Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 46 of 189
Found at i:13402821 original size:84 final size:84
Alignment explanation
Indices: 13402671--13402829 Score: 216
Period size: 84 Copynumber: 1.9 Consensus size: 84
13402661 GACTCGTACA
* * *
13402671 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAAACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAAACAGGGT
13402736 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
* * *
13402755 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCTCAGAC-GT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAAACAG-
13402817 GGTCTTACACAAA
63 GGTCTTACACAAA
13402830 AACACATATC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 62 0.94
85 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAAACAGGGT
CTTACACAAATCAAATACG
Found at i:13404657 original size:24 final size:23
Alignment explanation
Indices: 13404629--13404673 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
13404619 GAATATATAT
13404629 CAAAAAAAATAAGAAGAATAGACC
1 CAAAAAAAAT-AGAAGAATAGACC
*
13404653 CAAAAAAAATATAAGAATAGA
1 CAAAAAAAATAGAAGAATAGA
13404674 AAGGAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (23 bp):
CAAAAAAAATAGAAGAATAGACC
Found at i:13404749 original size:43 final size:43
Alignment explanation
Indices: 13404691--13404780 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
13404681 ATGAAAAATC
13404691 TTTTAGAATCACCTCTATTTTTGTATTCTATTTTTTTAACCTT
1 TTTTAGAATCACCTCTATTTTTGTATTCTATTTTTTTAACCTT
*
13404734 TTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTTAACCTT
1 TTTTAGAATCACCTCTATTTTTGTATTCTATTTTTTTAACCTT
13404777 TTTT
1 TTTT
13404781 CATACAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.60
Consensus pattern (43 bp):
TTTTAGAATCACCTCTATTTTTGTATTCTATTTTTTTAACCTT
Found at i:13408322 original size:21 final size:21
Alignment explanation
Indices: 13408298--13408337 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13408288 GCATATAAAT
13408298 TATAACTTATAATTATTTTTG
1 TATAACTTATAATTATTTTTG
* *
13408319 TATAATTTTTAATTATTTT
1 TATAACTTATAATTATTTT
13408338 CCAAAGTCAG
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:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TATAACTTATAATTATTTTTG
Found at i:13408909 original size:101 final size:101
Alignment explanation
Indices: 13408768--13409005 Score: 293
Period size: 101 Copynumber: 2.4 Consensus size: 101
13408758 TATTATCATT
* * * * *
13408768 CGATACATGTAGTAGTCTTCACATAGTACTACACATGTGATC-AAACTTTCCGGT-T-CACGTAG
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTATGCA--TAG
*
13408830 TAGCCTGCACATAGTACTACACACGTGACCATTAATATC
64 TAGCCTGCACATAGTACTACACACGCGACCATTAAT-TC
* * *
13408869 CGATACACGTAGTAGCCTACACATAATACTACACACGTGATCGAAGCTATCTGGTATGCATAGTA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTATGCATAGTA
* * * *
13408934 GCCTGTACATAGTACTACACATGCGACCTTTCATTC
66 GCCTGCACATAGTACTACACACGCGACCATTAATTC
* *
13408970 TGGTACACGTAGTAGCCTACACATAGTACTACACAC
1 CGATACACGTAGTAGCCTACACATAGTACTACACAC
13409006 ATGACCATCA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
101 72 0.61
102 43 0.36
103 1 0.01
104 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTATGCATAGTA
GCCTGCACATAGTACTACACACGCGACCATTAATTC
Found at i:13409032 original size:101 final size:97
Alignment explanation
Indices: 13408763--13409033 Score: 249
Period size: 101 Copynumber: 2.7 Consensus size: 97
13408753 TTAACTATTA
* * * * * * *
13408763 TCATTCGATACATGTAGTAGTCTTCACATAGTACTACACATGTGATCAAACTTTCCGGTTCACGT
1 TCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCAACTTTCC-TTTCACAT
*
13408828 AGTAGCCTGCACATAGTACTACACACGTGACCAT
64 AGTAGCCTGCACATAGTACTACACACGCGACCAT
* * * *
13408862 TAATATCCGATACACGTAGTAGCCTACACATAATACTACACACGTGATCGAAGCTAT-CTGGTAT
1 TCAT-T-CGATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCAA-CTTTCCT--T-T
* * * *
13408926 -GCATAGTAGCCTGTACATAGTACTACACATGCGACCTT
59 CACATAGTAGCCTGCACATAGTACTACACACGCGACCAT
* *
13408964 TCATTCTGGTACACGTAGTAGCCTACACATAGTACTACACACATGACCATCACTTTCACTTTCAC
1 TCATTC-GATACACGTAGTAGCCTACACATAGTACTACACACGTGACCA--ACTTTC-CTTTCAC
13409029 ATAGT
62 ATAGT
13409034 GACCTACATA
Statistics
Matches: 138, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
99 3 0.02
100 5 0.04
101 87 0.63
102 40 0.29
103 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCAACTTTCCTTTCACATAG
TAGCCTGCACATAGTACTACACACGCGACCAT
Found at i:13411219 original size:20 final size:21
Alignment explanation
Indices: 13411194--13411234 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
13411184 GGACTGAATT
13411194 GAATTT-AAAAACAAAAAAAC
1 GAATTTAAAAAACAAAAAAAC
13411214 GAATTTAGAAAAACAAAAAAA
1 GAATTTA-AAAAACAAAAAAA
13411235 AGGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
22 13 0.68
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.15
Consensus pattern (21 bp):
GAATTTAAAAAACAAAAAAAC
Found at i:13412933 original size:50 final size:50
Alignment explanation
Indices: 13412871--13413330 Score: 151
Period size: 50 Copynumber: 9.3 Consensus size: 50
13412861 GATCTGTAAT
* *
13412871 CTTCAATTTGTTCAACTACAATGTTGGGGAAACTAGATCCGCCATCGTAG
1 CTTCAATCTGTTCAACTACAATGTTAGGGAAACTAGATCCGCCATCGTAG
* ** ** * * * * *
13412921 CTTCAATCTGTTCCACCGCACCGTCA-GGAAAGTAAGATCCGCCTTTGTGG
1 CTTCAATCTGTTCAACTACAATGTTAGGGAAACT-AGATCCGCCATCGTAG
* * * * * * *
13412971 CTTCAATCTTTTTAATTACAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTACAATGTTAGGGAAACTAGATCCGCCATCGTAG
* * * * * * * * * * *
13413021 CTTCAATCTGTTCCACTGCACTGCTA-AGAAAGTAAAATCCGTCGTTGTGG
1 CTTCAATCTGTTCAACTACAATGTTAGGGAAACT-AGATCCGCCATCGTAG
* * * * * * * * *
13413071 CTTCAATCT-TTTAATTGCAATATCAGGGAAACCAGATCTGTCGTCGTAG
1 CTTCAATCTGTTCAACTACAATGTTAGGGAAACTAGATCCGCCATCGTAG
* ** * * * * * * * *
13413120 TTTCAATCTGTTCCGCTGCACTGCTAAGG-AAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTACAATGTTAGGGAAACT-AGATCCGCCATCGTAG
* * * * * * * *
13413170 CTTCAATCT-TTTAATTACAATATCAGGGAAACCAGATCTGCCGTCATAG
1 CTTCAATCTGTTCAACTACAATGTTAGGGAAACTAGATCCGCCATCGTAG
* ** * * * * * * *
13413219 CTTCAATATGTTCCGCTGCACTGCTAAGG-AAGTAAGATCCGCCATTGTGG
1 CTTCAATCTGTTCAACTACAATGTTAGGGAAACT-AGATCCGCCATCGTAG
* * * * * * * *
13413269 CTTCAATCT-TTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTAG
1 CTTCAATCTGTTCAACTACAATGTTAGGGAAACTAGATCCGCCATCGTAG
13413318 CTTCAATCTGTTC
1 CTTCAATCTGTTC
13413331 CGCTGCACTG
Statistics
Matches: 275, Mismatches: 124, Indels: 22
0.65 0.29 0.05
Matches are distributed among these distances:
49 103 0.37
50 167 0.61
51 5 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTACAATGTTAGGGAAACTAGATCCGCCATCGTAG
Found at i:13413125 original size:49 final size:49
Alignment explanation
Indices: 13412970--13413623 Score: 316
Period size: 50 Copynumber: 13.2 Consensus size: 49
13412960 CGCCTTTGTG
* *
13412970 GCTTCAATCTTTTTAATTACAATATCAGGGAAACCAGATCCGCCGTCGTA
1 GCTTCAATC-TTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
** * * * * ** * * * * *
13413020 GCTTCAATCTGTTCCACTGCACT-GCTA-AGAAAGTAAAATCCGTCGTTGTG
1 GCTTCAATCT-TTTAATTGCAATATC-AGGGAAA-CCAGATCTGCCGTCGTA
*
13413070 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGTCGTCGTA
1 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
* **** * * * *** * * *
13413119 GTTTCAATCTGTTCCGCTGCACT-GCTAAGGAAGTAAGATCCGCCGTTGTG
1 GCTTCAATCT-TTTAATTGCAATATC-AGGGAAACCAGATCTGCCGTCGTA
* *
13413169 GCTTCAATCTTTTAATTACAATATCAGGGAAACCAGATCTGCCGTCATA
1 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
* **** * * * *** * * * *
13413218 GCTTCAATATGTTCCGCTGCACT-GCTAAGGAAGTAAGATCCGCCATTGTG
1 GCTTCAATCT-TTTAATTGCAATATC-AGGGAAACCAGATCTGCCGTCGTA
13413268 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
1 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
**** * * * *** * *
13413317 GCTTCAATCTGTTCCGCTGCACT-GCTAAGGAAGTAAGATCTGCCGTTGTG
1 GCTTCAATCT-TTTAATTGCAATATC-AGGGAAACCAGATCTGCCGTCGTA
*
13413367 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGTCGTCGTA
1 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
**** * * * *** * *
13413416 GCTTCAATCTGTTCCGCTGCACT-GCTAAGGAAGTAAGAT-TCGCCGTTGTG
1 GCTTCAATCT-TTTAATTGCAATATC-AGGGAAACCAGATCT-GCCGTCGTA
* * *
13413466 GCTTCAGTCTTTTAATTGTAATATCAGGGAAACCAGATCTACCGTCGTA
1 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
**** * * * *** * * * *
13413515 GCTTCAATCTGTTCCGCTGCACT-GCTAAGGAAGTAAGATCCGCCATTGTG
1 GCTTCAATCT-TTTAATTGCAATATC-AGGGAAACCAGATCTGCCGTCGTA
13413565 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
1 GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
13413614 GCTTCAATCT
1 GCTTCAATCT
13413624 GTTCCGCTGC
Statistics
Matches: 410, Mismatches: 172, Indels: 45
0.65 0.27 0.07
Matches are distributed among these distances:
49 202 0.49
50 208 0.51
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (49 bp):
GCTTCAATCTTTTAATTGCAATATCAGGGAAACCAGATCTGCCGTCGTA
Found at i:13413139 original size:99 final size:99
Alignment explanation
Indices: 13412897--13413676 Score: 1292
Period size: 99 Copynumber: 7.9 Consensus size: 99
13412887 TACAATGTTG
* * * * * * *
13412897 GGGAAACTAGATCCGCCATCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGAAAGTAAGATCC
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGG-AAGTAAGATCC
* *
13412961 GCCTTTGTGGCTTCAATCTTTTTAATTACAATATCA
65 GCCGTTGTGGCTTCAATC-TTTTAATTGCAATATCA
* * * *
13412997 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGAAAGTAAAATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
*
