Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 33 of 132
Found at i:8978862 original size:13 final size:14
Alignment explanation
Indices: 8978821--8978864 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
8978811 AATCATTCAT
8978821 AAATATA-AATAT-
1 AAATATATAATATA
8978833 AAATATATAATATA
1 AAATATATAATATA
*
8978847 AAATCTATAAT-TA
1 AAATATATAATATA
8978860 AAATA
1 AAATA
8978865 ACATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 7 0.25
13 11 0.39
14 10 0.36
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATATAATATA
Found at i:8980083 original size:33 final size:33
Alignment explanation
Indices: 8980031--8980110 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
8980021 TCTAAAAAAA
* ** *
8980031 AGTCAACAGTCAATGTCAAAGTCAACGATCAAT
1 AGTCAACGGTCAACATCAAAGTCAACGATCAAC
* * * *
8980064 GGTCGACGGTCAACATCAAAGTTAATGATCAAC
1 AGTCAACGGTCAACATCAAAGTCAACGATCAAC
8980097 AGTCAACGGTCAAC
1 AGTCAACGGTCAAC
8980111 GGGTTGGGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (33 bp):
AGTCAACGGTCAACATCAAAGTCAACGATCAAC
Found at i:8984132 original size:24 final size:21
Alignment explanation
Indices: 8984105--8984160 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 21
8984095 TAAATTTTCA
8984105 AGTATCGGTAGTTCTGACCATAGT
1 AGTATCGGTAGTT-TGA--ATAGT
*
8984129 AGTATCGATAGTTTGAATAGT
1 AGTATCGGTAGTTTGAATAGT
8984150 AGTATCGGTAG
1 AGTATCGGTAG
8984161 AAGCTATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 15 0.50
23 3 0.10
24 12 0.40
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.34
Consensus pattern (21 bp):
AGTATCGGTAGTTTGAATAGT
Found at i:8995786 original size:14 final size:14
Alignment explanation
Indices: 8995767--8995801 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
8995757 GAAAGGTAAG
8995767 TCATTTTCT-AGAAA
1 TCATTTTCTGA-AAA
8995781 TCATTTTCTGAAAA
1 TCATTTTCTGAAAA
8995795 TCATTTT
1 TCATTTT
8995802 TAGTCCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (14 bp):
TCATTTTCTGAAAA
Found at i:8996542 original size:21 final size:21
Alignment explanation
Indices: 8996516--8996555 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8996506 TAAAGTTCAA
*
8996516 GGTCTAGATTCTAAGGTTTAT
1 GGTCTAGACTCTAAGGTTTAT
*
8996537 GGTCTAGACTCTAGGGTTT
1 GGTCTAGACTCTAAGGTTT
8996556 CAAAGTCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.28, T:0.40
Consensus pattern (21 bp):
GGTCTAGACTCTAAGGTTTAT
Found at i:8996598 original size:28 final size:28
Alignment explanation
Indices: 8996567--8996620 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
8996557 AAAGTCTAAG
*
8996567 ATCAAGGATTC-AGGTTTTAAGGTTTAGA
1 ATCAAGGATTCAAGG-TTTAAGATTTAGA
*
8996595 ATCAAGGGTTCAAGGTTTAAGATTTA
1 ATCAAGGATTCAAGGTTTAAGATTTA
8996621 TGGTTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (28 bp):
ATCAAGGATTCAAGGTTTAAGATTTAGA
Found at i:8996936 original size:20 final size:19
Alignment explanation
Indices: 8996920--8996958 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
8996910 TAATTTTTAT
8996920 AATATAAAATAAATTTTAAA
1 AATAT-AAATAAATTTTAAA
*
8996940 AATATATATAAATTTTAAA
1 AATATAAATAAATTTTAAA
8996959 CTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATAAATAAATTTTAAA
Found at i:8997050 original size:19 final size:20
Alignment explanation
Indices: 8997012--8997050 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8997002 AATATTTATA
8997012 TTTAACTTTTTTATATACTT
1 TTTAACTTTTTTATATACTT
*
8997032 TTTAATTTTTTTATA-ACTT
1 TTTAACTTTTTTATATACTT
8997051 ATATATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAACTTTTTTATATACTT
Found at i:8998652 original size:4 final size:4
Alignment explanation
Indices: 8998643--8998667 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8998633 TCAATTCTAT
8998643 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
8998668 AATAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:9003810 original size:22 final size:22
Alignment explanation
Indices: 9003782--9003830 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
9003772 CAAAAAAGGA
* *
9003782 AAAAAGAGAAAAAGAGGAAAAG
1 AAAAAGAAAAAAAGAAGAAAAG
9003804 AAAAAGAAAAAAAGAAGAAAAG
1 AAAAAGAAAAAAAGAAGAAAAG
9003826 AAAAA
1 AAAAA
9003831 AGGGGAGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAGAAGAAAAG
Found at i:9004852 original size:49 final size:49
Alignment explanation
Indices: 9004713--9004895 Score: 170
Period size: 49 Copynumber: 3.7 Consensus size: 49
9004703 TCTATAGGTT
* * *
9004713 TGAAGGGAAAGATTGAAGCCGTAATGGTAAATCTGATACCCTAGAGATA
1 TGAAGGGAAAGATTGAAGCCGTAATGGTGAATCTTATACCCTAGAGATG
* * * * * *
9004762 TGAAGAGAAAGGTTGAAGCCGCAACGGTGAACCTTGTACCCTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGTAATGGTGAATCTTATACCCTAGAGATG
* ** * *
9004811 TGAAGGGAAAGATTGAGGCCGTAATGACGAATCTTACACCCTAAAGATG
1 TGAAGGGAAAGATTGAAGCCGTAATGGTGAATCTTATACCCTAGAGATG
* ** * * *
9004860 AGGAAAAG-TAGATTGAAGCCGCAAAGGTGAATCTTA
1 -TGAAGGGAAAGATTGAAGCCGTAATGGTGAATCTTA
9004896 CATCTCTAAA
Statistics
Matches: 104, Mismatches: 29, Indels: 2
0.77 0.21 0.01
Matches are distributed among these distances:
49 100 0.96
50 4 0.04
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (49 bp):
TGAAGGGAAAGATTGAAGCCGTAATGGTGAATCTTATACCCTAGAGATG
Found at i:9004882 original size:98 final size:98
Alignment explanation
Indices: 9004713--9004890 Score: 232
Period size: 98 Copynumber: 1.8 Consensus size: 98
9004703 TCTATAGGTT
** * * * * *
9004713 TGAAGGGAAAGATTGAAGCCGTAATGGTAAATCTGATACCCTAGAGATATGAAGAGAAAGGTTGA
1 TGAAGGGAAAGATTGAAGCCGTAATGACAAATCTGACACCCTAAAGATAGGAAAAGAAAGATTGA
*
9004778 AGCCGCAACGGTGAACCTTGTACCCTAGAGATG
66 AGCCGCAAAGGTGAACCTTGTACCCTAGAGATG
* * * *
9004811 TGAAGGGAAAGATTGAGGCCGTAATGACGAATCTTACACCCTAAAGATGAGGAAAAG-TAGATTG
1 TGAAGGGAAAGATTGAAGCCGTAATGACAAATCTGACACCCTAAAGAT-AGGAAAAGAAAGATTG
9004875 AAGCCGCAAAGGTGAA
65 AAGCCGCAAAGGTGAA
9004891 TCTTACATCT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
98 61 0.91
99 6 0.09
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.19
Consensus pattern (98 bp):
TGAAGGGAAAGATTGAAGCCGTAATGACAAATCTGACACCCTAAAGATAGGAAAAGAAAGATTGA
AGCCGCAAAGGTGAACCTTGTACCCTAGAGATG
Found at i:9005174 original size:40 final size:39
Alignment explanation
Indices: 9005130--9005218 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 39
9005120 TACAATCATC
9005130 CAATCTTTTACCCTAA-TCAAAAGGCAGATTGAAGACCATT
1 CAATCTTTTACCCTAACT-AAAAGGCAGATTGAAGACCA-T
* * *
9005170 CAATCTTTTACCTTAACTAGAGGGCAGATTGAAGACCAT
1 CAATCTTTTACCCTAACTAAAAGGCAGATTGAAGACCAT
9005209 CAGATCTTTT
1 CA-ATCTTTT
9005219 TCAAGACCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 3 0.07
40 40 0.91
41 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (39 bp):
CAATCTTTTACCCTAACTAAAAGGCAGATTGAAGACCAT
Found at i:9005226 original size:20 final size:20
Alignment explanation
Indices: 9005201--9005238 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9005191 GGGCAGATTG
9005201 AAGACCAT-CAGATCTTTTTC
1 AAGACCATCCA-ATCTTTTTC
9005221 AAGACCATCCAATCTTTT
1 AAGACCATCCAATCTTTT
9005239 ACCCTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (20 bp):
AAGACCATCCAATCTTTTTC
Found at i:9005319 original size:40 final size:40
Alignment explanation
Indices: 9005251--9006810 Score: 992
Period size: 40 Copynumber: 39.3 Consensus size: 40
9005241 CCTAACTAAA
** *
9005251 GGCAGATTGAAGACCATTTAATCTCTTACCTCGACCATGAG
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* **
9005292 GCCAGATTGAAG-CAGTCCAATCTCTTACCTTGACCAT-AG
1 GGCAGATTGAAGACA-TCCAATCTCTTACCCCGACCATGAG
* * **
9005331 GGCAGATTGAAGAAATCCAATCTTTTACCCTAACCA-GAG
1 GGCAGATTGAAGACATCCAATCTCTTACCCCGACCATGAG
* * * *
9005370 GGCAGATTGAAAACCATCCGATCTCTTACCTCGACCA-AAG
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * * ** * *
9005410 GGCAGATTGAAAACCATCCGATCTTTTACCCTAACCA-AAT
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * *
9005450 GGTAGATTGAAGTCATCCAATCTCTTACCTCGACCATGA-
1 GGCAGATTGAAGACATCCAATCTCTTACCCCGACCATGAG
* * * * ** *
9005489 GGCAGATTGAAG-CAATTCTATTTTTTACCCTAACCA-GAA
1 GGCAGATTGAAGAC-ATCCAATCTCTTACCCCGACCATGAG
* * *
9005528 GGCGGATTGAAGACCATTCGATCTCTTACCCCGACCATGA-
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * * * ** *
9005568 GGTAGATCGAAGACCATCCGATCTTTTACCCTAATCATG-G
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * * *** *
9005608 GGCAGATTGAAGTA-ATTCAGATATTTTACCTTAACCA-GGG
1 GGCAGATTGAAG-ACATCCA-ATCTCTTACCCCGACCATGAG
* * ** *
9005648 GGCAGATTGAAGTA-ATCCAGATATTTTACCCTAACTA-GAG
1 GGCAGATTGAAG-ACATCCA-ATCTCTTACCCCGACCATGAG
* * *
9005688 GGCAGATTAAAAATCATCCAATCTCTTACCCCAACCATGA-
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * *** *
9005728 GGCAGATTAAAGTA-ATCCAATCTTTTACCTTAACCA-GAA
1 GGCAGATTGAAG-ACATCCAATCTCTTACCCCGACCATGAG
* * * *
9005767 GGCAAATTGAAGACCATCCGATCTTTTACCCCGAACA-GAG
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * *
9005807 GGCAAATTGAGGACTATCCAATCTCTTACCCCAACCAT-AG
1 GGCAGATTGAAGAC-ATCCAATCTCTTACCCCGACCATGAG
* * * * **
9005847 GGCAAATTGAAGACCATTCGATCTTTTACCCTAACCA-GAG
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
9005887 GGCAGATTGAAG-CTATCCAATCTCTTACCCCGACCATG-G
1 GGCAGATTGAAGAC-ATCCAATCTCTTACCCCGACCATGAG
* * * **
9005926 GGTAGATTGAA-ACAATCTAATCTTTTACCCTAACCA-GAG
1 GGCAGATTGAAGAC-ATCCAATCTCTTACCCCGACCATGAG
* *
9005965 GGCAGATTGAAGACCATCCGATCTCTTACCCCGACCA-AAG
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* *
9006005 GGCAGATTGAAGACCATCCGATCTCTTACCCCGACTATGA-
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * * *
9006045 GGCAGATTGAAGACCATCCGATCTTTTACCTCGACTA-GAG
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * *
9006085 GGCAGATTGAAGACCATCCGATCTCTTACCCCAACTATGA-
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * ** *
9006125 GGCAGATTGAAGTA-ATTCAGATCTTTTACCCTAACCA-GAA
1 GGCAGATTGAAG-ACATCCA-ATCTCTTACCCCGACCATGAG
* *
9006165 GGTAGATTGAAGCCATCCAATCTCTTACCCCGACCATGA-
1 GGCAGATTGAAGACATCCAATCTCTTACCCCGACCATGAG
* * *
9006204 GGCAGATTGAAGACCATCCGATCTCTTATCCCGATCATG-G
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
*
9006244 GGCAGATTGAAGACCATCCAATCTCTTACCCCGACTA-GAG
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* ** *
9006284 GGCAGATTGACGATCATCTGATCTCTTACCTCGACCATGA-
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * * *
9006324 GACAGATTGAAGACCATCCAATCTATTACCCTGATCA-GAG
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* *
9006364 GGTAGATTGAAGACTATCCGATCTCTTACCCCGACCATG-G
1 GGCAGATTGAAGAC-ATCCAATCTCTTACCCCGACCATGAG
* * ** * *
9006404 GGTAGATTGAAG-CAATCCAATCTTTTACCCTAACTA-AAG
1 GGCAGATTGAAGAC-ATCCAATCTCTTACCCCGACCATGAG
* * *
9006443 GACAAATTAAAGATCATCCAATCTCTTACCCCGACCATG-G
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * ** * *
9006483 GGTAGATTGAAG-CATTCCAATCTTTTACCCTAACTA-GAA
1 GGCAGATTGAAGACA-TCCAATCTCTTACCCCGACCATGAG
* *
9006522 GGTAGATTGAAGATCA-CTCGATCTCTTACCCCGACCATG-G
1 GGCAGATTGAAGA-CATC-CAATCTCTTACCCCGACCATGAG
* * * *
9006562 GGCAAATTGAAGACCATCCGATCTTTTACCCCGATCA-GAG
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * * *
9006602 TGCAGATTAAAGACCATCCGATCTCTTACCCTGACCATG-G
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* ** *
9006642 GGCAGATTGAAG-CAATCTAATCAT-TTACCCTAACCA-AAG
1 GGCAGATTGAAGAC-ATCCAATC-TCTTACCCCGACCATGAG
* * *
9006681 AGCAAATTGAAGACCATCCGATCTCTTACCCCGACCATG-G
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
* * ** * *
9006721 GGCAGATTGAAGTA-ATTCAATCTTTTACCCTAACCA-AAA
1 GGCAGATTGAAG-ACATCCAATCTCTTACCCCGACCATGAG
* * * *
9006760 GGCATATTAAAGACCATTCGATCTCTTACCCCGACCATG-G
1 GGCAGATTGAAGA-CATCCAATCTCTTACCCCGACCATGAG
*
9006800 GACAGATTGAA
1 GGCAGATTGAA
9006811 ACAATCTAAT
Statistics
Matches: 1214, Mismatches: 234, Indels: 143
0.76 0.15 0.09
Matches are distributed among these distances:
38 13 0.01
39 345 0.28
40 816 0.67
41 40 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (40 bp):
