCCCAGTCCCAAACAGCTCTCGCCTAACTTA
31887712 CTTGTTAACCCAA
391 CTTGTTAACCCAA
*
31887725 TGTCAGTGCAATTATGTCAGATTTGCACACTAAAATAATCAGGAATGTCAATGCAATCAAGGTTA
1 TGTCAGTGCAATTATGTCAGATCTGCACACTAAAATAATCAGGAATGTCAATGCAATCAAGGTTA
*
31887790 ATTATTAGAGCAACTGAAAGTAAATCAAAGTGTTGTTGAAATGTTGAGTATTTAAATGCATAAAA
66 ATTATTAGAGCAACTGAAAGTAAATCAAAGTGCTGTTGAAATGTTGAGTATTTAAATGCATAAAA
31887855 GTAAAGGTTTGATATAGTGTAAAGAATTGGAGAGGATCACTGACTTCGCTAAGTAGCAACGCTGG
131 GTAAAGGTTTGATATAGTGTAAAGAATTGGAGAGGATCACTGACTTCGCTAAGTAGCAACGCTGG
*
31887920 ATGCACAAACAAGGTAAAATATAGATGGAATGTCACTGCAATGAAGTCCTTTTGAGTTCTTACTA
196 ATGCACAAACAAGGTAAAATATAGATGGAATGTCACTGCAATGAAGTCCTTTTGAGTTCTTACCA
*
31887985 ACAACAGCTCTCTACTTAATCCCGACTTAAATATCCACAATCACTCCACCTCTCGGTGCGAGCAA
261 ACAACAACTCTCTACTTAATCCCGACTTAAATATCCACAATCACTCCACCTCTCGGTGCGAGCAA
31888050 CGATGTGTATTTAAGAACAAGTAACTGGAGTTTATCCCAGTCCCAAACAGCTCTCGCCTAACTTA
326 CGATGTGTATTTAAGAACAAGTAACTGGAGTTTATCCCAGTCCCAAACAGCTCTCGCCTAACTTA
31888115 CTTGTTAACCCAA
391 CTTGTTAACCCAA
31888128 CCTGTCACCG
Statistics
Matches: 392, Mismatches: 10, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
402 374 0.95
403 18 0.05
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (403 bp):
TGTCAGTGCAATTATGTCAGATCTGCACACTAAAATAATCAGGAATGTCAATGCAATCAAGGTTA
ATTATTAGAGCAACTGAAAGTAAATCAAAGTGCTGTTGAAATGTTGAGTATTTAAATGCATAAAA
GTAAAGGTTTGATATAGTGTAAAGAATTGGAGAGGATCACTGACTTCGCTAAGTAGCAACGCTGG
ATGCACAAACAAGGTAAAATATAGATGGAATGTCACTGCAATGAAGTCCTTTTGAGTTCTTACCA
ACAACAACTCTCTACTTAATCCCGACTTAAATATCCACAATCACTCCACCTCTCGGTGCGAGCAA
CGATGTGTATTTAAGAACAAGTAACTGGAGTTTATCCCAGTCCCAAACAGCTCTCGCCTAACTTA
CTTGTTAACCCAA
Found at i:31891716 original size:14 final size:14
Alignment explanation
Indices: 31891689--31891726 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
31891679 GACATATTGC
31891689 ACTGACA-T-CAAT
1 ACTGACATTACAAT
*
31891701 ACTGGCATTACAAT
1 ACTGACATTACAAT
31891715 ACTGACATTACA
1 ACTGACATTACA
31891727 CTTAATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 6 0.27
13 1 0.05
14 15 0.68
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (14 bp):
ACTGACATTACAAT
Found at i:31900598 original size:13 final size:14
Alignment explanation
Indices: 31900577--31900613 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
31900567 CTTGAAAAAC
31900577 AAAAA-AAAAAAG-
1 AAAAAGAAAAAAGA
*
31900589 AGAAAGAAAAAAGA
1 AAAAAGAAAAAAGA
31900603 AAAAAGAAAAA
1 AAAAAGAAAAA
31900614 GAATAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 4 0.19
13 7 0.33
14 10 0.48
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAGA
Found at i:31900600 original size:18 final size:18
Alignment explanation
Indices: 31900577--31900611 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31900567 CTTGAAAAAC
31900577 AAAAAA-AAAAAGAGAAAG
1 AAAAAAGAAAAA-AGAAAG
31900595 AAAAAAGAAAAAAGAAA
1 AAAAAAGAAAAAAGAAA
31900612 AAGAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAGAAAG
Found at i:31900600 original size:20 final size:20
Alignment explanation
Indices: 31900577--31900616 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31900567 CTTGAAAAAC
*
31900577 AAAAAAAAAAAGAGAAAGAA
1 AAAAAAAAAAAGAAAAAGAA
*
31900597 AAAAGAAAAAAGAAAAAGAA
1 AAAAAAAAAAAGAAAAAGAA
31900617 TAAATTGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAGAAAAAGAA
Found at i:31909912 original size:50 final size:50
Alignment explanation
Indices: 31909794--31909912 Score: 220
Period size: 50 Copynumber: 2.4 Consensus size: 50
31909784 TCTAATCTTT
*
31909794 TACACCTAAAGCTGTAGAAGTGCAGATTGAAGCCGCAATGACAAATCTCA
1 TACACCTAAAGCTGTAGAGGTGCAGATTGAAGCCGCAATGACAAATCTCA
31909844 TACACCTAAAGCTGTAGAGGTGCAGATTGAAGCCGCAATGACAAATCTCA
1 TACACCTAAAGCTGTAGAGGTGCAGATTGAAGCCGCAATGACAAATCTCA
*
31909894 TACACCTAAAGCTATAGAG
1 TACACCTAAAGCTGTAGAG
31909913 AGGTAAATTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (50 bp):
TACACCTAAAGCTGTAGAGGTGCAGATTGAAGCCGCAATGACAAATCTCA
Found at i:31910254 original size:50 final size:50
Alignment explanation
Indices: 31910030--31910256 Score: 169
Period size: 51 Copynumber: 4.5 Consensus size: 50
31910020 GGAGTGAAGC
* * **
31910030 CAAATCCAATATCCCTGAAGTTACAGTGGA-TTAGATTGAAGCTAC-AAAGG
1 CAAATCCTATATCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACGAAA-G
* * * * *
31910080 CGAATACT-TATCTCTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAAAAC
1 CAAATCCTATATC-C-CTGAAGTTGCAGTGGAGCAAGATGAAGCTACGAAAG
* * * * * *
31910131 CAAATCCTATA-CCCTTAAAGTTGAAGT-GAGTC-GGATTAAGATCATGAAAG
1 CAAATCCTATATCCC-TGAAGTTGCAGTGGAG-CAAGATGAAGCT-ACGAAAG
* * * *
31910181 CAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACGACAT
1 CAAATC-CTATATCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACGAAAG
31910232 CAAATCCTATATCCCTGAAGTTGCA
1 CAAATCCTATATCCCTGAAGTTGCA
31910257 TTAGATTGGA
Statistics
Matches: 135, Mismatches: 30, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
49 15 0.11
50 45 0.33
51 54 0.40
52 21 0.16
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (50 bp):
CAAATCCTATATCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACGAAAG
Found at i:31910284 original size:101 final size:99
Alignment explanation
Indices: 31910029--31910328 Score: 275
Period size: 101 Copynumber: 3.0 Consensus size: 99
31910019 TGGAGTGAAG
* * * * *
31910029 CCAAATCCAATATCCCTGAAGTTACAGTGGATTAGATTGAAGCTACA-AAGGCGAATACTTATCT
1 CCAAATCCTATATCCCTGAAGTTGCAGT-GATTGGATTGAAGATACATAA-GCAAAT-CTTATCT
*
31910093 CTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAAAA
63 CCCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAAAA
* * *
31910130 CCAAATCCTATA-CCCTTAAAGTTGAAGTGAGTCGGATT-AAGAT-CATGAAAGCAAATCTTTAT
1 CCAAATCCTATATCCC-TGAAGTTGCAGTGA-TTGGATTGAAGATACAT--AAGCAAATC-TTAT
* * *
31910192 CTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACGACA
61 CTCCCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAAAA
* * * * * *
31910231 TCAAATCCTATATCCCTGAAGTTGCATTAGATTGGATTGAGGATACATTAGCAAGTCCTATCTCC
1 CCAAATCCTATATCCCTGAAGTTGCAGT-GATTGGATTGAAGATACATAAGCAAATCTTATCTCC
* * ** * *
31910296 CTAAAGATATAATAGAGCAAGATAAAGCTACAA
65 CTGAAGTTGCAGTAGAGCAAGATGAAGCTACAA
31910329 TATTGAAGAT
Statistics
Matches: 160, Mismatches: 29, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
99 2 0.01
100 42 0.26
101 102 0.64
102 11 0.07
103 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (99 bp):
CCAAATCCTATATCCCTGAAGTTGCAGTGATTGGATTGAAGATACATAAGCAAATCTTATCTCCC
TGAAGTTGCAGTAGAGCAAGATGAAGCTACAAAA
Found at i:31911829 original size:30 final size:30
Alignment explanation
Indices: 31911795--31912021 Score: 153
Period size: 30 Copynumber: 7.6 Consensus size: 30
31911785 GCTTTATTTT
* * * *
31911795 AAATTATTTTTTGACCCTTAAACTATCTAA
1 AAATTATATTTTGACCCTAAAACTTTCCAA
* * * *
31911825 AAATTGTGTTTTGA-CC-AAAATTTTCTAA
1 AAATTATATTTTGACCCTAAAACTTTCCAA
* *
31911853 AAATTATGTTTTGACCCCAAAACTTTCCAA
1 AAATTATATTTTGACCCTAAAACTTTCCAA
* *
31911883 AAATTCA-AATTTGACCCCAAAACTTTCCAA
1 AAATT-ATATTTTGACCCTAAAACTTTCCAA
* *
31911913 AAATTCA-AATTTGACCCTTAAACTTTCCAA
1 AAATT-ATATTTTGACCCTAAAACTTTCCAA
* * *
31911943 AAATT-TGATTTTAACCCTCAAACTTTCTAA
1 AAATTAT-ATTTTGACCCTAAAACTTTCCAA
* * * *
31911973 AAATTTTGATTAATAACCCCT-AAACTTTCTAA
1 AAATTAT-ATT-TTGA-CCCTAAAACTTTCCAA
31912005 AAATTCA-ATTTTGACCC
1 AAATT-ATATTTTGACCC
31912022 AATTTTAATG
Statistics
Matches: 168, Mismatches: 20, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
28 22 0.13
29 7 0.04
30 107 0.64
31 9 0.05
32 19 0.11
33 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (30 bp):
AAATTATATTTTGACCCTAAAACTTTCCAA
Found at i:31911927 original size:60 final size:60
Alignment explanation
Indices: 31911862--31912021 Score: 178
Period size: 60 Copynumber: 2.6 Consensus size: 60
31911852 AAAATTATGT
* *
31911862 TTTGACCCCAAAACTTTCCAAAAATTCAAATTTGACCC-CAAAACTTTCCAAAAATTCAAA
1 TTTGACCCCTAAACTTTCCAAAAATTCAATTTTGACCCTC-AAACTTTCCAAAAATTCAAA
* ** * * ***
31911922 TTTGACCCTTAAACTTTCCAAAAATTTGATTTTAACCCTCAAACTTTCTAAAAATTTTGA
1 TTTGACCCCTAAACTTTCCAAAAATTCAATTTTGACCCTCAAACTTTCCAAAAATTCAAA
* *
31911982 TTAATAACCCCTAAACTTTCTAAAAATTCAATTTTGACCC
1 TT--TGACCCCTAAACTTTCCAAAAATTCAATTTTGACCC
31912022 AATTTTAATG
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
60 50 0.62
61 1 0.01
62 30 0.37
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.34
Consensus pattern (60 bp):
TTTGACCCCTAAACTTTCCAAAAATTCAATTTTGACCCTCAAACTTTCCAAAAATTCAAA
Found at i:31912099 original size:16 final size:17
Alignment explanation
Indices: 31912078--31912114 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
31912068 CATGTTTTTA
*
31912078 TTTTTCTTATTTAT-CC
1 TTTTTCTTATTAATCCC
31912094 TTTTTCTTATTAATCCC
1 TTTTTCTTATTAATCCC
31912111 TTTT
1 TTTT
31912115 ATATGCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTCTTATTAATCCC
Done.