13413062 TCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* *
13413096 GGGAAACCAGATCTGTCGTCGTAGTTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
*
13413161 CCGTTGTGGCTTCAATCTTTTAATTACAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* *
13413195 GGGAAACCAGATCTGCCGTCATAGCTTCAATATGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
*
13413260 CCATTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
*
13413294 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
13413359 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
* *
13413393 GGGAAACCAGATCTGTCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATTCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
* *
13413458 CCGTTGTGGCTTCAGTCTTTTAATTGTAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
*
13413492 GGGAAACCAGATCTACCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
*
13413557 CCATTGTGGCTTCAATCTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
13413591 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
13413656 CCGTTGTGGCTTCAATCTTTT
66 CCGTTGTGGCTTCAATCTTTT
13413677 TACTTTGCAA
Statistics
Matches: 638, Mismatches: 41, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
99 566 0.89
100 69 0.11
101 3 0.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (99 bp):
GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTAATTGCAATATCA
Found at i:13425591 original size:20 final size:21
Alignment explanation
Indices: 13425566--13425606 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
13425556 GGACTGAATT
13425566 GAATTT-AAAAACAAAAAAAC
1 GAATTTAAAAAACAAAAAAAC
13425586 GAATTTAGAAAAACAAAAAAA
1 GAATTTA-AAAAACAAAAAAA
13425607 AGGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
22 13 0.68
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.15
Consensus pattern (21 bp):
GAATTTAAAAAACAAAAAAAC
Found at i:13436431 original size:22 final size:23
Alignment explanation
Indices: 13436384--13436429 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
13436374 ATCCAAATTC
13436384 ATTTGATATATGTTTTTTTTAGTA
1 ATTTGATATATGTTTTTTTTA-TA
* *
13436408 ATTTTATATATTTTTATTTTTA
1 ATTTGATATATGTTT-TTTTTA
13436430 ATAAAACATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (23 bp):
ATTTGATATATGTTTTTTTTATA
Found at i:13446231 original size:15 final size:16
Alignment explanation
Indices: 13446194--13446232 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
13446184 CATTATATAG
13446194 AAGTG-AAGTGATACA
1 AAGTGAAAGTGATACA
13446209 AAGTGAAAG-GATACA
1 AAGTGAAAGTGATACA
13446224 AAGTGAAAG
1 AAGTGAAAG
13446233 AGGGTTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.51, C:0.05, G:0.28, T:0.15
Consensus pattern (16 bp):
AAGTGAAAGTGATACA
Found at i:13447130 original size:15 final size:15
Alignment explanation
Indices: 13447104--13447136 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
13447094 CTGATATACG
13447104 AAAAAGGAAAAAGAAA
1 AAAAAGGAAAAA-AAA
13447120 AAAAAGGAAAAAAAA
1 AAAAAGGAAAAAAAA
13447135 AA
1 AA
13447137 TTTGGGTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAGGAAAAAAAA
Found at i:13447354 original size:117 final size:113
Alignment explanation
Indices: 13447119--13447687 Score: 802
Period size: 117 Copynumber: 5.1 Consensus size: 113
13447109 GGAAAAAGAA
* * * * *
13447119 AAAAAAGGAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCAGCACTCAATAGTAAAAAAAAA
1 AAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAAT
13447184 TTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACG
66 TTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACG
* * *
13447232 AAAAAAGTAATAAAAAAATTTTGGGTGTTGGCCTGTCAATGGCCAGCACCCAACAGTAAAAAAAA
1 AAAAAAGTAA-AAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGT-AAAAAAA
* *
13447297 ATTTTTGAATTTTTTCTTTTTTTTTTGTGTCAGAATCAGATATAAAATATAAG
64 A-TTTTGAATTTTTTC-TTTTTTTTCGTGTCAGAATCAGATAT-AAATATACG
13447350 AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAA
1 -AAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAA
* *
13447415 TTTTGAATTTGTTCTTTTTTTTCGTGTCAAAATCAGATATAAATATACG
65 TTTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACG
** *
13447464 AAAAAAGTTAAAAAATAATTTTTTTGGGTGCTGGTCTGTCAATGGCCGGCACCCAACAGTAAAAA
1 AAAAAAG-TAAAAAA-AA--AATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAA
13447529 AAATTTTGAA--------TTTTTTTCGTGTCAGAATCAGATATAAATATACG
62 AAATTTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACG
* *
13447573 AAAAAA-T-TAAAAAAAATTTGGGTGCTGGCCTGTCCATGGCCGGCACCCAACAGTAAAAAAAAT
1 AAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAAT
*
13447636 TTTGAA-TTTTTC-TTTTTTTCGTGTTAGAATCAGATATAAATATACG
66 TTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACG
13447682 AAAAAA
1 AAAAAA
13447688 AATGTCAATG
Statistics
Matches: 415, Mismatches: 25, Indels: 36
0.87 0.05 0.08
Matches are distributed among these distances:
103 51 0.12
105 2 0.00
106 4 0.01
107 1 0.00
109 78 0.19
113 16 0.04
114 57 0.14
115 34 0.08
116 26 0.06
117 85 0.20
118 51 0.12
119 10 0.02
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (113 bp):
AAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAAT
TTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACG
Found at i:13447369 original size:232 final size:222
Alignment explanation
Indices: 13447118--13447687 Score: 814
Period size: 232 Copynumber: 2.5 Consensus size: 222
13447108 AGGAAAAAGA
* * * *
13447118 AAAAAAAGGAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCAGCACTCAATAGTAAAAAAAA
1 AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAA
*
13447183 ATTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAG-TAATAAAA
66 TTTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTTAA-AAAA
*
13447247 -AA-ATTTTGGGTGTTGGCCTGTCAATGGCCAGCACCCAACAGTAAAAAAAAATTTTTGAATTTT
130 TAATATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAACAGT-AAAAAAAA-TTTTGAA----
*
13447310 TTCTTTTTTTTTTGTGTCAGAATCAGATATAAAATATAAG
189 -----TTTTTTTCGTGTCAGAATCAGATAT-AAATATAAG
13447350 AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAA
1 AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAA
* *
13447415 TTTTGAATTTGTTCTTTTTTTTCGTGTCAAAATCAGATATAAATATACGAAAAAAGTTAAAAAAT
66 TTTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTTAAAAAAT
* * *
13447480 AATTTTTTTGGGTGCTGGTCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTTGAATTTTTT
131 AA-TATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAACAGTAAAAAAAATTTTGAATTTTTT
*
13447545 TCGTGTCAGAATCAGATATAAATATACG
195 TCGTGTCAGAATCAGATATAAATATAAG
* *
13447573 -AAAAAA-T-TAAAAAAAATTTGGGTGCTGGCCTGTCCATGGCCGGCACCCAACAGTAAAAAAAA
1 AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAA
*
13447635 TTTTGAA-TTTTTC-TTTTTTTCGTGTTAGAATCAGATATAAATATACGAAAAAA
66 TTTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAA
13447688 AATGTCAATG
Statistics
Matches: 316, Mismatches: 18, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
218 38 0.12
219 5 0.02
220 60 0.19
221 1 0.00
222 6 0.02
223 8 0.03
224 24 0.08
232 118 0.37
233 12 0.04
234 8 0.03
235 36 0.11
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (222 bp):
AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAA
TTTTGAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTTAAAAAAT
AATATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAACAGTAAAAAAAATTTTGAATTTTTTT
CGTGTCAGAATCAGATATAAATATAAG
Found at i:13447777 original size:87 final size:87
Alignment explanation
Indices: 13447603--13447776 Score: 303
Period size: 88 Copynumber: 2.0 Consensus size: 87
13447593 GGTGCTGGCC
* * *
13447603 TGTCCATGGCCGGCACCCAACAGTAAAAAAAATTTTGAATTTTTCTTTTTTTCGTGTTAGAATCA
1 TGTCAATGGCCGGCACCCAACAATAAAAAAAATTTTGAATTTTTCTTTTTTTCGTGTCAGAATCA
13447668 GATATAAATATACGAAAAAAAA
66 GATATAAATATACGAAAAAAAA
*
13447690 TGTCAATGGCCGGCACCCAATAATAAAAAAAATTTTGAATTTTTTCTTTTTTTCGTGTCAGAATC
1 TGTCAATGGCCGGCACCCAACAATAAAAAAAATTTTGAA-TTTTTCTTTTTTTCGTGTCAGAATC
13447755 AGATATAAATATACGAAAAAAA
65 AGATATAAATATACGAAAAAAA
13447777 TTCCTTTTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 36 0.44
88 46 0.56
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (87 bp):
TGTCAATGGCCGGCACCCAACAATAAAAAAAATTTTGAATTTTTCTTTTTTTCGTGTCAGAATCA
GATATAAATATACGAAAAAAAA
Found at i:13447981 original size:115 final size:114
Alignment explanation
Indices: 13447781--13448239 Score: 605
Period size: 115 Copynumber: 4.1 Consensus size: 114
13447771 AAAAAATTCC
****** *
13447781 TTTTTTCGTATATTTATATCTGATTCTGACACG--AAAAAAAGAAAAAATTCAATTTTTTTTTAT
1 TTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAGAAAAAATTCAAAAAAAATTTAC
13447844 TGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTAT
66 TGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTAT
* * * *
13447893 TTTTTTCATATATTTATATCTAATTCTGGCATGAAAAAAAAAGAAAAAATTCAAAAAAAAATTTA
1 TTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAGAAAAAATTC-AAAAAAAATTTA
* *** *
13447958 CTGTTGGGTGCCGGCCATTGACAGACCAGCACCCAAAAATTTTTTTTTTAC
65 CTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA-AAATTTTTTAT
13448009 TTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAAGAAAAAATTCAAAAAAAAAATT
1 TTTTTTCGTATATTTATATCTGATTCTGACACG-AAAAAAAAAGAAAAAATTC--AAAAAAAATT
* *
13448074 TACTGTTGGGTGCCGGCCATTGACAGGCTAGCACCC-AAAAAATTTTTTTA-
63 TACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTAT
*
13448124 TTTTTTCGTATATTTATATCTGATTCT-A-AC-ACAAAAAAAGAAAAAATT-AAAAAAAA-TTAC
1 TTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAGAAAAAATTCAAAAAAAATTTAC