GGCAGATTGAAGACATCCAATCTCTTACCCCGACCATGAG
Found at i:9006074 original size:437 final size:436
Alignment explanation
Indices: 9005227--9006833 Score: 1469
Period size: 437 Copynumber: 3.7 Consensus size: 436
9005217 TTTCAAGACC
* * * * ** * *
9005227 ATCCA-ATCTTTTACCCTAACTA--AAGGCAGATTGAAGACCATTTAATCTCTTACCTCGACCAT
1 ATCCAGATCTCTTACCCCAACTATGAGGGCAGATTGAAAACCATCCAATCTCTTACCCCAACCA-
* * *
9005289 GAGGCCAGATTGAAGCAGTCCAATCTCTTACCTTGACCAT-AGGGCAGATTGAAGA-AATCCAAT
65 GAGG-CAGATTAAAGCAATCCAATCTCTTACCCTGACCATGA-GGCAGATTGAAGACAATCCAAT
* * * * * *
9005352 CTTTTACCCTAACCAGAGGGCAGATTGAAAACCATCCGATCTCTTACCTCGACCAAAGGGCAGAT
128 CTTTTACCCGAACCAGAGGGCAAATTGAAGACCATCCAATCTCTTACCCCGACCATAGGGCAGAT
* * * * *
9005417 TGAAAACCATCCGATCTTTTACCCTAACCAAATGGTAGATTGAAG-TCATCCAATCTCTTACCTC
193 TGAAGACCATTCGATCTTTTACCCTAACCAAA-GGCAGATTGAAGACCATCCAATCTCTTACCCC
* * * * *
9005481 GACCATGAGGCAGATTGAAGCAATTCT-ATTTTTTACCCTAACCAGAAGGCGGATTGAAGACCAT
257 GACCATGGGGCAGATTGAAACAA-TCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCAT
* * * * * * *
9005545 TCGATCTCTTACCCCGACC-ATGAGGTAGATCGAAGACCATCCGATCTTTTA-CCCTAATCATGG
321 CCGATCTCTTACCCCGACCAAAG-GGCAGATTGAAGACCATCCGATCTCTTACCCCGACT-ATGG
* * * *
9005608 GGCAGATTGAAGTA-ATTCAGATATTTTACCTTAACCAGGGGGCAGATTGAAGTA
384 GGCAGATTGAAG-ACATTCCGATCTTTTACCTTAACTAGAGGGCAGATTGAAG-A
* * * * *
9005662 ATCCAGATATTTTACCCTAACTA-GAGGGCAGATTAAAAATCATCCAATCTCTTACCCCAACCAT
1 ATCCAGATCTCTTACCCCAACTATGAGGGCAGATTGAAAACCATCCAATCTCTTACCCCAACCA-
* * * * * * *
9005726 GAGGCAGATTAAAGTAATCCAATCTTTTACCTTAACCA-GAAGGCAAATTGAAGACCATCCGATC
65 GAGGCAGATTAAAGCAATCCAATCTCTTACCCTGACCATG-AGGCAGATTGAAGACAATCCAATC
* * * *
9005790 TTTTACCCCGAA-CAGAGGGCAAATTGAGGACTATCCAATCTCTTACCCCAACCATAGGGCAAAT
129 TTTTA-CCCGAACCAGAGGGCAAATTGAAGACCATCCAATCTCTTACCCCGACCATAGGGCAGAT
* *
9005854 TGAAGACCATTCGATCTTTTACCCTAACCAGAGGGCAGATTGAAG-CTATCCAATCTCTTACCCC
193 TGAAGACCATTCGATCTTTTACCCTAACCA-AAGGCAGATTGAAGACCATCCAATCTCTTACCCC
*
9005918 GACCATGGGGTAGATTGAAACAATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATC
257 GACCATGGGGCAGATTGAAACAATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATC
*
9005983 CGATCTCTTACCCCGACCAAAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGACTATGAGGC
322 CGATCTCTTACCCCGACCAAAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGACTATGGGGC
**
9006048 AGATTGAAGACCA-TCCGATCTTTTACCTCGACTAGAGGGCAGATTGAAGA
387 AGATTGAAGA-CATTCCGATCTTTTACCTTAACTAGAGGGCAGATTGAAGA
* * * *
9006098 CCATCC-GATCTCTTACCCCAACTATGA-GGCAGATTGAAGTA--ATTCAGATCTTTTACCCTAA
1 --ATCCAGATCTCTTACCCCAACTATGAGGGCAGATTGAA-AACCATCCA-ATCTCTTACCCCAA
* * * * * *
9006159 CCAGAAGGTAGATTGAAGCCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACCATCCG
62 CCAG-AGGCAGATTAAAGCAATCCAATCTCTTACCCTGACCATGAGGCAGATTGAAGACAATCCA
* * * * *
9006224 ATCTCTTATCCCG-ATCATG-GGGCAGATTGAAGACCATCCAATCTCTTACCCCGACTAGAGGGC
126 ATCTTTTA-CCCGAACCA-GAGGGCAAATTGAAGACCATCCAATCTCTTACCCCGACCATAGGGC
* * * * * * *
9006287 AGATTGACGATCA-TCTGATCTCTTA-CCTCGACCATGAGACAGATTGAAGACCATCCAATCTAT
189 AGATTGAAGACCATTC-GATCTTTTACCCT-AACCA-AAGGCAGATTGAAGACCATCCAATCTCT
* * * * ** * ** *
9006350 TACCCTGATCA-GAGGGTAGATTGAAGACTATCCGATCTCTTACCCCGACCATG-GGGTAGATTG
251 TACCCCGACCATG-GGGCAGATTGAA-ACAATCTAATCTTTTACCCTAACCA-GAGGGCAGATTG
* * * ** * * * * * *
9006413 AAG-CAATCCAATCTTTTACCCTAACTAAAGGACAAATTAAAGATCATCCAATCTCTTACCCCGA
313 AAGACCATCCGATCTCTTACCCCGACCAAAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGA
* * * * * *
9006477 CCATGGGGTAGATTGAAG-CATTCCAATCTTTTACCCTAACTAGAAGGTAGATTGAAG-
378 CTATGGGGCAGATTGAAGACATTCCGATCTTTTACCTTAACTAGAGGGCAGATTGAAGA
* * * * * * * * *
9006534 ATCACTCGATCTCTTACCCCGACCATG-GGGCAAATTGAAGACCATCCGATCTTTTACCCCGATC
1 ATC-C-AGATCTCTTACCCCAACTATGAGGGCAGATTGAAAACCATCCAATCTCTTACCCCAACC
* * * *
9006598 AGAGTGCAGATTAAAGACCATCCGATCTCTTACCCTGACCATGGGGCAGATTGAAG-CAATCTAA
64 AGAG-GCAGATTAAAG-CAATCCAATCTCTTACCCTGACCATGAGGCAGATTGAAGACAATCCAA
* * * * * *
9006662 TCATTTACCCTAACCAAAGAGCAAATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGA
127 TCTTTTACCCGAACCAGAGGGCAAATTGAAGACCATCCAATCTCTTACCCCGACCATAGGGCAGA
* * * * *
9006727 TTGAAGTA--ATTCAATCTTTTACCCTAACCAAAAGGCATATTAAAGACCATTCGATCTCTTACC
192 TTGAAG-ACCATTCGATCTTTTACCCTAACC-AAAGGCAGATTGAAGACCATCCAATCTCTTACC
* *
9006790 CCGACCATGGGACAGATTGAAACAATCTAATATTTTACCTCTAA
255 CCGACCATGGGGCAGATTGAAACAATCTAATCTTTTACC-CTAA
9006834 AACTATAGAG
Statistics
Matches: 959, Mismatches: 169, Indels: 87
0.79 0.14 0.07
Matches are distributed among these distances:
434 3 0.00
435 19 0.02
436 134 0.14
437 611 0.64
438 160 0.17
439 31 0.03
440 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (436 bp):
ATCCAGATCTCTTACCCCAACTATGAGGGCAGATTGAAAACCATCCAATCTCTTACCCCAACCAG
AGGCAGATTAAAGCAATCCAATCTCTTACCCTGACCATGAGGCAGATTGAAGACAATCCAATCTT
TTACCCGAACCAGAGGGCAAATTGAAGACCATCCAATCTCTTACCCCGACCATAGGGCAGATTGA
AGACCATTCGATCTTTTACCCTAACCAAAGGCAGATTGAAGACCATCCAATCTCTTACCCCGACC
ATGGGGCAGATTGAAACAATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGAT
CTCTTACCCCGACCAAAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGACTATGGGGCAGAT
TGAAGACATTCCGATCTTTTACCTTAACTAGAGGGCAGATTGAAGA
Found at i:9006512 original size:79 final size:78
Alignment explanation
Indices: 9005225--9006833 Score: 1052
Period size: 79 Copynumber: 20.3 Consensus size: 78
9005215 TTTTTCAAGA
* *** *
9005225 CCATCCAATCTTTTACCCTAACTAAAGGCAGATTGAAGACCATTTAATCTCTTACCTCGACCATG
1 CCATCCAATCTTTTACCCTAACTAGAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATG
*
9005290 AGGCCAGATTGAAG
66 -GGGCAGATTGAAG
* * * * * * **
9005304 -CAGTCCAATCTCTTACCTTGACCATAG-GGCAGATTGAAGA-AATCCAATCTTTTACCCTAACC
1 CCA-TCCAATCTTTTACCCT-AAC-TAGAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACC
*
9005366 A-GAGGGCAGATTGAAAA
63 ATG-GGGCAGATTG-AAG
* * * * * * * **
9005383 CCATCCGATCTCTTA-CCTCGACCAAAGGGCAGATTGAAAACCATCCGATCTTTTACCCTAACCA
1 CCATCCAATCTTTTACCCT-AACTAGA-GGCAGATTGAAGACCATCCGATCTCTTACCCCGACCA
*** *
9005447 AATGGTAGATTGAAG
64 TGGGGCAGATTGAAG
* * * * * * * * * **
9005462 TCATCCAATCTCTTA-CCTCGACCATGAGGCAGATTGAAG-CAATTCTATTTTTTACCCTAACCA
1 CCATCCAATCTTTTACCCT-AACTA-GAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCA
* *
9005525 -GAAGGCGGATTGAAG
64 TG-GGGCAGATTGAAG
* * * ** * * * * ** *
9005540 ACCATTCGATCTCTTACCCCGACCATGAGGTAGATCGAAGACCATCCGATCTTTTACCCTAATCA
1 -CCATCCAATCTTTTACCCTAACTA-GAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCA
9005605 TGGGGCAGATTGAAG
64 TGGGGCAGATTGAAG
** * * * * * * * **
9005620 TAATTCAGATATTTTACCTTAACCAGGGGGCAGATTGAAGTA--ATCCAGATATTTTACCCTAAC
1 CCATCCA-ATCTTTTACCCTAACTA-GAGGCAGATTGAAG-ACCATCC-GATCTCTTACCCCGAC
* * *
9005683 TA-GAGGGCAGATTAAAAA
62 CATG-GGGCAGATT-GAAG
* * * * * * * ***
9005701 TCATCCAATCTCTTACCCCAACCATGAGGCAGATTAAAGTA--ATCCAATCTTTTACCTTAACCA
1 CCATCCAATCTTTTACCCTAACTA-GAGGCAGATTGAAG-ACCATCCGATCTCTTACCCCGACCA
* *
9005764 -GAAGGCAAATTGAAG
64 TG-GGGCAGATTGAAG
* * * * * * *
9005779 ACCATCCGATCTTTTACCCCGAAC-AGAGGGCAAATTGAGGACTATCCAATCTCTTACCCCAACC
1 -CCATCCAATCTTTTA-CCCTAACTAGA-GGCAGATTGAAGACCATCCGATCTCTTACCCCGACC
* *
9005843 ATAGGGCAAATTGAAG
63 ATGGGGCAGATTGAAG
* * * * *
9005859 ACCATTCGATCTTTTACCCTAACCAGAGGGCAGATTGAAG-CTATCCAATCTCTTACCCCGACCA
1 -CCATCCAATCTTTTACCCTAACTAGA-GGCAGATTGAAGACCATCCGATCTCTTACCCCGACCA
* *
9005923 TGGGGTAGATTGAAA
64 TGGGGCAGATTGAAG
* * * *
9005938 CAATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCAA
1 CCATCCAATCTTTTACCCTAACTAGA-GGCAGATTGAAGACCATCCGATCTCTTACCCCGACCAT
*
9006003 AGGGCAGATTGAAG
65 GGGGCAGATTGAAG
* * ** * * *
9006017 ACCATCCGATCTCTTACCCCGACTATGAGGCAGATTGAAGACCATCCGATCTTTTACCTCGACTA
1 -CCATCCAATCTTTTACCCTAACTA-GAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCA
9006082 -GAGGGCAGATTGAAG
64 TG-GGGCAGATTGAAG
* * * * * **
9006097 ACCATCCGATCTCTTACCCCAACTATGAGGCAGATTGAAGTA--ATTCAGATCTTTTACCCTAAC
1 -CCATCCAATCTTTTACCCTAACTA-GAGGCAGATTGAAG-ACCA-TCCGATCTCTTACCCCGAC
* *
9006160 CA-GAAGGTAGATTGAAG
62 CATG-GGGCAGATTGAAG
* ** * * *
9006177 CCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACCATCCGATCTCTTATCCCGATCAT
1 CCATCCAATCTTTTACCCTAACTA-GAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCAT
9006242 GGGGCAGATTGAAG
65 GGGGCAGATTGAAG
* ** * * * *
9006256 ACCATCCAATCTCTTACCCCGACTAGAGGGCAGATTGACGATCATCTGATCTCTTACCTCGACCA
1 -CCATCCAATCTTTTACCCTAACTAGA-GGCAGATTGAAGACCATCCGATCTCTTACCCCGACCA
* *
9006321 TGAGACAGATTGAAG
64 TGGGGCAGATTGAAG
* * * *
9006336 ACCATCCAATCTATTACCCTGA-TCAGAGGGTAGATTGAAGACTATCCGATCTCTTACCCCGACC
1 -CCATCCAATCTTTTACCCTAACT-AGA-GGCAGATTGAAGACCATCCGATCTCTTACCCCGACC
*
9006400 ATGGGGTAGATTGAAG
63 ATGGGGCAGATTGAAG
* * * * * *
9006416 CAATCCAATCTTTTACCCTAACTAAAGGACAAATTAAAGATCATCCAATCTCTTACCCCGACCAT
1 CCATCCAATCTTTTACCCTAACTAGAGG-CAGATTGAAGACCATCCGATCTCTTACCCCGACCAT
*
9006481 GGGGTAGATTGAAG
65 GGGGCAGATTGAAG
* *
9006495 -CATTCCAATCTTTTACCCTAACTAGAAGGTAGATTGAAGATCA-CTCGATCTCTTACCCCGACC
1 CCA-TCCAATCTTTTACCCTAACTAG-AGGCAGATTGAAGACCATC-CGATCTCTTACCCCGACC
*
9006558 ATGGGGCAAATTGAAG
63 ATGGGGCAGATTGAAG
* ** * *
9006574 ACCATCCGATCTTTTACCCCGA-TCAGAGTGCAGATTAAAGACCATCCGATCTCTTACCCTGACC
1 -CCATCCAATCTTTTACCCTAACT-AGAG-GCAGATTGAAGACCATCCGATCTCTTACCCCGACC
9006638 ATGGGGCAGATTGAAG
63 ATGGGGCAGATTGAAG
* * * * * *
9006654 CAATCTAATCATTTACCCTAACCAAAGAGCAAATTGAAGACCATCCGATCTCTTACCCCGACCAT
1 CCATCCAATCTTTTACCCTAACTAGAG-GCAGATTGAAGACCATCCGATCTCTTACCCCGACCAT
9006719 GGGGCAGATTGAAG
65 GGGGCAGATTGAAG
** * * * * * *
9006733 TAATTCAATCTTTTACCCTAACCAAAAGGCATATTAAAGACCATTCGATCTCTTACCCCGACCAT
1 CCATCCAATCTTTTACCCTAA-CTAGAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCAT
* *
9006798 GGGACAGATTGAAA
65 GGGGCAGATTGAAG
* * *
9006812 CAATCTAATATTTTACCTCTAA
1 CCATCCAATCTTTTACC-CTAA
9006834 AACTATAGAG
Statistics
Matches: 1259, Mismatches: 219, Indels: 103
0.80 0.14 0.07
Matches are distributed among these distances:
77 1 0.00
78 91 0.07
79 585 0.46
80 565 0.45
81 17 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (78 bp):
CCATCCAATCTTTTACCCTAACTAGAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATG
GGGCAGATTGAAG
Found at i:9007498 original size:63 final size:68
Alignment explanation
Indices: 9007360--9007504 Score: 228
Period size: 67 Copynumber: 2.2 Consensus size: 68
9007350 TATTTATAAT
9007360 AATAAATAAATAAATAATATTAATTTTGTTTTATTATTTATTTATTTATTATTGTATGAATATAA
1 AATAAATAAATAAATAATATTAATTTTGTTTTATTATTTATTTATTTATTATTGTATGAATATAA
9007425 ATA
66 ATA
* * *
9007428 AACAAATATA-AAATAATATTAATTTTGTTTTATTATTTATTTA-TTA-T-TT-TATGAATATAG
1 AATAAATAAATAAATAATATTAATTTTGTTTTATTATTTATTTATTTATTATTGTATGAATATAA
9007488 ATA
66 ATA
9007491 AATAAATAAATAAA
1 AATAAATAAATAAA
9007505 AACAAACCCA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
63 21 0.30
64 5 0.07
65 1 0.01
66 3 0.04
67 33 0.46
68 8 0.11
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (68 bp):
AATAAATAAATAAATAATATTAATTTTGTTTTATTATTTATTTATTTATTATTGTATGAATATAA
ATA
Found at i:9008664 original size:3 final size:3
Alignment explanation
Indices: 9008658--9008725 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
9008648 AATTTCGACA
9008658 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9008706 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
9008726 CTACTTTGTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9009299 original size:88 final size:87
Alignment explanation
Indices: 9009106--9009267 Score: 211
Period size: 88 Copynumber: 1.8 Consensus size: 87
9009096 TTTTTGGTAT
* * * *
9009106 TCAATTGGGTACTTAAACTATTAAAATGTATCAAAAATACTCTCAAACTTTTTCGAAAAAACCAA
1 TCAATT-GGTACTTGAACTATTAAAATGCATCAAAAAAACCCTCAAACTTTTTCGAAAAAACCAA
*
9009171 TTAAGCCCTATATTTTTTTACAC
65 TTAACCCCTATATTTTTTTACAC
**
9009194 TCAATTGGATACTTGAACT-TTCAAAATGCATCAAAAAAACCCTCAAACTTTTTC-AAAAAAGTA
1 TCAATTGG-TACTTGAACTATT-AAAATGCATCAAAAAAACCCTCAAACTTTTTCGAAAAAACCA
9009257 ATTAAACCCCT
64 ATT-AACCCCT
9009268 GCTTTATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
87 14 0.22
88 50 0.78
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (87 bp):
TCAATTGGTACTTGAACTATTAAAATGCATCAAAAAAACCCTCAAACTTTTTCGAAAAAACCAAT
TAACCCCTATATTTTTTTACAC
Found at i:9009394 original size:15 final size:15
Alignment explanation
Indices: 9009374--9009404 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9009364 ATGATAAAAA
9009374 AAAATTAAAAAAATT
1 AAAATTAAAAAAATT
*
9009389 AAAATTATAAAAATT
1 AAAATTAAAAAAATT
9009404 A
1 A
9009405 TTATATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTAAAAAAATT
Found at i:9009533 original size:19 final size:21
Alignment explanation
Indices: 9009501--9009557 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 21
9009491 TTATAAAGTC
*
9009501 GTAAGAAAATTATAGAAAA-T
1 GTAAAAAAATTATAGAAAATT
*
9009521 GTAAAGAAA-TATA-AAAATT
1 GTAAAAAAATTATAGAAAATT
9009540 GTAAAAAAATTATAGAAA
1 GTAAAAAAATTATAGAAA
9009558 TTATCGTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 4 0.13
19 13 0.42
20 11 0.35
21 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (21 bp):
GTAAAAAAATTATAGAAAATT
Found at i:9009745 original size:10 final size:10
Alignment explanation
Indices: 9009730--9009781 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
9009720 TTTGATGCAA
*
9009730 TTTATAATCT
1 TTTATAATTT
9009740 TTTAT-ATTT
1 TTTATAATTT
***
9009749 TTTATAAAGG
1 TTTATAATTT
9009759 TTTATAATTT
1 TTTATAATTT
9009769 TTTATAATTT
1 TTTATAATTT
9009779 TTT
1 TTT
9009782 TTACGATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 8 0.24
10 26 0.76
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (10 bp):
TTTATAATTT
Found at i:9009754 original size:19 final size:19
Alignment explanation
Indices: 9009730--9009780 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
9009720 TTTGATGCAA
9009730 TTTATAATCTTTTAT-ATTT
1 TTTATAAT-TTTTATAATTT
**
9009749 TTTATAAAGGTTTATAATTT
1 TTTAT-AATTTTTATAATTT
9009769 TTTATAATTTTT
1 TTTATAATTTTT
9009781 TTTACGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTATAATTTTTATAATTT
Found at i:9017306 original size:14 final size:16
Alignment explanation
Indices: 9017282--9017313 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9017272 ACGGTCAAAC
9017282 AAAAAACATT-AAATT
1 AAAAAACATTAAAATT
9017297 AAAAAA-ATTAAAATT
1 AAAAAACATTAAAATT
9017312 AA
1 AA
9017314 TGATAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.19
15 13 0.81
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAAACATTAAAATT
Found at i:9023202 original size:12 final size:12
Alignment explanation
Indices: 9023185--9023212 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9023175 GAGTCATCAA
9023185 AATGTGTCTACT
1 AATGTGTCTACT
9023197 AATGTGTCTACT
1 AATGTGTCTACT
9023209 AATG
1 AATG
9023213 AGAACTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (12 bp):
AATGTGTCTACT
Found at i:9031241 original size:34 final size:34
Alignment explanation
Indices: 9031200--9031280 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
9031190 AACATGGATG
**
9031200 TTCGCATACTATGTCATAT-TATCTAACATGAGGA
1 TTCGCATACTATGTCAT-TCTAAATAACATGAGGA
* *
9031234 TTTGCATAATATGTCATTCTAAATAACATGAGGA
1 TTCGCATACTATGTCATTCTAAATAACATGAGGA
9031268 TTCGCATACTATG
1 TTCGCATACTATG
9031281 AGTACTTCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
33 1 0.03
34 39 0.98
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (34 bp):
TTCGCATACTATGTCATTCTAAATAACATGAGGA
Found at i:9036437 original size:37 final size:38
Alignment explanation
Indices: 9036375--9036451 Score: 120
Period size: 37 Copynumber: 2.0 Consensus size: 38
9036365 TATGCACTCA
9036375 ATGGACACCTTTTGAAGAGTCACAACCCTTTCAAATTGG
1 ATGGACACC-TTTGAAGAGTCACAACCCTTTCAAATTGG
* *
9036414 ATGGACACC-TTGAAGAGTTACAACCCTTTCATATTGG
1 ATGGACACCTTTGAAGAGTCACAACCCTTTCAAATTGG
9036451 A
1 A
9036452 CATACCTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 27 0.75
39 9 0.25
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (38 bp):
ATGGACACCTTTGAAGAGTCACAACCCTTTCAAATTGG
Found at i:9042349 original size:10 final size:9
Alignment explanation
Indices: 9042327--9042351 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9042317 TCATTTTGAT
9042327 AAAAAATAG
1 AAAAAATAG
9042336 AAAAAATAG
1 AAAAAATAG
9042345 AAAAAAT
1 AAAAAAT
9042352 TTAGCCCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAAAATAG
Found at i:9042413 original size:61 final size:61
Alignment explanation
Indices: 9042348--9042462 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
9042338 AAAATAGAAA
* *
9042348 AAATTTAGCCCTCAAGGTTTGCAAAAAATGTC-ATTATAGT-TCTAATTCTAAAAACTTCATT
1 AAATTTAGCCCTCAAAGTTTACAAAAAATGTCAATT-TAGTCT-TAATTCTAAAAACTTCATT
* * **
9042409 AAATTTGGCCCTCAAATTTTACAAAATCTGTCAATTTAGTCTTAATTCTAAAAA
1 AAATTTAGCCCTCAAAGTTTACAAAAAATGTCAATTTAGTCTTAATTCTAAAAA
9042463 ATTAAAAACT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 42 0.91
62 4 0.09
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.37
Consensus pattern (61 bp):
AAATTTAGCCCTCAAAGTTTACAAAAAATGTCAATTTAGTCTTAATTCTAAAAACTTCATT
Found at i:9043623 original size:60 final size:59
Alignment explanation
Indices: 9043503--9043624 Score: 147
Period size: 60 Copynumber: 2.1 Consensus size: 59
9043493 TGAATTTAAT
* ** * * * *
9043503 TTTATTAATTTTAAGAATTAGGACTAAATTGATAGATTTTGTAAATATTGAGGGTCAAA
1 TTTATTAATTTTAAGAATTAGAACTAAAACGATAAATTTTGTAAACATTAAGGCTCAAA
*
9043562 TTTATTAATTTTTTAGAATTAGAACTAAAACGATAAATTTTGTAAACATTAAGTGCT-AAA
1 TTTATTAA-TTTTAAGAATTAGAACTAAAACGATAAATTTTGTAAACATTAAG-GCTCAAA
9043622 TTT
1 TTT
9043625 GTAGAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 8 0.15
60 43 0.81
61 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (59 bp):
TTTATTAATTTTAAGAATTAGAACTAAAACGATAAATTTTGTAAACATTAAGGCTCAAA
Found at i:9055807 original size:16 final size:16
Alignment explanation
Indices: 9055783--9055813 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9055773 AATCGACAAA
*
9055783 GGAATGGAAGGGAAAT
1 GGAAGGGAAGGGAAAT
9055799 GGAAGGGAAGGGAAA
1 GGAAGGGAAGGGAAA
9055814 GGCTAGAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.48, T:0.06
Consensus pattern (16 bp):
GGAAGGGAAGGGAAAT
Found at i:9056205 original size:63 final size:61
Alignment explanation
Indices: 9056112--9056281 Score: 236
Period size: 63 Copynumber: 2.8 Consensus size: 61
9056102 TTGTTATTTA
* * *
9056112 TTTATTTATTTATCTATATTCATATAATAATAAATAAATAATAAAACAAAATTAATATTAT
1 TTTATTTATTTATTTATATTCATAAAATAATAAATAAATAATAAAACAAAATAAATATTAT
* * *
9056173 TTTACATTTATTAATTTATATTCATACAATAATAAATAAATAATAAAATAAAATAAATATTAT
1 TTT--ATTTATTTATTTATATTCATAAAATAATAAATAAATAATAAAACAAAATAAATATTAT
9056236 TTTA--TATTTATTTATATTCATAAAAATAATAAATAAATGAATAAAA
1 TTTATTTATTTATTTATATTCAT-AAAATAATAAATAAAT-AATAAAA
9056282 ATAATAAGAA
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
59 16 0.16
60 15 0.15
61 11 0.11
63 56 0.57
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (61 bp):
TTTATTTATTTATTTATATTCATAAAATAATAAATAAATAATAAAACAAAATAAATATTAT
Found at i:9056878 original size:40 final size:39
Alignment explanation
Indices: 9056809--9057077 Score: 238
Period size: 40 Copynumber: 6.8 Consensus size: 39
9056799 TATAGTTTTA
* * *
9056809 AGGGTAAAATATTGGATTGT-TTCAATCTGCCCCATGGTC
1 AGGGTAAAAGATCGGATGGTCTTCAATCTGCCCC-TGGTC
* * * * * * *
9056848 CGGGTAAGAGATCGAATGGTCTTCGATCTGCCTTCTAGTT
1 AGGGTAAAAGATCGGATGGTCTTCAATCTGCC-CCTGGTC
* *
9056888 AGGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTC
1 AGGGTAAAAGATCGGATGGTCTTCAATCTGCCCC-TGGTC
* * * *
9056927 GGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTAGTT
1 AGGGTAAAAGATCGGATGGTCTTCAATCTGCCC-CTGGTC
* * * *
9056967 AGGGTAAAAGATTGGATTG-CTTCAATCTGCCTCATGGTA
1 AGGGTAAAAGATCGGATGGTCTTCAATCTGCC-CCTGGTC
* *
9057006 AGGGTAAGAGATCGGATGATCTTCAATCTGCCCTCTGGTC
1 AGGGTAAAAGATCGGATGGTCTTCAATCTGCCC-CTGGTC
* * *
9057046 GGGGTAAAAGATTGGATGGTCTTCAATTTGCC
1 AGGGTAAAAGATCGGATGGTCTTCAATCTGCC
9057078 TATTTCAGCT
Statistics
Matches: 179, Mismatches: 43, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
38 1 0.01
39 74 0.41
40 102 0.57
41 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (39 bp):
AGGGTAAAAGATCGGATGGTCTTCAATCTGCCCCTGGTC
Found at i:9056940 original size:79 final size:79
Alignment explanation
Indices: 9056809--9057077 Score: 394
Period size: 79 Copynumber: 3.4 Consensus size: 79
9056799 TATAGTTTTA
* * * * *
9056809 AGGGTAAAATATTGGATTGTTTCAATCTGCCCCATGGTCCGGGTAAGAGATCGAATGGTCTTCGA
1 AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAGAGATCGGATGGTCTTCAA
*
9056874 TCTGCCTTCTAGTT
66 TCTGCCCTCTAGTT
*
9056888 AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAA
1 AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAGAGATCGGATGGTCTTCAA
9056953 TCTGCCCTCTAGTT
66 TCTGCCCTCTAGTT
* * *
9056967 AGGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTAAGGGTAAGAGATCGGATGATCTTCAA
1 AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAGAGATCGGATGGTCTTCAA
* *
9057032 TCTGCCCTCTGGTC
66 TCTGCCCTCTAGTT
* * *
9057046 GGGGTAAAAGATTGGATGGTCTTCAATTTGCC
1 AGGGTAAAAGATTGGATTG-CTTCAATCTGCC
9057078 TATTTCAGCT
Statistics
Matches: 174, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
79 163 0.94
80 11 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (79 bp):
AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAGAGATCGGATGGTCTTCAA
TCTGCCCTCTAGTT
Found at i:9057163 original size:50 final size:50
Alignment explanation
Indices: 9057099--9057211 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
9057089 CAAGAGTATA
* *
9057099 AGATTCATCC-TTGCGACTTCAATCTGCCCCTCTACAACTTTACGTGA-ATG
1 AGATTCA-CCATTGCGACTCCAATCTGCCCCGCTACAACTTTACGT-ATATG
* * ** *
9057149 AGATTCGCCATTGCGGCTCCAATCTGCCCCGCTACAGGTTTAGGTATATG
1 AGATTCACCATTGCGACTCCAATCTGCCCCGCTACAACTTTACGTATATG
9057199 AGATTCACCATTG
1 AGATTCACCATTG
9057212 TGGCTTAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 3 0.06
50 50 0.94
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (50 bp):
AGATTCACCATTGCGACTCCAATCTGCCCCGCTACAACTTTACGTATATG
Found at i:9061099 original size:17 final size:17
Alignment explanation
Indices: 9061077--9061123 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
9061067 TTGTTAGGAG
9061077 CTATGTTAGTGATATGA
1 CTATGTTAGTGATATGA
9061094 CTATGTTAG-G--A-G-
1 CTATGTTAGTGATATGA
9061106 CTATGTTAGTGATATGA
1 CTATGTTAGTGATATGA
9061123 C
1 C
9061124 CATATTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 1 0.04
15 1 0.04
16 2 0.08
17 10 0.40
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.38
Consensus pattern (17 bp):
CTATGTTAGTGATATGA
Found at i:9061110 original size:29 final size:29
Alignment explanation
Indices: 9061068--9061123 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
9061058 AACGTGATCT
9061068 TGTTAGGAGCTATGTTAGTGATATGACTA
1 TGTTAGGAGCTATGTTAGTGATATGACTA
9061097 TGTTAGGAGCTATGTTAGTGATATGAC
1 TGTTAGGAGCTATGTTAGTGATATGAC
9061124 CATATTATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.38
Consensus pattern (29 bp):
TGTTAGGAGCTATGTTAGTGATATGACTA
Found at i:9062049 original size:31 final size:31
Alignment explanation
Indices: 9061998--9062074 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
9061988 CGTCTTTCTC
*
9061998 AAACTTT-T-AATGTATGAAAATACGATGCA
1 AAACTTTATGAATGCATGAAAATACGATGCA
*
9062027 AAACTTTATGAATGCATGAAAATGCGATGCA
1 AAACTTTATGAATGCATGAAAATACGATGCA
*
9062058 AAATTTTATGAATGCAT
1 AAACTTTATGAATGCAT
9062075 ATGCAAGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 7 0.16
30 1 0.02
31 35 0.81
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (31 bp):
AAACTTTATGAATGCATGAAAATACGATGCA
Found at i:9064388 original size:63 final size:60
Alignment explanation
Indices: 9064290--9064459 Score: 197
Period size: 67 Copynumber: 2.8 Consensus size: 60
9064280 TTGTTATTTA
*