* *
13448184 TGTTGGGTGCTGGCCATTGACAGGCCAGCACCCAAAAAAAAATTTCTT-T
66 TGTTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAAAAAATTTTTTAT
13448233 TTTTTTC
1 TTTTTTC
13448240 TTTTTCCTTT
Statistics
Matches: 309, Mismatches: 29, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
107 35 0.11
108 8 0.03
109 18 0.06
111 17 0.06
112 29 0.09
113 2 0.01
114 18 0.06
115 70 0.23
116 44 0.14
117 23 0.07
118 45 0.15
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (114 bp):
TTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAGAAAAAATTCAAAAAAAATTTAC
TGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTAT
Found at i:13448121 original size:107 final size:101
Alignment explanation
Indices: 13448009--13448222 Score: 275
Period size: 107 Copynumber: 2.0 Consensus size: 101
13447999 TTTTTTTTAC
13448009 TTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAAAGAAAAAATTCAAAAAAAAAATT
1 TTTTTTCGTATATTTATATCTGATTCT-A-AC--AAAAAAAAAGAAAAAATT---AAAAAAAA-T
*
13448074 TACTGTTGGGTGCCGGCCATTGACAGGCTAGCACCCAAAAAATTTTTTTA
58 TACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA------TA
*
13448124 TTTTTTCGTATATTTATATCTGATTCTAACACAAAAAAAGAAAAAATTAAAAAAAATTACTGTTG
1 TTTTTTCGTATATTTATATCTGATTCTAACAAAAAAAAAGAAAAAATTAAAAAAAATTACTGTTG
*
13448189 GGTGCTGGCCATTGACAGGCCAGCACCCAAAAAA
66 GGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
13448223 AAATTTCTTT
Statistics
Matches: 96, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
107 41 0.43
108 8 0.08
111 17 0.18
113 2 0.02
114 1 0.01
115 27 0.28
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (101 bp):
TTTTTTCGTATATTTATATCTGATTCTAACAAAAAAAAAGAAAAAATTAAAAAAAATTACTGTTG
GGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATA
Found at i:13449568 original size:24 final size:25
Alignment explanation
Indices: 13449505--13449601 Score: 76
Period size: 26 Copynumber: 4.0 Consensus size: 25
13449495 AAAGGTTTCA
*
13449505 AAATAAACAAA-A-AAAA-AATTTG
1 AAATAAATAAATATAAAACAATTTG
* *
13449527 ACATAAATAAAATATAAAACAGTTTG
1 AAATAAAT-AAATATAAAACAATTTG
* * *
13449553 AAATAAAT-AATTTAAAGCAATTTA
1 AAATAAATAAATATAAAACAATTTG
* *
13449577 AAATAAACAATACATAAAACAATTT
1 AAATAAATAA-ATATAAAACAATTT
13449602 AAAAGAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
22 6 0.11
23 3 0.05
24 20 0.35
25 5 0.09
26 23 0.40
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (25 bp):
AAATAAATAAATATAAAACAATTTG
Found at i:13449621 original size:26 final size:26
Alignment explanation
Indices: 13449540--13449605 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 26
13449530 TAAATAAAAT
* * *
13449540 ATAAAACAGTTTGAAATAAATAAT--
1 ATAAAACAATTTAAAATAAACAATAC
* *
13449564 TTAAAGCAATTTAAAATAAACAATAC
1 ATAAAACAATTTAAAATAAACAATAC
13449590 ATAAAACAATTTAAAA
1 ATAAAACAATTTAAAA
13449606 GAATAATATA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
24 19 0.58
26 14 0.42
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.27
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAACAATAC
Found at i:13449750 original size:25 final size:25
Alignment explanation
Indices: 13449721--13449785 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
13449711 ATAATGCCCA
13449721 AAATAATATAAAAACAGTTTAAGAT
1 AAATAATATAAAAACAGTTTAAGAT
13449746 AAATAATATAAAAACAGTTTAAGAT
1 AAATAATATAAAAACAGTTTAAGAT
13449771 AAATAATATATAAAA
1 AAATAATATA-AAAA
13449786 TTTAAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (25 bp):
AAATAATATAAAAACAGTTTAAGAT
Found at i:13463623 original size:30 final size:30
Alignment explanation
Indices: 13463582--13463647 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
13463572 ATGTATACAT
*
13463582 TAATAAACAAATGTAA-AATTTCAAATTAA
1 TAATAAACAAATGCAATAATTTCAAATTAA
* *
13463611 TAATAATACAAATGCAATATTTTGAAATTAA
1 TAATAA-ACAAATGCAATAATTTCAAATTAA
13463642 -AATAAA
1 TAATAAA
13463648 AATATAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.22
30 14 0.44
31 11 0.34
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.32
Consensus pattern (30 bp):
TAATAAACAAATGCAATAATTTCAAATTAA
Found at i:13467317 original size:29 final size:29
Alignment explanation
Indices: 13467284--13467344 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
13467274 GTACTGTGAT
* *
13467284 ATTTA-AAAAGATCATTTTTTAGTATACAA
1 ATTTATAAAA-ATAATTTTTAAGTATACAA
* *
13467313 ATTTATTAAAATAATTTTTAAGTATACCA
1 ATTTATAAAAATAATTTTTAAGTATACAA
13467342 ATT
1 ATT
13467345 ATTGTTGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (29 bp):
ATTTATAAAAATAATTTTTAAGTATACAA
Found at i:13469871 original size:46 final size:46
Alignment explanation
Indices: 13469804--13470084 Score: 320
Period size: 46 Copynumber: 6.6 Consensus size: 46
13469794 TTTGAGTACT
*
13469804 TCTGATCAA-TAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGT-GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13469850 TCTGATCAAGTGACAATGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13469886 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13469932 TCTGATTAAGTGACAAAGTGAT-A-----AG---TA-CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13469968 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
13470014 TCTAATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
13470060 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
13470085 ATCATATGTA
Statistics
Matches: 201, Mismatches: 13, Indels: 44
0.78 0.05 0.17
Matches are distributed among these distances:
36 59 0.29
37 5 0.02
40 4 0.02
42 4 0.02
44 12 0.06
45 10 0.05
46 106 0.53
47 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:13469881 original size:36 final size:36
Alignment explanation
Indices: 13469840--13469994 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
13469830 GGTAGCTTTA
* *
13469840 GCTACACTTATCTGATCAAGTGACAATGTGATAAGT
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
13469876 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGAGACAAAGTGAT-A-----AG---T
* *
13469921 AGCTACACTTATCTGATTAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
13469958 ACTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
13469994 G
1 G
13469995 GTAGCTTTAG
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 63 0.62
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 30 0.30
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:13469943 original size:82 final size:82
Alignment explanation
Indices: 13469804--13470040 Score: 420
Period size: 82 Copynumber: 2.9 Consensus size: 82
13469794 TTTGAGTACT
* * *
13469804 TCTGATCAATAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAATGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
13469869 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
13469886 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
13469951 GATAAGTACTACACTTA
66 GATAAGTGCTACACTTA
*
13469968 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
13470033 GATAAGTG
66 GATAAGTG
13470041 GTAGCCTTAG
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 147 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:13472304 original size:59 final size:59
Alignment explanation
Indices: 13472195--13472306 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
13472185 TAAAATTTTA
* * *
13472195 TTTTTAATTATTTAATTGAATTTAAAAATTATCATAAACTATATATTATTTATCTTAAC
1 TTTTTAATTATTTAATTAAATTTAAAAATTAACATAAACTAGATATTATTTATCTTAAC
* * *
13472254 TTTTTTATTATTTAATTTAAATTT-AAATTTAAGAT-AACTAGATATATATTTAT
1 TTTTTAATTATTTAA-TTAAATTTAAAAATTAACATAAACTAGATAT-TATTTAT
13472307 TAGTTTTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 9 0.20
59 29 0.64
60 7 0.16
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (59 bp):
TTTTTAATTATTTAATTAAATTTAAAAATTAACATAAACTAGATATTATTTATCTTAAC
Found at i:13479859 original size:16 final size:16
Alignment explanation
Indices: 13479838--13479880 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
13479828 GTACATTGAC
13479838 ATGGAATAGA-TGAGGA
1 ATGGAATAGAGTGA-GA
13479854 ATGGAATTA-AGTGAGA
1 ATGGAA-TAGAGTGAGA
13479870 ATGGAATAGAG
1 ATGGAATAGAG
13479881 AATAGAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.08
16 17 0.71
17 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (16 bp):
ATGGAATAGAGTGAGA
Found at i:13480853 original size:18 final size:18
Alignment explanation
Indices: 13480832--13480869 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
13480822 CTTCTACCCT
13480832 TTCCCCTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
*
13480850 TTCCCTTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
13480868 TT
1 TT
13480870 GGATTGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (18 bp):
TTCCCCTTTCCCTTCCCC
Found at i:13480963 original size:25 final size:25
Alignment explanation
Indices: 13480929--13480978 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13480919 CAGGTAAGGC
*
13480929 TCCTTCTTCTTCTTCCGTTTTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
13480954 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
13480979 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.30, G:0.04, T:0.62
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:13484345 original size:15 final size:15
Alignment explanation
Indices: 13484306--13484358 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
13484296 GAACATTTGG
13484306 AATTTAATTAGATAAAA
1 AATTT-ATTA-ATAAAA
13484323 AACTTTTATTAATAAAA
1 AA--TTTATTAATAAAA
*
13484340 AATTTATTTATAAATA
1 AATTTATTAATAAA-A
13484356 AAT
1 AAT