9064290 TTTATTTATTTATCTATATTCAT-AA-AAT-AATAAATAATAAAACAAAATTAATATTAT
1 TTTATTTATTTATTTATATTCATAAATAATAAATAAATAATAAAACAAAATTAATATTAT
*
9064347 TTTACATTTATTTATTTATATTCATACAATAATAAATAAATAAATAATAAAATAAAATTAATATT
1 TTT--ATTTATTTATTTATATTCAT---A-AAT-AATAAATAAATAATAAAACAAAATTAATATT
9064412 AT
59 AT
9064414 TTTA--TATTTATTTATATTCATAAAAATAATAAATAAATGAATAAAA
1 TTTATTTATTTATTTATATTCAT--AAATAATAAATAAAT-AATAAAA
9064460 ATAATAAAAA
Statistics
Matches: 99, Mismatches: 3, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
57 3 0.03
59 19 0.19
60 11 0.11
61 10 0.10
62 2 0.02
63 17 0.17
64 2 0.02
65 1 0.01
66 3 0.03
67 31 0.31
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (60 bp):
TTTATTTATTTATTTATATTCATAAATAATAAATAAATAATAAAACAAAATTAATATTAT
Found at i:9064393 original size:67 final size:61
Alignment explanation
Indices: 9064314--9064459 Score: 206
Period size: 67 Copynumber: 2.3 Consensus size: 61
9064304 TATATTCATA
9064314 AAAT-AATAAATAATAAAACAAAATTAATATTATTTTACATTTATTTATTTATATTCATACAATA
1 AAATAAATAAATAATAAAACAAAATTAATATTATTTT--A--TATTTATTTATATTCATA-AA-A
9064378 AT
60 AT
*
9064380 AAATAAATAAATAATAAAATAAAATTAATATTATTTTATATTTATTTATATTCATAAAAAT
1 AAATAAATAAATAATAAAACAAAATTAATATTATTTTATATTTATTTATATTCATAAAAAT
9064441 -AATAAATAAATGAATAAAA
1 AAATAAATAAAT-AATAAAA
9064460 ATAATAAAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
60 11 0.14
61 10 0.13
62 2 0.03
63 18 0.23
65 1 0.01
66 4 0.05
67 31 0.40
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (61 bp):
AAATAAATAAATAATAAAACAAAATTAATATTATTTTATATTTATTTATATTCATAAAAAT
Found at i:9064459 original size:21 final size:20
Alignment explanation
Indices: 9064433--9064471 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
9064423 ATTTATATTC
9064433 ATAAAAATAATAAATAAATGA
1 ATAAAAATAATAAA-AAATGA
9064454 ATAAAAATAATAAAAAAT
1 ATAAAAATAATAAAAAAT
9064472 TAAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (20 bp):
ATAAAAATAATAAAAAATGA
Found at i:9064463 original size:67 final size:66
Alignment explanation
Indices: 9064314--9064478 Score: 205
Period size: 67 Copynumber: 2.5 Consensus size: 66
9064304 TATATTCATA
*
9064314 AAATAATAAATAATAAAACAAAATTAATATTATTTTACATTTATTTATTTATATTCATACAATAA
1 AAATAATAAA-AATAAAA-AAAATTAATATTATTTTA-A-TTATTTATTTATATTCATAAAATAA
9064379 TAAAT
62 TAAAT
*
9064384 AAAT-A-AATAATAAAATAAAATTAATATTATTTT-A-TATTTATTTATATTCATAAAAATAATA
1 AAATAATAAAAATAAAA-AAAATTAATATTATTTTAATTATTTATTTATATTCAT-AAAATAATA
9064445 AAT
64 AAT
9064448 AAATGAATAAAAATAATAAAAAATTAA-ATTA
1 AAAT-AATAAAAATAA-AAAAAATTAATATTA
9064479 AATTTCGAGA
Statistics
Matches: 86, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
63 17 0.20
64 15 0.17
65 1 0.01
66 5 0.06
67 39 0.45
68 4 0.05
69 1 0.01
70 4 0.05
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.39
Consensus pattern (66 bp):
AAATAATAAAAATAAAAAAAATTAATATTATTTTAATTATTTATTTATATTCATAAAATAATAAA
T
Found at i:9066131 original size:31 final size:30
Alignment explanation
Indices: 9066018--9066132 Score: 101
Period size: 31 Copynumber: 3.7 Consensus size: 30
9066008 ATTTATTTAA
* *
9066018 ATATATGTAATTAAATCAAAATTAAAATTTT
1 ATATATATAATT-AATCTAAATTAAAATTTT
* *
9066049 AAATATATATTTGAATC-ACAATTAAAATTTTT
1 ATATATATAATT-AATCTA-AATTAAAA-TTTT
*
9066081 ATGTATATAATTACAT-TAAATTAAAA-TTT
1 ATATATATAATTA-ATCTAAATTAAAATTTT
9066110 ATATATATAATTATATCTTAAAT
1 ATATATATAATTA-ATC-TAAAT
9066133 CAAAGTTACG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
29 17 0.25
30 1 0.01
31 35 0.51
32 16 0.23
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (30 bp):
ATATATATAATTAATCTAAATTAAAATTTT
Found at i:9066362 original size:29 final size:31
Alignment explanation
Indices: 9066315--9066376 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
9066305 TTGATTTAAT
* *
9066315 GTGTAATTATATATATG-AATTTTTATT-TG
1 GTGTAATTATACATATGAAATTTTGATTGTG
*
9066344 GTGTAATTATACATGTGAAATTTTGATTGTG
1 GTGTAATTATACATATGAAATTTTGATTGTG
9066375 GT
1 GT
9066377 TCAAATGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 9 0.32
31 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (31 bp):
GTGTAATTATACATATGAAATTTTGATTGTG
Found at i:9084751 original size:15 final size:15
Alignment explanation
Indices: 9084731--9084760 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9084721 ATTACTAGTA
*
9084731 TATATTTTATTTTAT
1 TATATTATATTTTAT
9084746 TATATTATATTTTAT
1 TATATTATATTTTAT
9084761 AATTTTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATATTATATTTTAT
Found at i:9084756 original size:20 final size:23
Alignment explanation
Indices: 9084712--9084760 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
9084702 AACACTATTT
9084712 TTTTATTTTATTACTAGTATATA
1 TTTTATTTTATTACTAGTATATA
9084735 TTTTATTTTATTA-TA-T-TATA
1 TTTTATTTTATTACTAGTATATA
9084755 TTTTAT
1 TTTTAT
9084761 AATTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.38
21 1 0.04
22 2 0.08
23 13 0.50
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTATTTTATTACTAGTATATA
Found at i:9085310 original size:17 final size:16
Alignment explanation
Indices: 9085275--9085326 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
9085265 GATCGGATCC
*
9085275 AAAAATAAA-AATTTTA
1 AAAAATAAATAA-ATTA
*
9085291 AAAAATAAATAAATTC
1 AAAAATAAATAAATTA
9085307 AAAAATAAAATAAATTA
1 AAAAAT-AAATAAATTA
9085324 AAA
1 AAA
9085327 TTAAAATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATAAATAAATTA
Found at i:9085332 original size:16 final size:17
Alignment explanation
Indices: 9085291--9085333 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
9085281 AAAAATTTTA
9085291 AAAAAT-AAATAAATTC
1 AAAAATAAAATAAATTC
9085307 AAAAATAAAATAAATT-
1 AAAAATAAAATAAATTC
*
9085323 AAAATTAAAAT
1 AAAAATAAAAT
9085334 TCATTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATAAAATAAATTC
Found at i:9085333 original size:21 final size:20
Alignment explanation
Indices: 9085292--9085332 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
9085282 AAAATTTTAA
9085292 AAAATAAATAAATTCAAAAAT
1 AAAATAAATAAATT-AAAAAT
9085313 AAAATAAATTAAAATTAAAA
1 AAAATAAA-T-AAATTAAAA
9085333 TTCATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATAAATAAATTAAAAAT
Found at i:9086160 original size:20 final size:20
Alignment explanation
Indices: 9086135--9086176 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
9086125 ATCTACACTC
9086135 AACATCATAACCCAAAGCCT
1 AACATCATAACCCAAAGCCT
9086155 AACATCATAACCCAAAGCCT
1 AACATCATAACCCAAAGCCT
9086175 AA
1 AA
9086177 GCCTTAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.33, G:0.05, T:0.14
Consensus pattern (20 bp):
AACATCATAACCCAAAGCCT
Found at i:9102987 original size:31 final size:31
Alignment explanation
Indices: 9102901--9102987 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
9102891 TTGTATATAT
* *
9102901 AAATTTTAA-TTTGGTATAATTATATACGTA
1 AAATTTTAATTTTGATTTAATTATATACGTA
* * * * * *
9102931 AAATTCTAATTGTAATTCAAATATATACTTA
1 AAATTTTAATTTTGATTTAATTATATACGTA
9102962 AAATTTTAATTTTGATTTAATTATAT
1 AAATTTTAATTTTGATTTAATTATAT
9102988 CCATTTAAAG
Statistics
Matches: 43, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
30 8 0.19
31 35 0.81
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (31 bp):
AAATTTTAATTTTGATTTAATTATATACGTA
Found at i:9103162 original size:29 final size:30
Alignment explanation
Indices: 9103116--9103174 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
9103106 GAATTGAATC
9103116 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
* * * *
9103146 AAATTAAAA-TTCGTGTATACAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTACACA
9103175 TTAAATCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:9104561 original size:21 final size:23
Alignment explanation
Indices: 9104537--9104591 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
9104527 CCTGCAACTT
*
9104537 CTACCGATACA-AGTACAC-AAA
1 CTACCGATACACAGGACACAAAA
*
9104558 CTACTGATACATCAGGACACAAAA
1 CTACCGATACA-CAGGACACAAAA
9104582 CTACCGATAC
1 CTACCGATAC
9104592 TCGCAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.36
23 6 0.21
24 12 0.43
ACGTcount: A:0.44, C:0.29, G:0.11, T:0.16
Consensus pattern (23 bp):
CTACCGATACACAGGACACAAAA
Found at i:9106302 original size:9 final size:9
Alignment explanation
Indices: 9106288--9106316 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
9106278 TTAAGACTTT
9106288 CTTAATTAA
1 CTTAATTAA
9106297 CTTAATTAA
1 CTTAATTAA
9106306 CTTAATTAA
1 CTTAATTAA
9106315 CT
1 CT
9106317 ACTTGTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (9 bp):
CTTAATTAA
Found at i:9116516 original size:2 final size:2
Alignment explanation
Indices: 9116511--9116544 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9116501 TACCCAAAAA
9116511 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9116545 GCATCTCACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9119898 original size:18 final size:20
Alignment explanation
Indices: 9119853--9119889 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9119843 GAGCAAAAAA
9119853 ATATATTAGTTCTTATAAAT
1 ATATATTAGTTCTTATAAAT
9119873 ATATATTAG-TCTTATAA
1 ATATATTAGTTCTTATAA
9119890 TATCAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
ATATATTAGTTCTTATAAAT
Found at i:9121426 original size:27 final size:27
Alignment explanation
Indices: 9121396--9121448 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9121386 AAAAATAATC
*
9121396 AATA-ATTATTATATAGTATTTTTAAAA
1 AATATATT-TTATATAGTAATTTTAAAA
*
9121423 AATATATTTTATATGGTAATTTTAAA
1 AATATATTTTATATAGTAATTTTAAA
9121449 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (27 bp):
AATATATTTTATATAGTAATTTTAAAA
Found at i:9124435 original size:31 final size:30
Alignment explanation
Indices: 9124400--9124457 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
9124390 TTAGTTATTC
9124400 CTATTAAATAAATTATCAATTTTAATAACTT
1 CTATTAAATAAATTAT-AATTTTAATAACTT
* *
9124431 CTATTAGATAAATTATAATTTTTATAA
1 CTATTAAATAAATTATAATTTTAATAA
9124458 TTTTTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (30 bp):
CTATTAAATAAATTATAATTTTAATAACTT
Found at i:9124657 original size:10 final size:9
Alignment explanation
Indices: 9124612--9124678 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
9124602 TAAAATTTCA
9124612 TTAT-ATTT
1 TTATAATTT
9124620 TTATAATTT
1 TTATAATTT
*
9124629 TT-TAGTATT
1 TTATAAT-TT
*
9124638 TCATATATTT
1 TTATA-ATTT
9124648 TTATAAATTT
1 TTAT-AATTT
*
9124658 TAATAATTT
1 TTATAATTT
*
9124667 TT-GAATTT
1 TTATAATTT
9124675 TTAT
1 TTAT
9124679 GTATTTTTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
8 14 0.31
9 15 0.33
10 14 0.31
11 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (9 bp):
TTATAATTT
Found at i:9124666 original size:28 final size:30
Alignment explanation
Indices: 9124595--9124666 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
9124585 AATGTGTGAA
*
9124595 AATATATTAA-AATTTCATTATATTTTTAT
1 AATATTTTAATAATTTCATTATATTTTTAT
* *
9124624 AATTTTTTAGT-ATTTCA-TATATTTTTAT
1 AATATTTTAATAATTTCATTATATTTTTAT
9124652 AA-ATTTTAATAATTT
1 AATATTTTAATAATTT
9124667 TTGAATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 6 0.17
28 17 0.47
29 13 0.36
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (30 bp):
AATATTTTAATAATTTCATTATATTTTTAT
Found at i:9125549 original size:17 final size:17
Alignment explanation
Indices: 9125527--9125560 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9125517 ATCACGCTTT
*
9125527 CCTGCCCACTTATTTCA
1 CCTGCCCACCTATTTCA
9125544 CCTGCCCACCTATTTCA
1 CCTGCCCACCTATTTCA
9125561 TCCGCTGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.44, G:0.06, T:0.32
Consensus pattern (17 bp):
CCTGCCCACCTATTTCA
Found at i:9129525 original size:12 final size:12
Alignment explanation
Indices: 9129498--9129598 Score: 78
Period size: 12 Copynumber: 8.5 Consensus size: 12
9129488 CCAAACAATC
* *
9129498 AAAATAACAACC