13484359 CATTGCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 10 0.31
18 4 0.12
19 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTTATTAATAAAA
Found at i:13484432 original size:22 final size:20
Alignment explanation
Indices: 13484389--13484427 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13484379 TAATTTAAAA
13484389 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
13484409 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
13484428 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:13484551 original size:20 final size:20
Alignment explanation
Indices: 13484526--13484565 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13484516 AATATTTTCC
*
13484526 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
13484546 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
13484566 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:13484571 original size:34 final size:35
Alignment explanation
Indices: 13484514--13484580 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
13484504 CAAACACTAG
*
13484514 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
13484549 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
13484581 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:13484572 original size:14 final size:14
Alignment explanation
Indices: 13484549--13484588 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13484539 ACAGAAAAGT
*
13484549 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
13484563 AAATCATTTTACGG
1 AAAACATTTTACAG
13484577 AAAACATTTTAC
1 AAAACATTTTAC
13484589 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:13487498 original size:3 final size:3
Alignment explanation
Indices: 13487490--13487517 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13487480 TGTCGAGGTT
13487490 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13487518 AATATAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13490170 original size:15 final size:17
Alignment explanation
Indices: 13490142--13490175 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
13490132 CTCCTCTTCC
13490142 AACCTCATCTACCCCAA
1 AACCTCATCTACCCCAA
13490159 AACC-CATC-ACCCCAA
1 AACCTCATCTACCCCAA
13490174 AA
1 AA
13490176 TATTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 4 0.24
17 4 0.24
ACGTcount: A:0.41, C:0.47, G:0.00, T:0.12
Consensus pattern (17 bp):
AACCTCATCTACCCCAA
Found at i:13498586 original size:20 final size:20
Alignment explanation
Indices: 13498522--13498586 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
13498512 TACAAAATAA
*
13498522 TTCAAAATAATTTTCAAAAT
1 TTCAAAATAATTTTAAAAAT
* * *
13498542 TTTAAAATGATTTTTAAAA-
1 TTCAAAATAATTTTAAAAAT
13498561 TTCAAAAT-ATTTATAAAAAT
1 TTCAAAATAATTT-TAAAAAT
13498581 TTCAAA
1 TTCAAA
13498587 TTTTATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 22 0.58
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (20 bp):
TTCAAAATAATTTTAAAAAT
Found at i:13498612 original size:9 final size:9
Alignment explanation
Indices: 13498598--13498640 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
13498588 TTTATATTTA
13498598 AAAAAATAT
1 AAAAAATAT
13498607 AAAAAATAT
1 AAAAAATAT
* *
13498616 AAAATATTCT
1 AAAA-AATAT
13498626 AAAAATATAT
1 AAAAA-ATAT
13498636 AAAAA
1 AAAAA
13498641 GTTAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 14 0.50
10 14 0.50
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAAATAT
Found at i:13498622 original size:28 final size:27
Alignment explanation
Indices: 13498591--13498655 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 27
13498581 TTCAAATTTT
13498591 ATATTTAAAAAAATATAAAAAATATAAA
1 ATATTTAAAAAAATATAAAAAAT-TAAA
* *
13498619 ATATTCTAAAAATATATAAAAAGTTAAA
1 ATATT-TAAAAAAATATAAAAAATTAAA
13498647 AT-TTTAAAA
1 ATATTTAAAA
13498656 CTTTTCTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 5 0.15
27 2 0.06
28 11 0.32
29 16 0.47
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
ATATTTAAAAAAATATAAAAAATTAAA
Found at i:13498646 original size:18 final size:19
Alignment explanation
Indices: 13498606--13498647 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13498596 TAAAAAAATA
*
13498606 TAAAAAATATAAAATATTC
1 TAAAAAATATAAAATAGTC
13498625 TAAAAATATATAAAA-AGT-
1 TAAAAA-ATATAAAATAGTC
13498643 TAAAA
1 TAAAA
13498648 TTTTAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAATATAAAATAGTC
Found at i:13500110 original size:10 final size:10
Alignment explanation
Indices: 13500095--13500122 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
13500085 TTTTCTACAC
13500095 AAAGATGGAA
1 AAAGATGGAA
13500105 AAAGATGGAA
1 AAAGATGGAA
13500115 AAAGATGG
1 AAAGATGG
13500123 CCACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.32, T:0.11
Consensus pattern (10 bp):
AAAGATGGAA
Found at i:13503487 original size:5 final size:5
Alignment explanation
Indices: 13503479--13503513 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
13503469 AGGTTTTCAT
*
13503479 TTTTC TTTTC TCTTC TTTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
13503514 TTGTTGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:13503499 original size:16 final size:16
Alignment explanation
Indices: 13503478--13503514 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
13503468 TAGGTTTTCA
13503478 TTTTTCTTTTCTCTTC
1 TTTTTCTTTTCTCTTC
*
13503494 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTCTCTTC
13503510 TTTTT
1 TTTTT
13503515 TGTTGTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCTTTTCTCTTC
Found at i:13505753 original size:76 final size:77
Alignment explanation
Indices: 13505658--13505805 Score: 217
Period size: 76 Copynumber: 1.9 Consensus size: 77
13505648 ACTTTCTTAG
* * * *
13505658 TAGCAATGTAACTAGTAAATGACATTGTAATAAATCTGAATTTTAAC-AAAATAATTTTAACAAT
1 TAGCAATGTAACTAATAAATGACATTCTAATAAACCTAAATTTTAACAAAAATAATTTTAACAAT
*
13505722 GTTAATAATTGA
66 GTAAATAATTGA
* * *
13505734 TAGCAATGTAACTAATAAATGGCGTTCTAATGAACCTAAATTTTAACAAAAATAATTTTAACAAT
1 TAGCAATGTAACTAATAAATGACATTCTAATAAACCTAAATTTTAACAAAAATAATTTTAACAAT
13505799 GTAAATA
66 GTAAATA
13505806 GTTGGACTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
76 40 0.63
77 23 0.37
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (77 bp):
TAGCAATGTAACTAATAAATGACATTCTAATAAACCTAAATTTTAACAAAAATAATTTTAACAAT
GTAAATAATTGA
Found at i:13518135 original size:6 final size:6
Alignment explanation
Indices: 13518117--13518153 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
13518107 CATAATGGAA
13518117 TAAAAC TTAAAAC TAAAAC TAAAAC TAAAAC TAAAAC
1 TAAAAC -TAAAAC TAAAAC TAAAAC TAAAAC TAAAAC
13518154 CATAATTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAC
Found at i:13519231 original size:11 final size:11
Alignment explanation
Indices: 13519212--13519253 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
13519202 TTTAATTTTG
*
13519212 TAATTATTATT
1 TAATAATTATT
13519223 TAATAATTATT
1 TAATAATTATT
*
13519234 T-ATTATTATT
1 TAATAATTATT
13519244 TAATAATTAT
1 TAATAATTAT
13519254 ATTTCCAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TAATAATTATT
Found at i:13519240 original size:21 final size:22
Alignment explanation
Indices: 13519190--13519253 Score: 91
Period size: 21 Copynumber: 3.1 Consensus size: 22
13519180 AACATTTGAG
13519190 ATGTTATTATTATTTAAT--TT
1 ATGTTATTATTATTTAATAATT
*
13519210 -TGTAATTATTATTTAATAATT
1 ATGTTATTATTATTTAATAATT
13519231 AT-TTATTATTATTTAATAATT
1 ATGTTATTATTATTTAATAATT
13519252 AT
1 AT
13519254 ATTTCCAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 16 0.41
21 22 0.56
22 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (22 bp):
ATGTTATTATTATTTAATAATT
Found at i:13519400 original size:25 final size:25
Alignment explanation
Indices: 13519372--13519425 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
13519362 TTTTTTATCT
*
13519372 TAATTAT-AATTTTTAT-ATATTTAAA
1 TAATTATCAA-TTTTATCAAATTT-AA
13519397 TAA-TATCAATTTTATCAAATTTAA
1 TAATTATCAATTTTATCAAATTTAA
13519421 TAATT
1 TAATT
13519426 GATTAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATTATCAATTTTATCAAATTTAA
Found at i:13520019 original size:17 final size:17
Alignment explanation
Indices: 13519999--13520037 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
13519989 CCTGAAATGA
13519999 AGAAACCAAATAAATTT
1 AGAAACCAAATAAATTT
13520016 AGAAACCAAATAAATTT
1 AGAAACCAAATAAATTT
13520033 AGAAA
1 AGAAA
13520038 ATAACAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.62, C:0.10, G:0.08, T:0.21
Consensus pattern (17 bp):
AGAAACCAAATAAATTT
Found at i:13520157 original size:20 final size:19
Alignment explanation
Indices: 13520113--13520168 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
13520103 ATAGAGAAAA
* *
13520113 GATAGATTAAAG-TAAAGT
1 GATAGATAAAAGATAAACT
* *
13520131 GAAAGATGAAACGATAAACT
1 GATAGAT-AAAAGATAAACT
13520151 GATAGATAAAAGGATAAA
1 GATAGATAAAA-GATAAA
13520169 TGTCTAATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 17 0.59
ACGTcount: A:0.55, C:0.04, G:0.21, T:0.20
Consensus pattern (19 bp):
GATAGATAAAAGATAAACT
Found at i:13524103 original size:59 final size:58
Alignment explanation
Indices: 13524038--13524319 Score: 162
Period size: 61 Copynumber: 4.7 Consensus size: 58
13524028 ATGATAAATT
* * * *
13524038 ATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTACAGTATT
1 ATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * *
13524097 ATATATTATGATTTTAGAA-A-ATTCATATAAGAA-TATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTA-ATAATAATTATTTAA-ATT-A-TATTTTA-TAGTATC