1 AAAATAACAGCA
* *
9129510 AAAACAGCAGCA
1 AAAATAACAGCA
9129522 AAAATAACAGC-
1 AAAATAACAGCA
* *
9129533 AAAACAATAGCA
1 AAAATAACAGCA
* ** *
9129545 AAAACAGTAACA
1 AAAATAACAGCA
*
9129557 AAAATAATAGCA
1 AAAATAACAGCA
* *
9129569 AAAATAGCAACA
1 AAAATAACAGCA
9129581 AAAATAACAGCA
1 AAAATAACAGCA
9129593 AAAATA
1 AAAATA
9129599 GTAAAAAAAT
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
11 9 0.13
12 61 0.87
ACGTcount: A:0.66, C:0.17, G:0.08, T:0.09
Consensus pattern (12 bp):
AAAATAACAGCA
Found at i:9129549 original size:35 final size:33
Alignment explanation
Indices: 9129510--9129578 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 33
9129500 AATAACAACC
*
9129510 AAAACAGCAGCAAAAATAACAGCAAAACAATAGCA
1 AAAACAGCAACAAAAATAACAGC-AAA-AATAGCA
* *
9129545 AAAACAGTAACAAAAATAATAGCAAAAATAGCA
1 AAAACAGCAACAAAAATAACAGCAAAAATAGCA
9129578 A
1 A
9129579 CAAAAATAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 8 0.26
34 3 0.10
35 20 0.65
ACGTcount: A:0.65, C:0.16, G:0.10, T:0.09
Consensus pattern (33 bp):
AAAACAGCAACAAAAATAACAGCAAAAATAGCA
Found at i:9129599 original size:24 final size:24
Alignment explanation
Indices: 9129498--9129609 Score: 102
Period size: 24 Copynumber: 4.8 Consensus size: 24
9129488 CCAAACAATC
* * * *
9129498 AAAATAACAACCAAAACAGCAGCA
1 AAAATAGCAACAAAAATAACAGCA
* * * *
9129522 AAAATAACAGC-AAAACAATAGCA
1 AAAATAGCAACAAAAATAACAGCA
* * *
9129545 AAAACAGTAACAAAAATAATAGCA
1 AAAATAGCAACAAAAATAACAGCA
9129569 AAAATAGCAACAAAAATAACAGCA
1 AAAATAGCAACAAAAATAACAGCA
*
9129593 AAAATAGTAA-AAAAATA
1 AAAATAGCAACAAAAATA
9129610 GTAATCAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
23 24 0.32
24 51 0.68
ACGTcount: A:0.67, C:0.15, G:0.08, T:0.10
Consensus pattern (24 bp):
AAAATAGCAACAAAAATAACAGCA
Found at i:9129618 original size:24 final size:24
Alignment explanation
Indices: 9129541--9129619 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
9129531 GCAAAACAAT
*
9129541 AGCAAAAACAGTAACAAAAATA-A
1 AGCAAAAATAGTAACAAAAATATA
*
9129564 TAGCAAAAATAGCAACAAAAATA-A
1 -AGCAAAAATAGTAACAAAAATATA
9129588 CAGCAAAAATAGTAA-AAAAATAGTA
1 -AGCAAAAATAGTAACAAAAATA-TA
*
9129613 ATCAAAA
1 AGCAAAA
9129620 CAATAATCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 7 0.15
24 40 0.83
25 1 0.02
ACGTcount: A:0.67, C:0.11, G:0.09, T:0.13
Consensus pattern (24 bp):
AGCAAAAATAGTAACAAAAATATA
Found at i:9129632 original size:12 final size:12
Alignment explanation
Indices: 9129611--9129637 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9129601 AAAAAAATAG
9129611 TAATCAAAACAA
1 TAATCAAAACAA
9129623 TAATCAAAACAA
1 TAATCAAAACAA
9129635 TAA
1 TAA
9129638 AAAAAAGCAC
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:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (12 bp):
TAATCAAAACAA
Found at i:9129654 original size:21 final size:21
Alignment explanation
Indices: 9129630--9129669 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9129620 CAATAATCAA
*
9129630 AACAATAAAAAAAAGCACCAT
1 AACAATAAAAAAAAACACCAT
*
9129651 AACAGTAAAAAAAAACACC
1 AACAATAAAAAAAAACACC
9129670 GAAACAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.20, G:0.05, T:0.07
Consensus pattern (21 bp):
AACAATAAAAAAAAACACCAT
Found at i:9129675 original size:21 final size:20
Alignment explanation
Indices: 9129629--9129676 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
9129619 ACAATAATCA
* *
9129629 AAACAATAAAAAAAAGCACC
1 AAACAGTAAAAAAAAACACC
9129649 ATAACAGTAAAAAAAAACACC
1 A-AACAGTAAAAAAAAACACC
9129670 GAAACAG
1 -AAACAG
9129677 CAATCAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.67, C:0.19, G:0.08, T:0.06
Consensus pattern (20 bp):
AAACAGTAAAAAAAAACACC
Found at i:9131769 original size:89 final size:88
Alignment explanation
Indices: 9131645--9131959 Score: 318
Period size: 88 Copynumber: 3.5 Consensus size: 88
9131635 AATTAAACTA
* * *
9131645 TTTTTTTCACTCAATTGGGCACTTAAACT-TACAAAATGCATAAAAAAAGCTCACAAACTTTTTC
1 TTTTTTTCACTCAATTGAGTACTTAAACTGT-CAAAATGCATAAAAAAAGCTCTCAAACTTTTTC
*
9131709 -ATAAAAATCAATTAAGCCCTTGTTT
65 GA-AAAAAT-AATTAAACCCTTGTTT
* * * *
9131734 TTTTTTTCACTTAATTGAGTACTTGAACTTTCAAAATGCAT-AAAAAAGCCCTCAAACTTTTTAC
1 TTTTTTTCACTCAATTGAGTACTTAAACTGTCAAAATGCATAAAAAAAGCTCTCAAACTTTTT-C
*
9131798 GAAAAAATAATTAAACTCTTGCTTTT
65 GAAAAAATAATTAAACCCTTG--TTT
** * * * * *
9131824 TTTTTTTCACTTTATTG-GATACTTAAACTGTCAAAATACATCAAAAGACCT-TCAAACATTTTA
1 TTTTTTTCACTCAATTGAG-TACTTAAACTGTCAAAATGCATAAAAAAAGCTCTCAAAC-TTTTT
***
9131887 CGAAAAAATAATTAAACTCC-TACCT
64 CGAAAAAATAATTAAAC-CCTTGTTT
* *
9131912 TTTTTTTCACTCAATTGAATACTTGAACTGTCAAAATGCATAAAAAAA
1 TTTTTTTCACTCAATTGAGTACTTAAACTGTCAAAATGCATAAAAAAA
9131960 CACCTTTTAA
Statistics
Matches: 189, Mismatches: 27, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
88 71 0.38
89 43 0.23
90 64 0.34
91 11 0.06
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (88 bp):
TTTTTTTCACTCAATTGAGTACTTAAACTGTCAAAATGCATAAAAAAAGCTCTCAAACTTTTTCG
AAAAAATAATTAAACCCTTGTTT
Found at i:9131879 original size:90 final size:89
Alignment explanation
Indices: 9131645--9131960 Score: 338
Period size: 90 Copynumber: 3.6 Consensus size: 89
9131635 AATTAAACTA
** * *
9131645 TTTTTTTCACTCAATTGGGCACTTAAACT-TACAAAATGCATAAAAAAAGCTCACAAACTTTTT-
1 TTTTTTTCACTCAATTGGATACTTAAACTGT-CAAAATGCATAAAAAAACCT-TCAAACTTTTTA
* *
9131708 C-ATAAAAATCAATTAAGCCCTTG-TTT
64 CGA-AAAAAT-AATTAAACTCTTGCTTT
* * * * *
9131734 TTTTTTTCACTTAATT-GAGTACTTGAACTTTCAAAATGCATAAAAAAGCCCTCAAACTTTTTAC
1 TTTTTTTCACTCAATTGGA-TACTTAAACTGTCAAAATGCATAAAAAAACCTTCAAACTTTTTAC
9131798 GAAAAAATAATTAAACTCTTGCTTTT
65 GAAAAAATAATTAAACTCTTGC-TTT
** * * * *
9131824 TTTTTTTCACTTTATTGGATACTTAAACTGTCAAAATACATCAAAAGACCTTCAAACATTTTACG
1 TTTTTTTCACTCAATTGGATACTTAAACTGTCAAAATGCATAAAAAAACCTTCAAACTTTTTACG
* * *
9131889 AAAAAATAATTAAACTCCTAC-CT
66 AAAAAATAATTAAACTCTTGCTTT
* *
9131912 TTTTTTTCACTCAATTGAATACTTGAACTGTCAAAATGCATAAAAAAAC
1 TTTTTTTCACTCAATTGGATACTTAAACTGTCAAAATGCATAAAAAAAC
9131961 ACCTTTTAAC
Statistics
Matches: 191, Mismatches: 29, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
88 65 0.34
89 47 0.25
90 77 0.40
91 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (89 bp):
TTTTTTTCACTCAATTGGATACTTAAACTGTCAAAATGCATAAAAAAACCTTCAAACTTTTTACG
AAAAAATAATTAAACTCTTGCTTT
Found at i:9132127 original size:20 final size:21
Alignment explanation
Indices: 9132096--9132154 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
9132086 AAAAAATAAA
*
9132096 TAAAAGTT-ATAAAAATTA-T
1 TAAAATTTAATAAAAATTATT
* *
9132115 TAAATTTTAATAAAAAATATT
1 TAAAATTTAATAAAAATTATT
*
9132136 TAAAATTTATTAAAAATTA
1 TAAAATTTAATAAAAATTA
9132155 GAAAAAGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 6 0.19
20 9 0.28
21 17 0.53
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAATTTAATAAAAATTATT
Found at i:9132130 original size:21 final size:21
Alignment explanation
Indices: 9132083--9132151 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 21
9132073 TAAAAATAAA
** *
9132083 AATAAAAAATAAATAAAAGTT
1 AATAAAAAATATTTAAAATTT
* *
9132104 -ATAAAAATTA-TTAAATTTT
1 AATAAAAAATATTTAAAATTT
9132123 AATAAAAAATATTTAAAATTT
1 AATAAAAAATATTTAAAATTT
*
9132144 ATTAAAAA
1 AATAAAAA
9132152 TTAGAAAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.15
20 18 0.46
21 15 0.38
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (21 bp):
AATAAAAAATATTTAAAATTT
Found at i:9132186 original size:19 final size:19
Alignment explanation
Indices: 9132127--9132188 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
9132117 AATTTTAATA
* * *
9132127 AAAAATATTTAAAATTTATT
1 AAAAATAGTAAAAAATTA-T
* *
9132147 AAAAATTAG-AAAAAGTAAT
1 AAAAA-TAGTAAAAAATTAT
9132166 AAAAATAGTAAAAAATTAT
1 AAAAATAGTAAAAAATTAT
9132185 AAAA
1 AAAA
9132189 TTTTATAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 3 0.09
19 18 0.53
20 11 0.32
21 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAATAGTAAAAAATTAT
Found at i:9132243 original size:28 final size:26
Alignment explanation
Indices: 9132206--9132261 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
9132196 AAGTCGTAAG
9132206 AAAATTGTAAAAAATATAAAGAAAT-AT
1 AAAATTGTAAAAAATA-AAA-AAATCAT
9132233 AAAATTCGTAAAAAATAAAAAAATCAT
1 AAAATT-GTAAAAAATAAAAAAATCAT
9132260 AA
1 AA
9132262 CAAAAGAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 4 0.15
27 13 0.48
28 10 0.37
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (26 bp):
AAAATTGTAAAAAATAAAAAAATCAT
Found at i:9132848 original size:83 final size:83
Alignment explanation
Indices: 9132696--9132852 Score: 194
Period size: 83 Copynumber: 1.9 Consensus size: 83
9132686 GAACAAAGAT
* * * *
9132696 TTTTTTTTATACATTTTGACAATTCAAGTACCCAATTGATGTGCAAAAAAAGAGGCTTAATTGTT
1 TTTTTTTTATACATTTTGAAAATTCAAGTACCCAATTCATATGCAAAAAAAGAGGCTTAATTGTC
9132761 TTTTTTAAAGTTTGAGGG
66 TTTTTTAAAGTTTGAGGG
* * * *
9132779 TTTTTTTTATGCATTTT-AAAAGTTTAAGTACCTAATTCA-ATGCAAAAAAAGTAGGGGTTAATT
1 TTTTTTTTATACATTTTGAAAA-TTCAAGTACCCAATTCATATGCAAAAAAAG-A-GGCTTAATT
9132842 G-CTTTTTTAAA
63 GTCTTTTTTAAA
9132853 AAAGTTTGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
82 14 0.22
83 40 0.63
84 9 0.14
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (83 bp):
TTTTTTTTATACATTTTGAAAATTCAAGTACCCAATTCATATGCAAAAAAAGAGGCTTAATTGTC
TTTTTTAAAGTTTGAGGG
Found at i:9132932 original size:21 final size:20
Alignment explanation
Indices: 9132905--9132961 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
9132895 GTTAACTTTT
9132905 ATTTTTTATAATTTTTATTG
1 ATTTTTTATAATTTTTATTG
* *
9132925 ATTTTTTTATAAATTTTATTT
1 A-TTTTTTATAATTTTTATTG
*
9132946 ATTTTTTATCATTTTT
1 ATTTTTTATAATTTTT
9132962 CGTCACATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (20 bp):
ATTTTTTATAATTTTTATTG
Found at i:9133121 original size:21 final size:21
Alignment explanation
Indices: 9133078--9133155 Score: 81
Period size: 20 Copynumber: 3.8 Consensus size: 21
9133068 TTTTTGATGC
**
9133078 ATTTT-ATAATTTTT-TTACG
1 ATTTTAATAATTTTTATTAAA
* *
9133097 ATTTTTATAATTTTTAATAAA
1 ATTTTAATAATTTTTATTAAA
*
9133118 ATTTAAATATATTTTTATTAAA
1 ATTTTAATA-ATTTTTATTAAA
9133140 A-TTTAATAATTTTTAT
1 ATTTTAATAATTTTTAT
9133156 AACTTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
19 5 0.10
20 17 0.35
21 15 0.31
22 12 0.24
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (21 bp):
ATTTTAATAATTTTTATTAAA
Found at i:9133134 original size:22 final size:20
Alignment explanation
Indices: 9133103--9133154 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
9133093 TACGATTTTT
9133103 ATAATTTTTAATAAAATTTAA
1 ATAATTTTTAATAAAATTT-A
*
9133124 ATATATTTTTATTAAAATTTA
1 ATA-ATTTTTAATAAAATTTA
9133145 ATAATTTTTA
1 ATAATTTTTA
9133155 TAACTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 7 0.24
21 7 0.24
22 15 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTTTTAATAAAATTTA
Found at i:9133154 original size:10 final size:10
Alignment explanation
Indices: 9133097--9133173 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
9133087 TTTTTTTACG
9133097 ATTTTT-ATA
1 ATTTTTAATA
9133106 ATTTTTAATAA
1 ATTTTTAAT-A
* *
9133117 AATTTAAATA
1 ATTTTTAATA
*
9133127 TATTTTTATTA
1 -ATTTTTAATA
**
9133138 AAATTTAATA
1 ATTTTTAATA
9133148 ATTTTT-ATA
1 ATTTTTAATA
* * *
9133157 ACTTTTATTG
1 ATTTTTAATA
9133167 ATTTTTA
1 ATTTTTA
9133174 TTTTTATTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
9 14 0.28
10 21 0.42
11 15 0.30
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:9136126 original size:12 final size:12
Alignment explanation
Indices: 9136090--9136126 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
9136080 TTATTTGTTT
*
9136090 TTAAATTTATTA
1 TTAAATTTATAA
9136102 TTAAATTTA-AA
1 TTAAATTTATAA
9136113 TTAAATTTATAA
1 TTAAATTTATAA
9136125 TT
1 TT
9136127 TTTATACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAAATTTATAA
Found at i:9138321 original size:241 final size:241