*
13524158 ATATATTTTAATTAAAATATATTTAATATTAATTATTTTAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATC
* * ** * * * * * * * * *
13524217 ATATATTATGATTTGAGTAAATTCATATAAGAA-TATTGATTATTAAGAATTTTATTA-AATT
1 ATATATTTTAATTAAAATATATTTA-ATAATAATTATTTA-AATT-A-TATTTTA-TAGTATC
13524278 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAA
13524320 ATATGATTAA
Statistics
Matches: 161, Mismatches: 43, Indels: 36
0.67 0.18 0.15
Matches are distributed among these distances:
58 9 0.06
59 54 0.34
60 30 0.19
61 58 0.36
62 10 0.06
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTATAGTATC
Found at i:13524166 original size:120 final size:120
Alignment explanation
Indices: 13524032--13524319 Score: 477
Period size: 120 Copynumber: 2.4 Consensus size: 120
13524022 AGTATGATGA
* * *
13524032 TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTACAGTATT
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATC
* *
13524097 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
66 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
* * * *
13524152 TAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTTAAATTATATTTTATAGTATC
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATC
* *
13524217 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
66 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
13524272 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
13524320 ATATGATTAA
Statistics
Matches: 154, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 154 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTACAGTATC
ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
Found at i:13524293 original size:18 final size:17
Alignment explanation
Indices: 13524265--13524299 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13524255 ATTATTAAGA
*
13524265 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13524282 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13524300 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13524553 original size:16 final size:16
Alignment explanation
Indices: 13524532--13524585 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
13524522 TTGATTTGCT
* *
13524532 ATTACACCTTTATTTC
1 ATTACACCTCTATTCC
13524548 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
13524564 ATTACGCCTCTAATCC
1 ATTACACCTCTATTCC
*
13524580 AATACA
1 ATTACA
13524586 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.30, C:0.31, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:13526950 original size:14 final size:14
Alignment explanation
Indices: 13526926--13526963 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
13526916 GTTTGCCAGT
*
13526926 AAAATATTTTCTGG
1 AAAATAATTTCTGG
*
13526940 AAAATGATTTCTGG
1 AAAATAATTTCTGG
13526954 AAAATAATTT
1 AAAATAATTT
13526964 ATTTTTCTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (14 bp):
AAAATAATTTCTGG
Found at i:13526976 original size:20 final size:20
Alignment explanation
Indices: 13526947--13526984 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13526937 TGGAAAATGA
*
13526947 TTTCTGGAAAATAATTTATT
1 TTTCTAGAAAATAATTTATT
*
13526967 TTTCTAGAAAATGATTTA
1 TTTCTAGAAAATAATTTA
13526985 CTGAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (20 bp):
TTTCTAGAAAATAATTTATT
Found at i:13527149 original size:20 final size:20
Alignment explanation
Indices: 13527074--13527148 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
13527064 CGGAAAAGTT
13527074 ATTTTTACATATATTAATAA
1 ATTTTTACATATATTAATAA
* * *
13527094 ATTTATATACATATTAATAA
1 ATTTTTACATATATTAATAA
* *
13527114 ATTTTT--ATATTTTAA-ATT
1 ATTTTTACATATATTAATA-A
13527132 ATTTTTACATATATTAA
1 ATTTTTACATATATTAA
13527149 AATGATTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
17 1 0.02
18 13 0.30
20 30 0.68
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTTACATATATTAATAA
Found at i:13529847 original size:6 final size:6
Alignment explanation
Indices: 13529836--13529891 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
13529826 TGTCAAGGAT
*
13529836 AGGGGA AGGGGA AAGGGA AGGGGA AGGGGA AGGGGA AGGGGA A-GGGA
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA
*
13529883 AAGGGA AGG
1 AGGGGA AGG
13529892 TGATACGAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
5 5 0.11
6 41 0.89
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:13529857 original size:18 final size:18
Alignment explanation
Indices: 13529836--13529891 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
13529826 TGTCAAGGAT
13529836 AGGGGAAGGGGAAAGGGA
1 AGGGGAAGGGGAAAGGGA
*
13529854 AGGGGAAGGGGAAGGGGA
1 AGGGGAAGGGGAAAGGGA
13529872 AGGGGAA-GGGAAAGGGA
1 AGGGGAAGGGGAAAGGGA
13529889 AGG
1 AGG
13529892 TGATACGAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (18 bp):
AGGGGAAGGGGAAAGGGA
Found at i:13532946 original size:10 final size:10
Alignment explanation
Indices: 13532931--13533000 Score: 50
Period size: 12 Copynumber: 6.1 Consensus size: 10
13532921 TAGCAATAAC
*
13532931 AAAAATAGTA
1 AAAAATAATA
13532941 AAAAATAATA
1 AAAAATAATA
13532951 AAAAAGTATGATA
1 AAAAA-TA--ATA
13532964 ATAATAATAATA
1 A-AA-AATAATA
13532976 ATAATAATAATA
1 A-AA-AATAATA
13532988 ATAATAATAATA
1 A-AA-AATAATA
13533000 A
1 A
13533001 GATATTAACT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
10 14 0.26
11 2 0.04
12 28 0.52
13 4 0.07
14 4 0.07
15 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (10 bp):
AAAAATAATA
Found at i:13532967 original size:3 final size:3
Alignment explanation
Indices: 13532961--13533000 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
13532951 AAAAAGTATG
13532961 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13533001 GATATTAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13535330 original size:45 final size:45
Alignment explanation
Indices: 13535225--13535578 Score: 234
Period size: 44 Copynumber: 7.6 Consensus size: 45
13535215 AAATTTTACA
* ** * *
13535225 TCCCTGAAGTTACAGTGGAGCAGATTGAAGCCA-CAAAACTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATT
* *
13535269 TCCCTAAAGTTGCAGTGTAGCAGATTGAAGATAGCAAATCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATT
* * * * *
13535314 TCCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGCCACAAATCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG---CAAATCTTATT
* * * *
13535365 TCCCCGAAGTTGCAATGGGGCAGATTGAAGATAGCAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATT
* * * *
13535410 TCCCTGAAGTTGTAGTGGAGCAGATT-AAAACTA-CAATTTTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCAAATCTTATT
* * * * *
13535454 TCCCTGAAGTTGCAGTGGAACATATT-AAAACTACAAATTACAAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-T----A--GC-AAATCTTATT
* * * *
13535506 TCTCTGAATTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTAT-T
* * *
13535551 T-CCTGAAGTTGCAGCGGAGTATATTGAA
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAA
13535579 ACTAAAGTTC
Statistics
Matches: 245, Mismatches: 47, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
44 98 0.40
45 71 0.29
47 1 0.00
48 6 0.02
49 1 0.00
51 35 0.14
52 31 0.13
53 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (45 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATT
Found at i:13535389 original size:96 final size:96
Alignment explanation
Indices: 13535252--13535445 Score: 271
Period size: 96 Copynumber: 2.0 Consensus size: 96
13535242 GAGCAGATTG
* * * *
13535252 AAGCCACAAAACTTATCTCCCTAAAGTTGCAGTGTAGCAGATTGAAGATAGCAAATCTTATTTCC
1 AAGCCACAAAACTTATCTCCCCAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCC
*
13535317 CTAAAGTTACAGTGGAACAGATTAAAGCTAC
66 CTAAAGTTACAGTGGAACAGATTAAAACTAC
* * * *
13535348 AAGCCACAAATCTTATTTCCCCGAAGTTGCAATGGGGCAGATTGAAGATAGCAAATCTTATCTCC
1 AAGCCACAAAACTTATCTCCCCAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCC
* ** *
13535413 CTGAAGTTGTAGTGGAGCAGATTAAAACTAC
66 CTAAAGTTACAGTGGAACAGATTAAAACTAC
13535444 AA
1 AA
13535446 TTTTTATTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 85 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (96 bp):
AAGCCACAAAACTTATCTCCCCAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCC
CTAAAGTTACAGTGGAACAGATTAAAACTAC
Found at i:13535471 original size:44 final size:44
Alignment explanation
Indices: 13535353--13535611 Score: 175
Period size: 44 Copynumber: 5.7 Consensus size: 44
13535343 GCTACAAGCC
* * * *
13535353 ACAAATCTTATTTCCCCGAAGTTGCAATGGGGCAGATTGAAGA-T
1 ACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACT
* *
13535397 AGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACT
1 A-CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* * * *
13535442 ACAATTTTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAACTACAAATT
1 ACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATT-AAA--AC----T
* * * * * *
13535493 ACAAAATCTTATCTCTCTGAATTTGCAGTGGAACAGATTGAAGCT
1 AC-AAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* * * *
13535538 ACAAATCTTATCTT-CCTGAAGTTGCAGCGGAGTATATTGAAACT
1 ACAAATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* *
13535582 A-AAGTTCTTA-TACCTCTGAAGTTGCAGTGG
1 ACAA-ATCTTATTTCC-CTGAAGTTGCAGTGG
13535612 GTTAGAATGA
Statistics
Matches: 170, Mismatches: 31, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 87 0.51
45 41 0.24
47 2 0.01
49 1 0.01
51 5 0.03
52 30 0.18
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
ACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
Found at i:13535500 original size:96 final size:96
Alignment explanation
Indices: 13535400--13535582 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 96
13535390 TGAAGATAGC
* * * *
13535400 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACTACAATTTTTAT-TTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAATCTTATCTT-CCTGAAGT
*
13535464 TGCAGTGGAACATATTAAAACTACAAATTACA
65 TGCAGCGGAACATATTAAAACTACAAATTACA
* * * *
13535496 AAATCTTATCTCTCTGAATTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTTCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAATCTTATCTTCCTGAAGTT
** *
13535561 GCAGCGGAGTATATTGAAACTA
66 GCAGCGGAACATATTAAAACTA
13535583 AAGTTCTTAT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 72 0.97
97 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (96 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAATCTTATCTTCCTGAAGTT
GCAGCGGAACATATTAAAACTACAAATTACA
Found at i:13535581 original size:140 final size:139
Alignment explanation
Indices: 13535208--13535611 Score: 438
Period size: 140 Copynumber: 2.9 Consensus size: 139
13535198 CAGATTAGTG
* * * * *
13535208 AAACAACAAATTTTA-CATCCCTGAAGTTACAGTGGAGCAGATTGAAGCCACAAAACTTATCTCC
1 AAACCACAAATCTTATC-TCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCC
* * * * *
13535272 CTAAAGTTGCAGTGTAGCAGATTGAAGA-TAGCAAATCTTATTTCCCTAAAGTTACAGTGGAACA
65 CTGAAGTTGCAGTGGAGCAGATTGAA-ACTA-CAATTCTTATTTCCCTGAAGTTGCAGTGGAACA
*
13535336 GATTAAAGCTAC
128 GATTAAAACTAC
* * * * * *
13535348 AAGCCACAAATCTTATTTCCCCGAAGTTGCAATGGGGCAGATTGAAGATAGCAAATCTTATCTCC
1 AAACCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATCTTATCTCC
* * * *
13535413 CTGAAGTTGTAGTGGAGCAGATTAAAACTACAATTTTTATTTCCCTGAAGTTGCAGTGGAACATA
65 CTGAAGTTGCAGTGGAGCAGATTGAAACTACAATTCTTATTTCCCTGAAGTTGCAGTGGAACAGA
13535478 TTAAAACTAC
130 TTAAAACTAC
** * * * *
13535488 AAATTACAAAATCTTATCTCTCTGAATTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTTC
1 AAACCAC-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCC
* * * *
13535553 CTGAAGTTGCAGCGGAGTATATTGAAACTA-AAGTTCTTA-TACCTCTGAAGTTGCAGTGG
65 CTGAAGTTGCAGTGGAGCAGATTGAAACTACAA-TTCTTATTTCC-CTGAAGTTGCAGTGG
13535612 GTTAGAATGA
Statistics
Matches: 218, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
139 5 0.02
140 141 0.65
141 72 0.33
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (139 bp):
AAACCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCC
TGAAGTTGCAGTGGAGCAGATTGAAACTACAATTCTTATTTCCCTGAAGTTGCAGTGGAACAGAT
TAAAACTAC
Found at i:13538839 original size:27 final size:27
Alignment explanation
Indices: 13538806--13538891 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 27
13538796 GACTTTTATG
13538806 TCTTCATCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
* *
13538833 TCTTCAT-CAGAT-TGATT-ACTA-ATTTT
1 TCTTCATCCTGATCTG-TTGA--AGTTTTT
*
13538859 T-TT-ATCCTGATCTGCTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
13538884 TCTTCATC
1 TCTTCATC
13538892 AGTTTGATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 18
0.66 0.07 0.26
Matches are distributed among these distances:
24 3 0.07
25 15 0.33
26 16 0.36
27 11 0.24
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.51
Consensus pattern (27 bp):
TCTTCATCCTGATCTGTTGAAGTTTTT
Found at i:13541390 original size:42 final size:40
Alignment explanation
Indices: 13541331--13541408 Score: 120
Period size: 42 Copynumber: 1.9 Consensus size: 40
13541321 TTATGTGTCT
*
13541331 TATCCAATGGTAAACCAACCTCTTGGAACAAATGTTTTAAAA
1 TATCCAATGGTAAACCAACCACTTGGAA-AAA-GTTTTAAAA
*
13541373 TATCCAATGGTAAACCAACCAGTTGGAAAAAGTTTT
1 TATCCAATGGTAAACCAACCACTTGGAAAAAGTTTT
13541409 TCAAATATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 5 0.15
41 3 0.09
42 26 0.76
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (40 bp):
TATCCAATGGTAAACCAACCACTTGGAAAAAGTTTTAAAA
Found at i:13545431 original size:17 final size:17
Alignment explanation
Indices: 13545399--13545444 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
13545389 CCCGATATAT
* *
13545399 AAATATATTTATTTTTA
1 AAATATTTTTAATTTTA
* *
13545416 AATTTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
13545433 AAATATTTTTAA
1 AAATATTTTTAA
13545445 AATACTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:13545465 original size:40 final size:40
Alignment explanation
Indices: 13545420--13545495 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
13545410 TTTTTAAATT
13545420 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTA
13545460 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT
13545496 AATTTTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTA
Found at i:13545514 original size:20 final size:20
Alignment explanation
Indices: 13545477--13545515 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13545467 ATTTTAAAAT
**
13545477 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAAATTTTTA
13545497 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
13545516 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:13545522 original size:22 final size:20
Alignment explanation
Indices: 13545476--13545533 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
13545466 AATTTTAAAA
*
13545476 TATTTTTAAAAT-ACTTTTT
1 TATTTTTAAAATAAATTTTT
13545495 TAATTTTTAAAATAAATTTTT
1 T-ATTTTTAAAATAAATTTTT
13545516 GGTATTTATTAAAA-AAAT
1 --TATTT-TTAAAATAAAT
13545534 GGGTCGGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
21 6 0.18
22 8 0.24
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTTTTAAAATAAATTTTT
Found at i:13557859 original size:21 final size:22
Alignment explanation
Indices: 13557801--13557859 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
13557791 CTAAATTCAC
*
13557801 TTACAAAA-GCAAGACTAAAAAAG
1 TTACAAAATGTAAGAC--AAAAAG
*
13557824 TTATAAAATGTAAGACAAAAAG
1 TTACAAAATGTAAGACAAAAAG
*
13557846 TTCCAAAATG-AAGA
1 TTACAAAATGTAAGA
13557860 ATTATTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 14 0.45
23 7 0.23
24 6 0.19
ACGTcount: A:0.58, C:0.10, G:0.14, T:0.19
Consensus pattern (22 bp):
TTACAAAATGTAAGACAAAAAG
Found at i:13560984 original size:30 final size:30
Alignment explanation
Indices: 13560943--13561000 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
13560933 CACAGGCCAG
* *
13560943 CACATGGGCGTGTGGCCAGCCCGTGTGGTT
1 CACACGGGCGTGTGCCCAGCCCGTGTGGTT
13560973 CACACGGGCGTGTGCCCAGCCCGTGTGG
1 CACACGGGCGTGTGCCCAGCCCGTGTGG
13561001 AAAAGCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.31, G:0.40, T:0.19
Consensus pattern (30 bp):
CACACGGGCGTGTGCCCAGCCCGTGTGGTT
Found at i:13563164 original size:229 final size:227
Alignment explanation
Indices: 13562642--13563175 Score: 562
Period size: 229 Copynumber: 2.3 Consensus size: 227
13562632 GTTTAATATA
* * * * * *
13562642 AAACGCCGGTAAAGTATAATATTAGCGGCG-TGTTGTGGTAAGTGCCGCAAAACATCTTAACCAA
1 AAACGCCGCTAAAGCATAGTATTAGCGGCGCT-TTGTGATAAGCGCCGCAAAATATCTTAACCAA
* * *
13562706 AACGCAGAGTTTGGTCTTGAGGTATACTAGAACTAGTGGCGCAGAGGGAAAACGCCGCTAATGCA
65 AACGCAGAGTTT-TTCATGAGGTATACTAGAACTAGTGGCGCAGAGGGAAAACGCCGCTAAAGCA
** **
13562771 TACTATTAGCGGCGCTTTCGTATAAGCGCCGCAAAATTTGATAACAAAAATGCAACGTTTTTGTC
129 TACTATTAGCGGCGCTTTCGTATAAGCGCCGCAAAAGATGATAACAAAAATGCAACGTTTAAGTC
** * *
13562836 TTGATGTATACAGTTATTAGTGGCGCATATTAAG
194 TTGATGTATACAGGAATTAGTGGCGCACATCAAG
* * * *
13562870 AAACGCCGCTAAATCATAGTATTAGCGGTGC-TTGGGCA-AACGCGCCGCAAAATATGC-TCACC
1 AAACGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTG-ATAA-GCGCCGCAAAATAT-CTTAACC
* * * * * * *
13562932 AAAACGCTGAGTTTTTACATGAGGTATATTAGAATTAGTGGCGCTTGCGGGATATCGCCGCTAAA
63 AAAACGCAGAGTTTTT-CATGAGGTATACTAGAACTAGTGGCGC-AGAGGGAAAACGCCGCTAAA
* * * * *
13562997 GTATATTATTAGCGGCGC-TTCTTTATAAGCGCCGGAAAAGAT-ATTAACAAAAATGCAGCGTTT
126 GCATACTATTAGCGGCGCTTTC-GTATAAGCGCCGCAAAAGATGA-TAACAAAAATGCAACGTTT
* *
13563060 AAGTCTTGATGTATACTGGAATTAGTGGCGTC-CA-CGAG
189 AAGTCTTGATGTATACAGGAATTAGTGGCG-CACATCAAG
* * * *
13563098 AAATCGCCGCTAAAGCATGGTATTAGCGGCGCTTTTTGATAAGCGCCGGAAAATGTCTTAACCAA
1 AAA-CGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGATAAGCGCCGCAAAATATCTTAACCAA
13563163 AACGCAGAGTTTT
65 AACGCAGAGTTTT
13563176 GGTCTTAACC
Statistics
Matches: 249, Mismatches: 44, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
227 7 0.03
228 88 0.35
229 148 0.59
230 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (227 bp):
AAACGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGATAAGCGCCGCAAAATATCTTAACCAAA
ACGCAGAGTTTTTCATGAGGTATACTAGAACTAGTGGCGCAGAGGGAAAACGCCGCTAAAGCATA
CTATTAGCGGCGCTTTCGTATAAGCGCCGCAAAAGATGATAACAAAAATGCAACGTTTAAGTCTT
GATGTATACAGGAATTAGTGGCGCACATCAAG
Found at i:13563181 original size:115 final size:115
Alignment explanation
Indices: 13562645--13563181 Score: 400
Period size: 115 Copynumber: 4.7 Consensus size: 115
13562635 TAATATAAAA
* * * * * * *
13562645 CGCCGGTAAAGTATAATATTAGCGGCG-TGTTGTGGTAAGTGCCGCAAAACATCTTAACCAAAAC
1 CGCCGCTAAAGCATAGTATTAGCGGCGCT-TTTTGATAAGCGCCGCAAAATATCTTAACCAAAAC
* * * *
13562709 GCAGAG-TTTGGTCTTGAGGTATACTAGAACTAGTGGCGCAGA-GGGAAAA
65 GCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCACACGAGAAAT
* * * * ** * *
13562758 CGCCGCTAATGCATACTATTAGCGGCGC-TTTCGTATAAGCGCCGCAAAATTTGATAACAAAAAT
1 CGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTG-ATAAGCGCCGCAAAATATCTTAACCAAAAC
* * * * **
13562822 GCA-ACGTTTTTGTCTTGATGTATAC-AGTTATTAGTGGCGCATATTAAGAAA-
65 GCAGA-GTTTTGGTCTTGAGGTATACTAG-AATTAGTGGCGCACA-CGAGAAAT
* * ** *
13562873 CGCCGCTAAATCATAGTATTAGCGGTGC-TTGGGCA-AACGCGCCGCAAAATATGC-TCACCAAA