Alignment explanation
Indices: 9137898--9138378 Score: 854
Period size: 241 Copynumber: 2.0 Consensus size: 241
9137888 ATATGTTGAA
9137898 TCATTTAATGACACCATCATATTTTCCTTAAATCTAATGGAGTAGCAGAACGAATAAATTTAACT
1 TCATTTAATGACACCATCATATTTTCCTTAAATCTAATGGAGTAGCAGAACGAATAAATTTAACT
* * *
9137963 CTAAAAGAAATGATGTACTTATTGCTAGAAGGCTTTGAGTTATCATAAAACATGTGGGGGGCAGC
66 CTAAAAGAAATGATGTACTTATTGCTAGAAGGCTCTGAGTTATCATAAAACATGTAGGGGGAAGC
9138028 TGTTCTATCAACTAATTACCTTTTAAATAAGGTTCCTCATAAAGAAAGAGACAAGACAATCATTT
131 TGTTCTATCAACTAATTACCTTTTAAATAAGGTTCCTCATAAAGAAAGAGACAAGACAATCATTT
* *
9138093 GGAAATGAGAGGGGTGTCCTAGAACTACTTGAAAATGTGAGGGGTG
196 GGAAATGAGAGGGGTGTCCTAGAACCACTTGAAAATATGAGGGGTG
* *
9138139 TCATTTAATGACACCATCATATTTTCCTTAAATCTAATGGAGTAGCAGAACGGATAAATTTGACT
1 TCATTTAATGACACCATCATATTTTCCTTAAATCTAATGGAGTAGCAGAACGAATAAATTTAACT
* *
9138204 CTAAAAGAAATGATGTACTTATTGCTAGAAGGCTCTGAGTTATCATAGAACATGTAGGGGGAAGT
66 CTAAAAGAAATGATGTACTTATTGCTAGAAGGCTCTGAGTTATCATAAAACATGTAGGGGGAAGC
* *
9138269 TGTTCTATCAACTAATTACTTTTTAAATAAGGTTCCTCTTAAAGAAAGAGACAAGACAATCATTT
131 TGTTCTATCAACTAATTACCTTTTAAATAAGGTTCCTCATAAAGAAAGAGACAAGACAATCATTT
*
9138334 GGAAATGTGAGGGGTGTCCTAGAACCACTTGAAAATATGAGGGGT
196 GGAAATGAGAGGGGTGTCCTAGAACCACTTGAAAATATGAGGGGT
9138379 ATCCTGTTAA
Statistics
Matches: 228, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
241 228 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (241 bp):
TCATTTAATGACACCATCATATTTTCCTTAAATCTAATGGAGTAGCAGAACGAATAAATTTAACT
CTAAAAGAAATGATGTACTTATTGCTAGAAGGCTCTGAGTTATCATAAAACATGTAGGGGGAAGC
TGTTCTATCAACTAATTACCTTTTAAATAAGGTTCCTCATAAAGAAAGAGACAAGACAATCATTT
GGAAATGAGAGGGGTGTCCTAGAACCACTTGAAAATATGAGGGGTG
Found at i:9147382 original size:2 final size:2
Alignment explanation
Indices: 9147369--9147421 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
9147359 AAACATAATC
*
9147369 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9147411 AT AT AT AT AT A
1 AT AT AT AT AT A
9147422 ATTCTGAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9147666 original size:15 final size:16
Alignment explanation
Indices: 9147646--9147678 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9147636 AATACGTATG
*
9147646 AAAATTTTGA-AGAGA
1 AAAATTTCGAGAGAGA
9147661 AAAATTTCGAGAGAGA
1 AAAATTTCGAGAGAGA
9147677 AA
1 AA
9147679 GAAAAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.55, C:0.03, G:0.21, T:0.21
Consensus pattern (16 bp):
AAAATTTCGAGAGAGA
Found at i:9150157 original size:13 final size:14
Alignment explanation
Indices: 9150128--9150159 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9150118 GGTTAATTTC
9150128 CTTATAAGTCTTTT
1 CTTATAAGTCTTTT
9150142 CTTATAAGTC-TTT
1 CTTATAAGTCTTTT
9150155 CTTAT
1 CTTAT
9150160 TTACTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (14 bp):
CTTATAAGTCTTTT
Found at i:9154947 original size:20 final size:19
Alignment explanation
Indices: 9154914--9154962 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
9154904 GTTTTCAGAA
*
9154914 AATAATTTTTG-AAAAATG
1 AATATTTTTTGAAAAAATG
*
9154932 AATTATTTTTTCGAAAAAATT
1 AA-TATTTTTT-GAAAAAATG
9154953 AATATTTTTT
1 AATATTTTTT
9154963 TTTGTTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 2 0.08
19 7 0.27
20 9 0.35
21 8 0.31
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (19 bp):
AATATTTTTTGAAAAAATG
Found at i:9159498 original size:30 final size:29
Alignment explanation
Indices: 9159464--9159570 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 29
9159454 CAAAATTTTT
9159464 AAAAATTCAAATTTGATCCCTAAACTTTCC
1 AAAAATTCAAATTTGA-CCCTAAACTTTCC
*
9159494 AAAAATTCAAATTTGACACC-AAATTTTTCC
1 AAAAATTCAAATTTGAC-CCTAAA-CTTTCC
*** * **
9159524 AAAAATTTTGATTTGACCCCTAAAGTTTTA
1 AAAAATTCAAATTTGA-CCCTAAACTTTCC
9159554 AAAAATTCAAATTTGAC
1 AAAAATTCAAATTTGAC
9159571 TCGGTTTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
29 5 0.08
30 54 0.86
31 4 0.06
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.35
Consensus pattern (29 bp):
AAAAATTCAAATTTGACCCTAAACTTTCC
Found at i:9159528 original size:60 final size:58
Alignment explanation
Indices: 9159456--9159570 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 58
9159446 TAAACCCTCA
* *
9159456 AAATTTTTAAAAATTCAAATTTGATCCCTAAACTTTCCAAAAATTCAAATTTGACACC
1 AAATTTTTAAAAATTCAAATTTGACCCCTAAACTTTCAAAAAATTCAAATTTGACACC
*** * *
9159514 AAATTTTTCCAAAAATTTTGATTTGACCCCTAAAGTTTTAAAAAATTCAAATTTGAC
1 AAATTTTT--AAAAATTCAAATTTGACCCCTAAACTTTCAAAAAATTCAAATTTGAC
9159571 TCGGTTTTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 8 0.17
60 40 0.83
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.37
Consensus pattern (58 bp):
AAATTTTTAAAAATTCAAATTTGACCCCTAAACTTTCAAAAAATTCAAATTTGACACC
Found at i:9163071 original size:10 final size:11
Alignment explanation
Indices: 9163056--9163084 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
9163046 CTTGAAGCCT
9163056 AAGAAAAAA-A
1 AAGAAAAAAGA
9163066 AAGAAAAAAGA
1 AAGAAAAAAGA
9163077 AAGAAAAA
1 AAGAAAAA
9163085 GTCAAGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:9163669 original size:8 final size:7
Alignment explanation
Indices: 9163666--9163729 Score: 69
Period size: 7 Copynumber: 9.0 Consensus size: 7
9163656 AAAAAAGGAA
9163666 AAAAAAG
1 AAAAAAG
*
9163673 GAAAAAG
1 AAAAAAG
9163680 AGAAAAAG
1 A-AAAAAG
9163688 AGAAAAAG
1 A-AAAAAG
*
9163696 -AAAAGG
1 AAAAAAG
9163702 AAAAAAG
1 AAAAAAG
9163709 AAGAAAAG
1 AA-AAAAG
9163717 -AAAAAG
1 AAAAAAG
9163723 AAAAAAG
1 AAAAAAG
9163730 GGAGGTAGAG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
6 10 0.20
7 20 0.41
8 19 0.39
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:9163678 original size:21 final size:22
Alignment explanation
Indices: 9163654--9163728 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 22
9163644 AATTTCACCC
9163654 AAAAAAAAGGAAAA-AAAAGGAAA
1 AAAAAAAAGGAAAAGAAAAGG--A
9163677 AAGAGAAAAAGAGAAAAAGAAAAGGA
1 AA-A-AAAAAG-G-AAAAGAAAAGGA
* *
9163703 AAAAAGAA-GAAAAGAAAAAGA
1 AAAAAAAAGGAAAAGAAAAGGA
9163724 AAAAA
1 AAAAA
9163729 GGGAGGTAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
21 16 0.36
22 1 0.02
23 2 0.04
24 5 0.11
25 7 0.16
26 4 0.09
27 4 0.09
28 6 0.13
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAAAAGGAAAAGAAAAGGA
Found at i:9163694 original size:27 final size:26
Alignment explanation
Indices: 9163656--9163726 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 26
9163646 TTTCACCCAA
*
9163656 AAAAAAGGAAAA-AAAAGGAAAAAGAG
1 AAAAAAGAAAAAGAAAAGGAAAAA-AG
9163682 AAAAAGAGAAAAAGAAAAGGAAAAAAG
1 AAAAA-AGAAAAAGAAAAGGAAAAAAG
9163709 AAGAAAAGAAAAAGAAAA
1 AA-AAAAGAAAAAGAAAA
9163727 AAGGGAGGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 5 0.12
27 22 0.54
28 14 0.34
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (26 bp):
AAAAAAGAAAAAGAAAAGGAAAAAAG
Found at i:9163698 original size:22 final size:20
Alignment explanation
Indices: 9163666--9163729 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 20
9163656 AAAAAAGGAA
9163666 AAAAAAGGAAAAAGAGAAAAAG
1 AAAAAA-GAAAAAGA-AAAAAG
*
9163688 AGAAAAAGAAAAGGAAAAAAG
1 A-AAAAAGAAAAAGAAAAAAG
9163709 AAGAAAAGAAAAAGAAAAAAG
1 AA-AAAAGAAAAAGAAAAAAG
9163730 GGAGGTAGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 1 0.03
21 24 0.63
22 8 0.21
23 5 0.13
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAAAGAAAAAAG
Found at i:9164698 original size:49 final size:49
Alignment explanation
Indices: 9164616--9164828 Score: 151
Period size: 49 Copynumber: 4.3 Consensus size: 49
9164606 AGTTTGAAGG
* * * * *
9164616 GATTGAAGCTGCAACGACAAATC-TGATACCTTAGAGATATGAAGAGAAA
1 GATTGAAGCCGCAACGACGAACCTTG-TACCCTAGAGATATGAAGGGAAA
* * * * ** **
9164665 GGTTGAAGCCGCAACGACGAACCTTGTATCTTAGGGACGTGGTGGGAAA
1 GATTGAAGCCGCAACGACGAACCTTGTACCCTAGAGATATGAAGGGAAA
** ** * * *
9164714 GATTGAAGCCGCGGCGGTGAATCTTGTACCCTAGAGTTATGGAGGGAAA
1 GATTGAAGCCGCAACGACGAACCTTGTACCCTAGAGATATGAAGGGAAA
* * * * *
9164763 -AGTTGAAGCCGTAACGGCGAACCTTATACCCTAGAGATGTGAAGGAAAA
1 GA-TTGAAGCCGCAACGACGAACCTTGTACCCTAGAGATATGAAGGGAAA
* *
9164812 GATTGAGGCCGTAACGA
1 GATTGAAGCCGCAACGA
9164829 TGAATCTTAC
Statistics
Matches: 125, Mismatches: 36, Indels: 6
0.75 0.22 0.04
Matches are distributed among these distances:
48 1 0.01
49 121 0.97
50 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (49 bp):
GATTGAAGCCGCAACGACGAACCTTGTACCCTAGAGATATGAAGGGAAA
Found at i:9164813 original size:98 final size:98
Alignment explanation
Indices: 9164642--9164822 Score: 218
Period size: 98 Copynumber: 1.8 Consensus size: 98
9164632 ACAAATCTGA
* * * * * * *
9164642 TACCTTAGAGATATGAAGAGAAAGGTTGAAGCCGCAACGACGAACCTTGTATCTTAGGGACGTGG
1 TACCCTAGAGATATGAAGAGAAAAGTTGAAGCCGCAACGACGAACCTTATACCCTAGAGACGTGA
* *
9164707 TGGGAAAGATTGAAGCCGCGGCGGTGAATCTTG
66 AGGAAAAGATTGAAGCCGCGGCGGTGAATCTTG
* * * * * *
9164740 TACCCTAGAGTTATGGAGGGAAAAGTTGAAGCCGTAACGGCGAACCTTATACCCTAGAGATGTGA
1 TACCCTAGAGATATGAAGAGAAAAGTTGAAGCCGCAACGACGAACCTTATACCCTAGAGACGTGA
*
9164805 AGGAAAAGATTGAGGCCG
66 AGGAAAAGATTGAAGCCG
9164823 TAACGATGAA
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
98 67 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.20
Consensus pattern (98 bp):
TACCCTAGAGATATGAAGAGAAAAGTTGAAGCCGCAACGACGAACCTTATACCCTAGAGACGTGA
AGGAAAAGATTGAAGCCGCGGCGGTGAATCTTG
Found at i:9164850 original size:49 final size:48
Alignment explanation
Indices: 9164741--9164841 Score: 114
Period size: 49 Copynumber: 2.1 Consensus size: 48
9164731 TGAATCTTGT
* * *
9164741 ACCCTAGAGTTATG-GAGGGAAAAGTTGAAGCCGTAACGGCGAACCTTAT
1 ACCCTAGAG--ATGTGAAGGAAAAGTTGAAGCCGTAACGACGAACCTTAC
* * *
9164790 ACCCTAGAGATGTGAAGGAAAAGATTGAGGCCGTAACGATGAATCTTAC
1 ACCCTAGAGATGTGAAGGAAAAG-TTGAAGCCGTAACGACGAACCTTAC
9164839 ACC
1 ACC
9164842 TTGAAGATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
47 3 0.07
48 9 0.20
49 32 0.73
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.20
Consensus pattern (48 bp):
ACCCTAGAGATGTGAAGGAAAAGTTGAAGCCGTAACGACGAACCTTAC
Found at i:9165299 original size:79 final size:78
Alignment explanation
Indices: 9165179--9165501 Score: 423
Period size: 79 Copynumber: 4.1 Consensus size: 78
9165169 CAGAGGACAT
* * ** * *
9165179 ATTGAAGACCATCAAATCTTTTACCCTAATTAGAGGGCAGATTGAATACCATCCGATCTCATACC
1 ATTGAAG-CAATCTAATCTTTTACCCTAACCAGAGAGCAGATTGAATACCATCCGATCTCTTACC
9165244 TCGACCATGGGGCAG
65 -CGACCATGGGGCAG
* * *
9165259 ATTGAAGCAATCTAATCTTTTACCCTAACCAGAGAACAGATTGAAAACCATCTGATCTCTTACCC
1 ATTGAAGCAATCTAATCTTTTACCCTAACCAGAGAGCAGATTGAATACCATCCGATCTCTTA-CC
* *
9165324 CGACCATGGGCCTG
65 CGACCATGGGGCAG
* * *
9165338 ATTAAAGCAATCTAATCTTTTACCCTAACCAGA-AGGCAAATTAAATACCATCCGATCTCTTATC
1 ATTGAAGCAATCTAATCTTTTACCCTAACCAGAGA-GCAGATTGAATACCATCCGATCTCTTA-C
*
9165402 CCGACCATGGGGTAG
64 CCGACCATGGGGCAG
* *
9165417 ATTGAAGCAATCTAATCTTTTACCCTAACTAGAGGGCAGATTGAATACCATCCGATCTCTTACCC
1 ATTGAAGCAATCTAATCTTTTACCCTAACCAGAGAGCAGATTGAATACCATCCGATCTCTTACCC
*
9165482 TGACCATGGGGTAG
66 -GACCATGGGGCAG
9165496 ATTGAA
1 ATTGAA
9165502 TACCATCCGA
Statistics
Matches: 213, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
78 4 0.02
79 200 0.94
80 9 0.04
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (78 bp):
ATTGAAGCAATCTAATCTTTTACCCTAACCAGAGAGCAGATTGAATACCATCCGATCTCTTACCC
GACCATGGGGCAG
Found at i:9165501 original size:198 final size:198
Alignment explanation
Indices: 9165296--9165699 Score: 594
Period size: 198 Copynumber: 2.0 Consensus size: 198
9165286 ACCAGAGAAC
* ** *
9165296 AGATTGAAAACCATCTGATCTCTTACCCCGACCATGGGCCTGATTAAAGCAATCTAATCTTTTAC
1 AGATTGAAAACCATCCGATCTCTTACCCCGACCATGGGCCAAATTAAAGCAATCCAATCTTTTAC
* * *
9165361 CCTAACCAGAAGGCAAATT-AAATACCATCCGATCTCTTATCCCGACCATGGGGTAGATTGAAGC
66 ACTAACCAGAAGGCAAATTGAAA-ACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGC
* * ** * *
9165425 AATCTAATCTTTTACCCTAACTAGAGGGCAGATTGAATACCATCCGATCTCTTACCCTGACCATG
130 AATCCAATCTTTTACCCTAACCAGAAAGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATG
*
9165490 GGGT
195 GGAT
* * * *
9165494 AGATTGAATACCATCCGATCTCTTACGCCGACCATGGGGCAAATTGAAGCAATCCAATCTTTTAC
1 AGATTGAAAACCATCCGATCTCTTACCCCGACCATGGGCCAAATTAAAGCAATCCAATCTTTTAC
* * *
9165559 ACTAACCAGAGGGCAGATTGAAAACCATTCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCA
66 ACTAACCAGAAGGCAAATTGAAAACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCA
*
9165624 ATCCAATCTTTTACCCTAACCAGAAAGCAGATTGAAGACCGTCCGATCTCTTACCCCGACCATGG
131 ATCCAATCTTTTACCCTAACCAGAAAGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGG
9165689 GAT
196 GAT
9165692 AGATTGAA
1 AGATTGAA
9165700 GCAATCCAAT
Statistics
Matches: 183, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
198 180 0.98
199 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (198 bp):
AGATTGAAAACCATCCGATCTCTTACCCCGACCATGGGCCAAATTAAAGCAATCCAATCTTTTAC
ACTAACCAGAAGGCAAATTGAAAACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCA
ATCCAATCTTTTACCCTAACCAGAAAGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGG
GAT
Found at i:9165528 original size:119 final size:117
Alignment explanation
Indices: 9165179--9165838 Score: 485
Period size: 119 Copynumber: 5.6 Consensus size: 117
9165169 CAGAGGACAT
* * ** *
9165179 ATTGAAGACCATCAAATCTTTTACCCTAATTAGAGGGCAGATTGAATACCATCCGATCTCATA-C
1 ATTGAAG-CAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAA-ACCATCCGATCTCTTACC
* * ** * * **
9165243 CTCGACCATGGGGCAGATTGAA-GCAATCTAATCTTTTACCCTAACCA-GAGAACAG
64 CT-GACCATGGGGCAGATTGAATACCATCCGATCTCTTACCC-GACCATG-GGGCAG
* * ** * ** * * * ** *
9165298 ATTGAAAACCATCTGATCTCTTACCCCGACCATG-GGCCTGATT-AAAGCAATCTAATCTTTTAC
1 ATTG-AAGCAATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAA-CCATCCGATCTCTTAC
* * * * *
9165361 CCTAACCA-GAAGGCAAATTAAATACCATCCGATCTCTTATCCCGACCATGGGGTAG
63 CCTGACCATG-GGGCAGATTGAATACCATCCGATCTCTTA-CCCGACCATGGGGCAG
* *
9165417 ATTGAAGCAATCTAATCTTTTACCCTAACTAGAGGGCAGATTGAATACCATCCGATCTCTTACCC
1 ATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAA-ACCATCCGATCTCTTACCC
* *
9165482 TGACCATGGGGTAGATTGAATACCATCCGATCTCTTACGCCGACCATGGGGCAA
65 TGACCATGGGGCAGATTGAATACCATCCGATCTCTTAC-CCGACCATGGGGCAG
* *
9165536 ATTGAAGCAATCCAATCTTTTACACTAACCAGAGGGCAGATTGAAAACCATTCGATCTCTTACCC
1 ATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTG-AAACCATCCGATCTCTTACCC
* * * * * * **
9165601 CGACCATGGGGCAGATTGAA-GCAATCCAATCTTTTACCCTAACCA-GAAAGCAG
65 TGACCATGGGGCAGATTGAATACCATCCGATCTCTTACCC-GACCATG-GGGCAG
** * * ** ** * * * *
9165654 ATTGAAGACCGTCCGATCTCTTACCCCGACCATG-GGATAGATTGAAGCAATCCAATCTTTTACC
1 ATTGAAG-CAATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAACCATCCGATCTCTTACC
* * * *
9165718 CTAACCA-GAGGGCAGATTGAAGACCGTCCGATCTCTTACGCCGACCATGGGGCAC
64 CTGACCATG-GGGCAGATTGAATACCATCCGATCTCTTAC-CCGACCATGGGGCAG
* * * *
9165773 ATTAAAGCAATTCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGATCATCCGATCTTTTACCC
1 ATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAA-ACCATCCGATCTCTTACCC
9165838 T
65 T
9165839 TAAAGCTATA
Statistics
Matches: 416, Mismatches: 101, Indels: 48
0.74 0.18 0.08
Matches are distributed among these distances:
117 8 0.02
118 139 0.33
119 254 0.61
120 15 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (117 bp):
ATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAACCATCCGATCTCTTACCCT
GACCATGGGGCAGATTGAATACCATCCGATCTCTTACCCGACCATGGGGCAG
Found at i:9165577 original size:79 final size:79
Alignment explanation
Indices: 9165450--9165837 Score: 535
Period size: 79 Copynumber: 4.9 Consensus size: 79
9165440 CCTAACTAGA
* * * * * * *
9165450 GGGCAGATTGAATACCATCCGATCTCTTACCCTGACCATG-GGGTAGATTGAATACCATCCGATC
1 GGGCAGATTGAA-GCAATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGACCATCCGATC
*
9165514 TCTTACGCCGACCATG
64 TCTTACCCCGACCATG
* * * *
9165530 GGGCAAATTGAAGCAATCCAATCTTTTACACTAACCAGAGGGCAGATTGAAAACCATTCGATCTC
1 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTC
9165595 TTACCCCGACCATG
66 TTACCCCGACCATG
** *
9165609 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAAAGCAGATTGAAGACCGTCCGATCTC
1 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTC
9165674 TTACCCCGACCATG
66 TTACCCCGACCATG
** *
9165688 GGATAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCGTCCGATCTC
1 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTC
*
9165753 TTACGCCGACCATG
66 TTACCCCGACCATG
* * * * *
9165767 GGGCACATTAAAGCAATTCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGATCATCCGATCTT
1 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTC
9165832 TTACCC
66 TTACCC
9165838 TTAAAGCTAT
Statistics
Matches: 275, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
78 1 0.00
79 263 0.96
80 11 0.04
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (79 bp):
GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTC
TTACCCCGACCATG
Found at i:9165577 original size:158 final size:154
Alignment explanation
Indices: 9165253--9165739 Score: 412
Period size: 158 Copynumber: 3.1 Consensus size: 154
9165243 CTCGACCATG
** *
9165253 GGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAGAACAGATTGAAAACCATCTGATCTC
1 GGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAGGGCAGATTG-AAACCATCCGATCTC
* * * ** * * *
9165318 TTACCCCGACCATGGGCCT-GATT-AAAGCAATCTAATCTTTTACCCTAACCA-GAAGGCAAATT
65 TTACCCTGACCATGGG-GTAGATTGAAA-CCATCCGATCTCTTACCC-GACCATG-GGGCAAATT
* * * * * **
9165380 AAATACCATCCGATCTCTTATCCCGACCATG-
126 GAA-GCAATCCAATCTTTTA-CCTAACCA-GA
* *
9165411 GGGTAGATTGAAGCAATCTAATCTTTTACCCTAACTAGAGGGCAGATTGAATACCATCCGATCTC
1 GGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAA-ACCATCCGATCTC
9165476 TTACCCTGACCATGGGGTAGATTGAATACCATCCGATCTCTTACGCCGACCATGGGGCAAATTGA
65 TTACCCTGACCATGGGGTAGATTGAA-ACCATCCGATCTCTTAC-CCGACCATGGGGCAAATTGA
9165541 AGCAATCCAATCTTTTACACTAACCAGA
128 AGCAATCCAATCTTTTAC-CTAACCAGA
* * * * ** * * *
9165569 GGGCAGATTGAAAACCAT-TCGATCTCTTACCCCGACCATG-GGGCAGATTGAAGCAATCCAATC
1 GGGCAGATTG-AAGCAATCT-AATCTTTTACCCTAACCA-GAGGGCAGATTGAAACCATCCGATC
* * ** * * ** *
9165632 TTTTACCCTAACCA-GAAAGCAGATTGAAGACCGTCCGATCTCTTACCCCGACCATGGGATAGAT
63 TCTTACCCTGACCATG-GGGTAGATTGAA-ACCATCCGATCTCTTA-CCCGACCATGGGGCAAAT
9165696 TGAAGCAATCCAATCTTTTACCCTAACCAGA
125 TGAAGCAATCCAATCTTTTA-CCTAACCAGA
9165727 GGGCAGATTGAAG
1 GGGCAGATTGAAG
9165740 ACCGTCCGAT
Statistics
Matches: 273, Mismatches: 42, Indels: 29
0.79 0.12 0.08
Matches are distributed among these distances:
157 8 0.03
158 200 0.73
159 60 0.22
160 5 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (154 bp):
GGGCAGATTGAAGCAATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAACCATCCGATCTCT
TACCCTGACCATGGGGTAGATTGAAACCATCCGATCTCTTACCCGACCATGGGGCAAATTGAAGC
AATCCAATCTTTTACCTAACCAGA
Found at i:9165647 original size:277 final size:277
Alignment explanation
Indices: 9165149--9165771 Score: 896
Period size: 277 Copynumber: 2.2 Consensus size: 277
9165139 CTTGAAGATC
* * ** * * **
9165149 ATCCAATCTTTTACCCTAA-TCAGAGGACATATTGAAGACCATCAAATCTTTTACCCTAATTA-G
1 ATCCAATCTTTTACCCTAACT-AGAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATG
* *
9165212 AGGGCAGATTGAATACCATCCGATCTCATACCTCGACCATGGGGCAGATTGAAGCAATCTAATCT
65 -GGGCAGATTGAATACCATCCGATCTCATACCTCGACCATGGGGCAAATTGAAGCAATCCAATCT
* *
9165277 TTTACCCTAACCAGAGAACAGATTGAAAACCATCTGATCTCTTACCCCGACCATGGGCCTGATTA
129 TTTACACTAACCAGAGAACAGATTGAAAACCATCTGATCTCTTACCCCGACCATGGGCCAGATTA
* * * *
9165342 AAGCAATCTAATCTTTTACCCTAACCAGAAGGCAAATTAAATACCATCCGATCTCTTATCCCGAC
194 AAGCAATCCAATCTTTTACCCTAACCAGAAAGCAAATTAAAGACCATCCGATCTCTTACCCCGAC
*
9165407 CATGGGGTAGATTGAAGCA
259 CATGGGATAGATTGAAGCA
* *
9165426 ATCTAATCTTTTACCCTAACTAGAGGGCAGATTGAATACCATCCGATCTCTTACCCTGACCATGG
1 ATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATGG
* *
9165491 GGTAGATTGAATACCATCCGATCTCTTACGC-CGACCATGGGGCAAATTGAAGCAATCCAATCTT
66 GGCAGATTGAATACCATCCGATCTCATAC-CTCGACCATGGGGCAAATTGAAGCAATCCAATCTT
** * *
9165555 TTACACTAACCAGAGGGCAGATTGAAAACCAT-TCGATCTCTTACCCCGACCATGGGGCAGATTG
130 TTACACTAACCAGAGAACAGATTGAAAACCATCT-GATCTCTTACCCCGACCATGGGCCAGATTA
* * *
9165619 AAGCAATCCAATCTTTTACCCTAACCAGAAAGCAGATTGAAGACCGTCCGATCTCTTACCCCGAC
194 AAGCAATCCAATCTTTTACCCTAACCAGAAAGCAAATTAAAGACCATCCGATCTCTTACCCCGAC
9165684 CATGGGATAGATTGAAGCA
259 CATGGGATAGATTGAAGCA
* *
9165703 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCGTCCGATCTCTTACGCC-GACCATG
1 ATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTAC-CCTGACCATG
9165767 GGGCA
65 GGGCA
9165772 CATTAAAGCA
Statistics
Matches: 308, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
276 1 0.00
277 302 0.98
278 5 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (277 bp):
ATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATGG
GGCAGATTGAATACCATCCGATCTCATACCTCGACCATGGGGCAAATTGAAGCAATCCAATCTTT
TACACTAACCAGAGAACAGATTGAAAACCATCTGATCTCTTACCCCGACCATGGGCCAGATTAAA
GCAATCCAATCTTTTACCCTAACCAGAAAGCAAATTAAAGACCATCCGATCTCTTACCCCGACCA
TGGGATAGATTGAAGCA
Found at i:9165810 original size:39 final size:39
Alignment explanation
Indices: 9165113--9165838 Score: 399
Period size: 40 Copynumber: 18.4 Consensus size: 39
9165103 AGTTACAACC
*
9165113 ATCCAATCTTTTACCCTAATCAGA-GGC---TTGAAG-A
1 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGCA
* * * *
9165147 TCATCCAATCTTTTACCCTAATCAGAGGACATATTGAAGACC
1 --ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG-CA
* ** * *
9165189 ATCAAATCTTTTACCCTAATTAGAGGGCAGATTGAATACC
1 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAA-GCA
* ** *
9165229 ATCCGATCTCATA-CCTCGACCATG-GGGCAGATTGAAGCA
1 ATCCAATCTTTTACCCT-AACCA-GAGGGCAGATTGAAGCA
* ** * *
9165268 ATCTAATCTTTTACCCTAACCAGAGAACAGATTGAAAACC
1 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTG-AAGCA
** * ** * * *
9165308 ATCTGATCTCTTACCCCGACCATG-GGCCTGATTAAAGCA
1 ATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGCA
* * * * * *
9165347 ATCTAATCTTTTACCCTAACCAGAAGGCAAATTAAATACC
1 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAA-GCA
* * * *
9165387 ATCCGATCTCTTATCCC-GACCATG-GGGTAGATTGAAGCA
1 ATCCAATCTTTTA-CCCTAACCA-GAGGGCAGATTGAAGCA
* * * *
9165426 ATCTAATCTTTTACCCTAACTAGAGGGCAGATTGAATACC
1 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAA-GCA
* * * * * *
9165466 ATCCGATCTCTTACCCTGACCATG-GGGTAGATTGAATACC
1 ATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAA-GCA
* * * *
9165506 ATCCGATCTCTTACGCC-GACCATG-GGGCAAATTGAAGCA
1 ATCCAATCTTTTAC-CCTAACCA-GAGGGCAGATTGAAGCA
* * *
9165545 ATCCAATCTTTTACACTAACCAGAGGGCAGATTGAAAACC
1 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTG-AAGCA
* * * **
9165585 ATTCGATCTCTTACCCCGACCATG-GGGCAGATTGAAGCA
1 ATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGCA
** *
9165624 ATCCAATCTTTTACCCTAACCAGAAAGCAGATTGAAGACC
1 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG-CA
* * * ** **
9165664 GTCCGATCTCTTACCCCGACCATG-GGATAGATTGAAGCA
1 ATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGCA
*
9165703 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACC
1 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG-CA
* * * * * *
9165743 GTCCGATCTCTTACGCC-GACCATG-GGGCACATTAAAGCA
1 ATCCAATCTTTTAC-CCTAACCA-GAGGGCAGATTGAAGCA
*
9165782 ATTCAATCTTTTACCCTAACCAGAGGGCAGATTGAAG-A
1 ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGCA
*
9165820 TCATCCGATCTTTTACCCT
1 --ATCCAATCTTTTACCCT
9165839 TAAAGCTATA
Statistics
Matches: 523, Mismatches: 130, Indels: 70
0.72 0.18 0.10
Matches are distributed among these distances:
36 24 0.05
37 2 0.00
38 14 0.03
39 191 0.37
40 278 0.53
41 14 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (39 bp):
ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGCA
Found at i:9167511 original size:30 final size:30
Alignment explanation