1 CGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTG-ATAA-GCGCCGCAAAATAT-CTTAACCAAA
* * * *** * *
13562935 ACGCTGAGTTTT--TACATGAGGTATATTAGAATTAGTGGCGCTTGCGGGATAT
63 ACGCAGAGTTTTGGT-CTTGAGGTATACTAGAATTAGTGGCGCACACGAGAAAT
* * * * * * *
13562987 CGCCGCTAAAGTATATTATTAGCGGCGCTTCTTT-ATAAGCGCCGGAAAAGATATTAACAAAAAT
1 CGCCGCTAAAGCATAGTATTAGCGGCGCTT-TTTGATAAGCGCCGCAAAATATCTTAACCAAAAC
* ** * *
13563051 GCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTC-CACGAGAAAT
65 GCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCG-CACACGAGAAAT
* * *
13563102 CGCCGCTAAAGCATGGTATTAGCGGCGCTTTTTGATAAGCGCCGGAAAATGTCTTAACCAAAACG
1 CGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGATAAGCGCCGCAAAATATCTTAACCAAAACG
13563167 CAGAGTTTTGGTCTT
66 CAGAGTTTTGGTCTT
13563182 AACCATGCAT
Statistics
Matches: 325, Mismatches: 78, Indels: 40
0.73 0.18 0.09
Matches are distributed among these distances:
112 4 0.01
113 55 0.17
114 105 0.32
115 153 0.47
116 8 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (115 bp):
CGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGATAAGCGCCGCAAAATATCTTAACCAAAACG
CAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCACACGAGAAAT
Found at i:13563265 original size:21 final size:20
Alignment explanation
Indices: 13563241--13563279 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13563231 TTTGGTCTAT
*
13563241 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
13563262 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
13563280 ATGTGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:13567839 original size:21 final size:22
Alignment explanation
Indices: 13567781--13567839 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
13567771 CTAAATTCAC
*
13567781 TTACAAAA-GCAAGACTAAAAAAG
1 TTACAAAATGTAAGAC--AAAAAG
*
13567804 TTATAAAATGTAAGACAAAAAG
1 TTACAAAATGTAAGACAAAAAG
*
13567826 TTCCAAAATG-AAGA
1 TTACAAAATGTAAGA
13567840 ATTATTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 14 0.45
23 7 0.23
24 6 0.19
ACGTcount: A:0.58, C:0.10, G:0.14, T:0.19
Consensus pattern (22 bp):
TTACAAAATGTAAGACAAAAAG
Found at i:13570964 original size:30 final size:30
Alignment explanation
Indices: 13570923--13570980 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
13570913 CACAGGCCAG
* *
13570923 CACATGGGCGTGTGGCCAGCCCGTGTGGTT
1 CACACGGGCGTGTGCCCAGCCCGTGTGGTT
13570953 CACACGGGCGTGTGCCCAGCCCGTGTGG
1 CACACGGGCGTGTGCCCAGCCCGTGTGG
13570981 AAAAGCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.31, G:0.40, T:0.19
Consensus pattern (30 bp):
CACACGGGCGTGTGCCCAGCCCGTGTGGTT
Found at i:13573144 original size:229 final size:227
Alignment explanation
Indices: 13572626--13573155 Score: 554
Period size: 229 Copynumber: 2.3 Consensus size: 227
13572616 AATATAAAAT
* * * * * *
13572626 GCCGGTAAAGTATAATATTAGCGGCG-TGTTGTGGTAAGTGCCGCAAAACATCTTAACCAAAACG
1 GCCGCTAAAGCATAGTATTAGCGGCGCT-TTGTGATAAGCGCCGCAAAATATCTTAACCAAAACG
* * *
13572690 CAGAGTTTGGTCTTGAGGTATACTAGAACTAGTGGCGCAGAGGGAAAACGCCGCTAATGCATACT
65 CAGAGTTT-TTCATGAGGTATACTAGAACTAGTGGCGCAGAGGGAAAACGCCGCTAAAGCATACT
** **
13572755 ATTAGCGGCGCTTTCGTATAAGCGCCGCAAAATTTGATAACAAAAATGCAACGTTTTTGTCTTGA
129 ATTAGCGGCGCTTTCGTATAAGCGCCGCAAAAGATGATAACAAAAATGCAACGTTTAAGTCTTGA
** * *
13572820 TGTATACAGTTATTAGTGGCGCATATTAAGAAAC
194 TGTATACAGGAATTAGTGGCGCACATCAAGAAAC
* * * *
13572854 GCCGCTAAATCATAGTATTAGCGGTGC-TTGGGCA-AACGCGCCGCAAAATATGC-TCACCAAAA
1 GCCGCTAAAGCATAGTATTAGCGGCGCTTTGTG-ATAA-GCGCCGCAAAATAT-CTTAACCAAAA
* * * * * * * *
13572916 CGCTGAGTTTTTACATGAGGTATATTAGAATTAGTGGCGCTTGCGGGATATCGCCGCTAAAGTAT
63 CGCAGAGTTTTT-CATGAGGTATACTAGAACTAGTGGCGC-AGAGGGAAAACGCCGCTAAAGCAT
* * * *
13572981 ATTATTAGCGGCGC-TTCTTTATAAGCGCCGGAAAAGAT-ATTAACAAAAATGCAGCGTTTAAGT
126 ACTATTAGCGGCGCTTTC-GTATAAGCGCCGCAAAAGATGA-TAACAAAAATGCAACGTTTAAGT
* *
13573044 CTTGATGTATACTGGAATTAGTGGCGTC-CA-CGAGAAATC
189 CTTGATGTATACAGGAATTAGTGGCG-CACATCAAGAAA-C
* * * *
13573083 GCCGCTAAAGCATGGTATTAGCGGCGCTTTTTGATAAGCGCCGGAAAATGTCTTAACCAAAACGC
1 GCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGATAAGCGCCGCAAAATATCTTAACCAAAACGC
13573148 AGAGTTTT
66 AGAGTTTT
13573156 GGTCTTAACC
Statistics
Matches: 245, Mismatches: 44, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
227 7 0.03
228 84 0.34
229 148 0.60
230 6 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (227 bp):
GCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGATAAGCGCCGCAAAATATCTTAACCAAAACGC
AGAGTTTTTCATGAGGTATACTAGAACTAGTGGCGCAGAGGGAAAACGCCGCTAAAGCATACTAT
TAGCGGCGCTTTCGTATAAGCGCCGCAAAAGATGATAACAAAAATGCAACGTTTAAGTCTTGATG
TATACAGGAATTAGTGGCGCACATCAAGAAAC
Found at i:13573161 original size:115 final size:115
Alignment explanation
Indices: 13572622--13573161 Score: 399
Period size: 115 Copynumber: 4.7 Consensus size: 115
13572612 GTTTAATATA
* * * * * * *
13572622 AAAT-GCCGGTAAAGTATAATATTAGCGGCG-TGTTGTGGTAAGTGCCGCAAAACATCTTAACCA
1 AAATCGCCGCTAAAGCATAGTATTAGCGGCGCT-TTTTGATAAGCGCCGCAAAATATCTTAACCA
* * *
13572685 AAACGCAGAG-TTTGGTCTTGAGGTATACTAGAACTAGTGGCGCAGA-GGG
65 AAACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCACACGAG
* * * * * ** *
13572734 AAAACGCCGCTAATGCATACTATTAGCGGCGC-TTTCGTATAAGCGCCGCAAAATTTGATAACAA
1 AAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTG-ATAAGCGCCGCAAAATATCTTAACCA
* * * * * **
13572798 AAATGCA-ACGTTTTTGTCTTGATGTATAC-AGTTATTAGTGGCGCATATTAAG
65 AAACGCAGA-GTTTTGGTCTTGAGGTATACTAG-AATTAGTGGCGCACA-CGAG
* * ** *
13572850 AAA-CGCCGCTAAATCATAGTATTAGCGGTGC-TTGGGCA-AACGCGCCGCAAAATATGC-TCAC
1 AAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTG-ATAA-GCGCCGCAAAATAT-CTTAAC
* * * *** *
13572911 CAAAACGCTGAGTTTT--TACATGAGGTATATTAGAATTAGTGGCGCTTGCGGG
63 CAAAACGCAGAGTTTTGGT-CTTGAGGTATACTAGAATTAGTGGCGCACACGAG
* * * * * * *
13572963 ATATCGCCGCTAAAGTATATTATTAGCGGCGCTTCTTT-ATAAGCGCCGGAAAAGATATTAACAA
1 AAATCGCCGCTAAAGCATAGTATTAGCGGCGCTT-TTTGATAAGCGCCGCAAAATATCTTAACCA
* * ** * *
13573027 AAATGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTC-CACGAG
65 AAACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCG-CACACGAG
* * *
13573078 AAATCGCCGCTAAAGCATGGTATTAGCGGCGCTTTTTGATAAGCGCCGGAAAATGTCTTAACCAA
1 AAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGATAAGCGCCGCAAAATATCTTAACCAA
13573143 AACGCAGAGTTTTGGTCTT
66 AACGCAGAGTTTTGGTCTT
13573162 AACCATGCAT
Statistics
Matches: 327, Mismatches: 79, Indels: 41
0.73 0.18 0.09
Matches are distributed among these distances:
112 7 0.02
113 54 0.17
114 105 0.32
115 153 0.47
116 8 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (115 bp):
AAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGATAAGCGCCGCAAAATATCTTAACCAA
AACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCACACGAG
Found at i:13573245 original size:21 final size:20
Alignment explanation
Indices: 13573221--13573259 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13573211 TTTGGTCTAT
*
13573221 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
13573242 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
13573260 ATGTGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:13577185 original size:36 final size:36
Alignment explanation
Indices: 13577143--13577400 Score: 186
Period size: 36 Copynumber: 7.2 Consensus size: 36
13577133 TACATATCAC
*
13577143 AAATTAAATAAGTTACATTAATTACATAACTTACAT
1 AAATTAAATAACTTACATTAATTACATAACTTACAT
* * * *
13577179 AAATTAAGTAAATTA-AATATCTTACATAACTTACAT
1 AAATTAAATAACTTACATTA-ATTACATAACTTACAT
* *
13577215 AAATTAAATATCTTACA-TAACTTACATAAATTA-AGT
1 AAATTAAATAACTTACATTAA-TTACATAACTTACA-T
* *
13577251 AAATTAAATAACTTACA-TAACTTACATAAATTAAAT
1 AAATTAAATAACTTACATTAA-TTACATAACTTACAT
** * * * *
13577287 ATCTTACATAACTTACATAAATTA-AGTAAATTAAAT
1 AAATTAAATAACTTACATTAATTACA-TAACTTACAT
* * * * *
13577323 AACTTACATAACTTACATAAATTAAATATCTTACAT
1 AAATTAAATAACTTACATTAATTACATAACTTACAT
* * * * * *
13577359 AACTTACATAAATTA-AATATCTTATATAACTTACAT
1 AAATTAAATAACTTACATTA-ATTACATAACTTACAT
13577395 AAATTA
1 AAATTA
13577401 TAAGGGAAAG
Statistics
Matches: 188, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
35 7 0.04
36 176 0.94
37 5 0.03
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (36 bp):
AAATTAAATAACTTACATTAATTACATAACTTACAT
Found at i:13577192 original size:27 final size:26
Alignment explanation
Indices: 13577162--13577400 Score: 176
Period size: 27 Copynumber: 8.9 Consensus size: 26
13577152 AAGTTACATT
13577162 AATTACATAACTTACATAAATTAAGTA
1 AATTACATAACTTACATAAATTAA-TA
* * *
13577189 AATTAAATATCTTACATAACTTACATA
1 AATTACATAACTTACATAAATTA-ATA
* * *
13577216 AATTAAATATCTTACATAACTTACATA
1 AATTACATAACTTACATAAATTA-ATA
* * *
13577243 AATTA-AGTAAATTAAATAACTTACATA
1 AATTACA-TAACTTACATAAATTA-ATA
* * * **
13577270 ACTTACATAAATTAAATATCTTACATA
1 AATTACATAACTTACATAAATTA-ATA
* *
13577297 ACTTACATAAATTA-AGTAAATTAAATA
1 AATTACATAACTTACA-TAAATT-AATA
*
13577324 ACTTACATAACTTACATAAATTAAATA
1 AATTACATAACTTACATAAATT-AATA
**
13577351 TCTTACATAACTTACATAAATTAAATA
1 AATTACATAACTTACATAAATT-AATA
** *
13577378 TCTTATATAACTTACATAAATTA
1 AATTACATAACTTACATAAATTA
13577401 TAAGGGAAAG
Statistics
Matches: 193, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.02
27 186 0.96
28 4 0.02
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (26 bp):
AATTACATAACTTACATAAATTAATA
Found at i:13577239 original size:63 final size:63
Alignment explanation
Indices: 13577164--13577396 Score: 421
Period size: 63 Copynumber: 3.7 Consensus size: 63