Indices: 9167465--9167589 Score: 132
Period size: 30 Copynumber: 4.2 Consensus size: 30
9167455 AAAATTGTTT
9167465 TTTGACCCCTCAAAATTTCCAAAAATTTGAA
1 TTTGACCCC-CAAAATTTCCAAAAATTTGAA
9167496 TTTGACCCCCAAAATTTCCAAAAATTTGAA
1 TTTGACCCCCAAAATTTCCAAAAATTTGAA
* *
9167526 TTT---CCCTAAATTTTCCCAAAAATTTTG-A
1 TTTGACCCCCAAAATTT-CCAAAAA-TTTGAA
* * ** *
9167554 TTTGACCGCTAAAATTTTTAAAAATTCGAA
1 TTTGACCCCCAAAATTTCCAAAAATTTGAA
9167584 TTTGAC
1 TTTGAC
9167590 TTGGTTTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
27 9 0.11
28 11 0.14
29 7 0.09
30 36 0.44
31 18 0.22
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (30 bp):
TTTGACCCCCAAAATTTCCAAAAATTTGAA
Found at i:9176011 original size:21 final size:21
Alignment explanation
Indices: 9175970--9176015 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
9175960 ATACTTGCAA
9175970 AAAAGAAGAATAGACAGAAGC
1 AAAAGAAGAATAGACAGAAGC
9175991 AAAAGCAAGAATA-A-AGCAAGC
1 AAAAG-AAGAATAGACAG-AAGC
9176012 AAAA
1 AAAA
9176016 ACTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 14 0.61
22 7 0.30
ACGTcount: A:0.65, C:0.11, G:0.20, T:0.04
Consensus pattern (21 bp):
AAAAGAAGAATAGACAGAAGC
Found at i:9176016 original size:22 final size:22
Alignment explanation
Indices: 9175969--9176016 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
9175959 GATACTTGCA
9175969 AAAAAGAAGAATAGACAGAAGC
1 AAAAAGAAGAATAGACAGAAGC
9175991 -AAAAGCAAGAATA-A-AGCAAGC
1 AAAAAG-AAGAATAGACAG-AAGC
9176012 AAAAA
1 AAAAA
9176017 CTAATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 2 0.09
21 10 0.43
22 11 0.48
ACGTcount: A:0.67, C:0.10, G:0.19, T:0.04
Consensus pattern (22 bp):
AAAAAGAAGAATAGACAGAAGC
Found at i:9177363 original size:29 final size:31
Alignment explanation
Indices: 9177306--9177437 Score: 137
Period size: 30 Copynumber: 4.3 Consensus size: 31
9177296 AACCTTCGAT
* * * *
9177306 CTTTTTAAAAATTTCATTTTGACTCCT-AAA
1 CTTTCTAAAAATTGCATTTTAACCCCTAAAA
*
9177336 CTTTCTAAAAATTACA-TTTAACCCCTAAAA
1 CTTTCTAAAAATTGCATTTTAACCCCTAAAA
* *
9177366 -TTTATAAAAATTGCATTTTAACCCCTCAAA
1 CTTTCTAAAAATTGCATTTTAACCCCTAAAA
*
9177396 CTTTTTGAAAAATTGCATTTTGAA-CCCTAAAA
1 CTTTCT-AAAAATTGCATTTT-AACCCCTAAAA
*
9177428 CTTTCCAAAA
1 CTTTCTAAAA
9177438 TTTTGATTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
29 21 0.24
30 30 0.35
31 8 0.09
32 25 0.29
33 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.38
Consensus pattern (31 bp):
CTTTCTAAAAATTGCATTTTAACCCCTAAAA
Found at i:9177426 original size:91 final size:90
Alignment explanation
Indices: 9177219--9177437 Score: 230
Period size: 90 Copynumber: 2.4 Consensus size: 90
9177209 CTCTATTTTG
* * *
9177219 TTTAAAAATTATATTTT-AACCCTAAACTTTCCCAAAAATTCAAATCTAACCCTCAAATTTTCTA
1 TTTAAAAATTACATTTTGAACCCTAAACTTT-CCAAAAATTCAAATCTAACCCTAAAATTTTCAA
** * * *
9177283 AAATTTTATTTTAAACCTTCGATCTT
65 AAATTGCATTTTAAACCCTCAAACTT
* * * *
9177309 TTTAAAAATTTCATTTTG-ACTCCTAAACTTTCTAAAAATT-ACATTTAACCCCTAAAATTTAT-
1 TTTAAAAATTACATTTTGAAC-CCTAAACTTTCCAAAAATTCAAATCTAA-CCCTAAAATTT-TC
*
9177371 AAAAATTGCATTTTAACCCCTCAAACTT
63 AAAAATTGCATTTTAAACCCTCAAACTT
*
9177399 TTTGAAAAATTGCATTTTGAACCCTAAAACTTTCCAAAA
1 TTT-AAAAATTACATTTTGAACCCT-AAACTTTCCAAAA
9177438 TTTTGATTTC
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
89 6 0.06
90 59 0.55
91 28 0.26
92 14 0.13
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.39
Consensus pattern (90 bp):
TTTAAAAATTACATTTTGAACCCTAAACTTTCCAAAAATTCAAATCTAACCCTAAAATTTTCAAA
AATTGCATTTTAAACCCTCAAACTT
Found at i:9189498 original size:40 final size:40
Alignment explanation
Indices: 9189440--9189607 Score: 141
Period size: 40 Copynumber: 4.2 Consensus size: 40
9189430 TTTCACCCTT
*
9189440 AGATTGAAGACA-ATCCAATCTCTTACCCCGATCATGGGGC
1 AGATTGAAGACACA-CCAATCTCTTACCCCAATCATGGGGC
* * * *
9189480 AGATTGAGGACACACCAATCTCTTACCCTAATCATAGGGT
1 AGATTGAAGACACACCAATCTCTTACCCCAATCATGGGGC
* * *
9189520 AGATTGAAG-CATCA--AATTTTTTACCCCAATCA-GAGGGT
1 AGATTGAAGACA-CACCAATCTCTTACCCCAATCATG-GGGC
* ** * *
9189558 AGATTG-AGAACATACTGATCTCTTAACCCTATCATGGGGC
1 AGATTGAAG-ACACACCAATCTCTTACCCCAATCATGGGGC
9189598 AGATTGAAGA
1 AGATTGAAGA
9189608 TAGGTTGCGA
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
37 2 0.02
38 26 0.25
39 4 0.04
40 66 0.65
41 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (40 bp):
AGATTGAAGACACACCAATCTCTTACCCCAATCATGGGGC
Found at i:9189579 original size:78 final size:80
Alignment explanation
Indices: 9189439--9189607 Score: 193
Period size: 78 Copynumber: 2.1 Consensus size: 80
9189429 GTTTCACCCT
* * *
9189439 TAGATTGAAGACAATCCAATCTCTTACCCCGATCATGGGGCAGATTGAGGACACACCAATCTCTT
1 TAGATTGAAGACAATCAAATCTCTTACCCCAATCATGGGGCAGATTGAGAACACACCAATCTCTT
9189504 -ACCCTAATCATAGGG
66 AACCCT-ATCATAGGG
* * * * **
9189519 TAGATTGAAG-C-ATCAAATTTTTTACCCCAATCA-GAGGGTAGATTGAGAACATACTGATCTCT
1 TAGATTGAAGACAATCAAATCTCTTACCCCAATCATG-GGGCAGATTGAGAACACACCAATCTCT
*
9189581 TAACCCTATCATGGGG
65 TAACCCTATCATAGGG
*
9189597 CAGATTGAAGA
1 TAGATTGAAGA
9189608 TAGGTTGCGA
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
77 1 0.01
78 58 0.77
79 6 0.08
80 10 0.13
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (80 bp):
TAGATTGAAGACAATCAAATCTCTTACCCCAATCATGGGGCAGATTGAGAACACACCAATCTCTT
AACCCTATCATAGGG
Found at i:9191346 original size:30 final size:30
Alignment explanation
Indices: 9191309--9191538 Score: 156
Period size: 30 Copynumber: 7.7 Consensus size: 30
9191299 TTGTTTTATT
9191309 TAAAAATTATATTTTAACCCTAAACTTTTC
1 TAAAAATTATATTTTAACCCTAAACTTTTC
* * * *
9191339 CAAAAATTCA-AATTTGACCTCCAAAC-TTTC
1 TAAAAATT-ATATTTTAACC-CTAAACTTTTC
* * **
9191369 TAAAATTTCAT-TTTTGACCCTCGA-TCTTTC
1 TAAAAATT-ATATTTTAACCCTAAACT-TTTC
* *
9191399 TAAAAATT-TCATTATTGACCTTAAACTTTT-
1 TAAAAATTAT-ATT-TTAACCCTAAACTTTTC
*
9191429 TAAAAATTTTATTTTAACCCCTAAAC-TTT-
1 TAAAAATTATATTTTAA-CCCTAAACTTTTC
9191458 TAAAAATTATATTTTAACCCTTAAAC-TTTC
1 TAAAAATTATATTTTAACCC-TAAACTTTTC
* * *
9191488 TAAGAATTACATTTTAACCCTTGAACTTTT-
1 TAAAAATTATATTTTAACCC-TAAACTTTTC
* *
9191518 TGAAAAATTACATTTTCACCC
1 T-AAAAATTATATTTTAACCC
9191539 CCAAAATTTT
Statistics
Matches: 163, Mismatches: 22, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
28 4 0.02
29 32 0.20
30 88 0.54
31 38 0.23
32 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (30 bp):
TAAAAATTATATTTTAACCCTAAACTTTTC
Found at i:9191480 original size:59 final size:58
Alignment explanation
Indices: 9191309--9191533 Score: 172
Period size: 59 Copynumber: 3.8 Consensus size: 58
9191299 TTGTTTTATT
* * *
9191309 TAAAAATTATATTTTAACCCTAAACTTTTCCAAAAATTCA-AATTTGACCTCCAAACTTTC
1 TAAAAATTACATTTTAACCCTAAACTTTT-CAAAAATT-ATATTTTGACCT-TAAACTTTC
* * ** *
9191369 T-AAAATTTCATTTTTGACCCTCGA-TCTTTCTAAAAATT-TCATTATTGACCTTAAACTTTT
1 TAAAAATTACA-TTTTAACCCTAAACT-TTTC-AAAAATTAT-ATT-TTGACCTTAAACTTTC
** *
9191429 TAAAAATTTTATTTTAACCCCTAAACTTTT-AAAAATTATATTTTAACCCTTAAACTTTC
1 TAAAAATTACATTTTAA-CCCTAAACTTTTCAAAAATTATATTTTGA-CCTTAAACTTTC
* * * *
9191488 TAAGAATTACATTTTAACCCTTGAACTTTTTGAAAAATTACATTTT
1 TAAAAATTACATTTTAACCC-TAAAC-TTTTCAAAAATTATATTTT
9191534 CACCCCCAAA
Statistics
Matches: 132, Mismatches: 19, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
58 6 0.05
59 48 0.36
60 41 0.31
61 36 0.27
62 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (58 bp):
TAAAAATTACATTTTAACCCTAAACTTTTCAAAAATTATATTTTGACCTTAAACTTTC
Found at i:9191555 original size:120 final size:120
Alignment explanation
Indices: 9191310--9191571 Score: 259
Period size: 120 Copynumber: 2.2 Consensus size: 120
9191300 TGTTTTATTT
* *
9191310 AAAAATTATATTTTAA-CCCTAAACTTTTCCAAAAATTCAAATTTGACCTCCAAACTTTCTAAAA
1 AAAAATTTTATTTTAACCCCTAAACTTTT-CAAAAATTCAAATTTAACCTCCAAACTTTCTAAAA
* * * * * ** * *
9191374 TTTCATTTTTGACCCTCGATCTTTCTAAAAATTTCATTATTGACCTTAAACTTTTT
65 TTACATTTTTAACCCTCGAACTTTCTAAAAATTACATTATTCACCCCAAAATTTTC
* *
9191430 AAAAATTTTATTTTAACCCCTAAACTTTT-AAAAATT-ATATTTTAACC-CTTAAACTTTCTAAG
1 AAAAATTTTATTTTAACCCCTAAACTTTTCAAAAATTCA-AATTTAACCTC-CAAACTTTCTAA-
* *
9191492 AATTACA-TTTTAACCCTTGAACTTTTTGAAAAATTACATT-TTCACCCCCAAAATTTTC
63 AATTACATTTTTAACCCTCGAACTTTCT-AAAAATTACATTATTCA-CCCCAAAATTTTC
* *
9191550 CAAAATTTTGA-TTTCACCCCTA
1 AAAAATTTT-ATTTTAACCCCTA
9191572 TTTTTTTTCC
Statistics
Matches: 118, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
118 2 0.02
119 44 0.37
120 59 0.50
121 13 0.11
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (120 bp):
AAAAATTTTATTTTAACCCCTAAACTTTTCAAAAATTCAAATTTAACCTCCAAACTTTCTAAAAT
TACATTTTTAACCCTCGAACTTTCTAAAAATTACATTATTCACCCCAAAATTTTC
Found at i:9203210 original size:17 final size:18
Alignment explanation
Indices: 9203174--9203211 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9203164 CTTTTATATT
*
9203174 TTTTATTTTGACTTTAAA
1 TTTTATTTTGAATTTAAA
*
9203192 TTTTA-TTTGAATTTTAA
1 TTTTATTTTGAATTTAAA
9203209 TTT
1 TTT
9203212 AATCCTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTATTTTGAATTTAAA
Found at i:9203320 original size:18 final size:18
Alignment explanation
Indices: 9203293--9203383 Score: 53
Period size: 18 Copynumber: 4.8 Consensus size: 18
9203283 AATTTTTTTA
*
9203293 TATTTATTTTTATTATTT
1 TATTTGTTTTTATTATTT
*
9203311 TATTTGTTTTGGA-TATTT
1 TATTTGTTTT-TATTATTT
*
9203329 AATTTGCATTTATTTATTATTT
1 TATTTG---TT-TTTATTATTT
*
9203351 TCATGTTGTTTAT-TTA-TT
1 T-AT-TTGTTTTTATTATTT
9203369 TATTTGTTATTTATT
1 TATTTGTT-TTTATT
9203384 TTATGTCACT
Statistics
Matches: 56, Mismatches: 7, Indels: 20
0.67 0.08 0.24
Matches are distributed among these distances:
16 5 0.09
17 4 0.07
18 24 0.43
19 4 0.07
20 2 0.04
21 5 0.09
22 7 0.12
23 2 0.04
24 3 0.05
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (18 bp):
TATTTGTTTTTATTATTT
Found at i:9203369 original size:19 final size:18
Alignment explanation
Indices: 9203341--9203389 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
9203331 TTTGCATTTA
9203341 TTTA-TTATTTTCATGTTG
1 TTTATTTATTTT-ATGTTG
9203359 TTTATTTA-TTTAT-TTG
1 TTTATTTATTTTATGTTG
9203375 -TTATTTATTTTATGT
1 TTTATTTATTTTATGT
9203390 CACTCTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 7 0.25
16 8 0.29
17 3 0.11
18 7 0.25
19 3 0.11
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (18 bp):
TTTATTTATTTTATGTTG
Found at i:9205732 original size:40 final size:40
Alignment explanation
Indices: 9205685--9205762 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
9205675 TACCTTTTTG
**
9205685 ACCTTTTCATTTATTATCCTTTTGGATAACATCCTTTTCA
1 ACCTTTTCATTTATTATCCTTCCGGATAACATCCTTTTCA
* *
9205725 ACCTTTTCATTTCTTATCCTTCCGGATAATATCCTTTT
1 ACCTTTTCATTTATTATCCTTCCGGATAACATCCTTTT
9205763 TAAAAATACC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.05, T:0.50
Consensus pattern (40 bp):
ACCTTTTCATTTATTATCCTTCCGGATAACATCCTTTTCA
Found at i:9205796 original size:29 final size:29
Alignment explanation
Indices: 9205764--9205819 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
9205754 TATCCTTTTT
*
9205764 AAAAATACCCATTCAGATATAACCTTTCC
1 AAAAACACCCATTCAGATATAACCTTTCC
** *
9205793 AAAAACATTCATTCGGATATAACCTTT
1 AAAAACACCCATTCAGATATAACCTTT
9205820 TCATAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAAACACCCATTCAGATATAACCTTTCC
Found at i:9206685 original size:13 final size:13
Alignment explanation
Indices: 9206669--9206695 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9206659 TTAAACATCA
9206669 TATTTTATTATTT
1 TATTTTATTATTT
9206682 TATTTTATTATTT
1 TATTTTATTATTT
9206695 T
1 T
9206696 CTTTAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TATTTTATTATTT
Found at i:9213733 original size:15 final size:16
Alignment explanation
Indices: 9213715--9213744 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9213705 GGATCTCCCA
9213715 GTCTTCATA-ATATCC
1 GTCTTCATAGATATCC
9213730 GTCTTCATAGATATC
1 GTCTTCATAGATATC
9213745 ATCGTCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (16 bp):
GTCTTCATAGATATCC
Done.