13577154 GTTACATTAA
*
13577164 TTACATAACTTACATAAATTAAGTAAATTAAATATCTTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
13577227 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
13577290 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
* ** *
13577353 TTACATAACTTACATAAATTAAATATCTTATATAACTTACATAA
1 TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAA
13577397 ATTATAAGGG
Statistics
Matches: 165, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 165 1.00
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (63 bp):
TTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAAATTAAATATC
Found at i:13578959 original size:21 final size:21
Alignment explanation
Indices: 13578933--13579007 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
13578923 CAGCAACTTA
*
13578933 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
* *
13578954 AAGCAGATGCCGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
* *
13578975 AAGCAGCGAGAGAAGCAGCGATAG
1 AAGCA--GAG-GCAGCAGCGAGAG
*
13578999 AAACAGAGG
1 AAGCAGAGG
13579008 TTCAAAAGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
21 24 0.56
22 3 0.07
23 2 0.05
24 14 0.33
ACGTcount: A:0.39, C:0.19, G:0.40, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:13578982 original size:12 final size:12
Alignment explanation
Indices: 13578965--13579000 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
13578955 AGCAGATGCC
13578965 GCAGCGAGAGAA
1 GCAGCGAGAGAA
13578977 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
13578989 GCAGCGATAGAA
1 GCAGCGAGAGAA
13579001 ACAGAGGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.39, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:13579513 original size:85 final size:83
Alignment explanation
Indices: 13579417--13579709 Score: 353
Period size: 85 Copynumber: 3.5 Consensus size: 83
13579407 GTTTGTGAAA
* * *
13579417 TAAGCGTCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTAAAC-AAGCGCCGCTATAGAACAT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCATTTTT-TACTAAGCGCCGCTAAAGAACAT
* *
13579479 TA-CTTTTAGAGGCGTTTTCTTCC
63 GATC-TTTAGAGGC-TTTT-TTTC
* * * *
13579502 AAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCGTTTTCTTCCTAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTT-TTACTAAGCGCCGCTAAAGAACATGA
13579567 TCTTTAGCA-GCATTTTTTTC
65 TCTTTAG-AGGC-TTTTTTTC
* * *
13579587 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAGCATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTACTAAGCGCCGCTAAAGAACATGAT
*
13579652 CTTTAGCGGCTTTTTTTC
66 CTTTAGAGGCTTTTTTTC
13579670 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTT
13579710 TATGTAAGCG
Statistics
Matches: 185, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
83 47 0.25
84 34 0.18
85 70 0.38
86 32 0.17
87 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (83 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTACTAAGCGCCGCTAAAGAACATGAT
CTTTAGAGGCTTTTTTTC
Found at i:13579666 original size:41 final size:42
Alignment explanation
Indices: 13579417--13579710 Score: 364
Period size: 42 Copynumber: 7.0 Consensus size: 42
13579407 GTTTGTGAAA
* **
13579417 TAAGCGTCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTAAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCATTTTT-TTC
* * * * *
13579460 -AAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCATTTT-TTTC
* * * *
13579502 AAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTT-TTTC
*
13579545 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
*
13579587 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
*
13579629 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGC-TTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
13579670 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT
13579711 ATGTAAGCGT
Statistics
Matches: 227, Mismatches: 19, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
41 41 0.18
42 114 0.50
43 71 0.31
44 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
Found at i:13579831 original size:22 final size:22
Alignment explanation
Indices: 13579800--13579843 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13579790 TAGTGGCTTT
* *
13579800 AAAAAGCGCCGCTAAAGACTTA
1 AAAAAACGCCGCTAAAAACTTA
13579822 AAAAAACGCCGCTAAAAACTTA
1 AAAAAACGCCGCTAAAAACTTA
13579844 TTCTGCTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACTTA
Found at i:13583147 original size:178 final size:178
Alignment explanation
Indices: 13582897--13584628 Score: 2814
Period size: 178 Copynumber: 9.8 Consensus size: 178
13582887 ACCTGTATGG
* * * * * ** * *
13582897 GAAGACAAGACCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATATGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13582961 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATATACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13583026 ATGGGAAGACAAGATCCGCTT-TCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACAT
* *
13583074 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGGTCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13583139 TTGATCTACCTCACACCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* *
13583204 ATGGGAAGACAAGATCTGTTATCTTTGATCAACTTCACACCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * *
13583252 GAAGAAAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGTTGTCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13583317 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13583382 ATGGGAAGAAAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
13583430 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
*
13583495 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
13583560 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
*
13583608 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACAAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13583673 TTGATCTACTTCACGCCAGTACGTGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* * *
13583738 ATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCATGCCAGTACGT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
**
13583786 GAAGACAAGATCTGCTTTCTTCGATCTACCCCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
*
13583851 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
13583916 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* *
13583964 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13584029 TTGATCTACTTCACGCCAGTAGATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* *
13584094 ATGGGAAGACAAGATCTATTATCTTTGATCTACATCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * *
13584142 GAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCATCAGTATAGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13584207 TTGATCGACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACATCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13584272 ATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
13584320 GAAGAC-A-A------------GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
*
13584371 TTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
13584436 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
*
13584484 GAAGACAAGATCT-ATTATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
* * * **
13584548 TTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTTTTTGATCTACTTTACCACCAG
65 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAG
*
13584613 TATGGCAAGACAAGAT
130 TATGGGAAGACAAGAT
13584629 TTACTGCTAC
Statistics
Matches: 1456, Mismatches: 83, Indels: 31
0.93 0.05 0.02
Matches are distributed among these distances:
164 155 0.11
165 1 0.00
166 1 0.00
176 1 0.00
177 33 0.02
178 1265 0.87
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (178 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:13583264 original size:267 final size:267
Alignment explanation
Indices: 13582897--13584628 Score: 2814
Period size: 267 Copynumber: 6.5 Consensus size: 267
13582887 ACCTGTATGG
* * * * * ** * *
13582897 GAAGACAAGACCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATATGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13582961 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATATACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13583026 ATGGGAAGACAAGATCCGCTT-TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
131 ATGGGAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
* * * *
13583090 TTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGGTCTGTTATCTTTGATCTACCTCACAC
195 TTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
13583155 CAGTACAT
260 CAGTACAT
13583163 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * *
13583228 TTGATCAACTTCACACCAGTACATGAAGAAAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* * *
13583293 ATGGGAAGATAAGATCTGTTGTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* *
13583358 TCTTTGATCTACTTCGCCACCAGTATGGGAAGAAAAGATCTGTTATCTTTGATCTACTTCACGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
13583423 AGTACAT
261 AGTACAT
13583430 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
*
13583495 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
13583560 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
*
13583625 TCTTCGATCTACTTCGCCACAAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
13583690 AGTACGT
261 AGTACAT
* * *
13583697 GAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGTATAGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* * **
13583762 TTGATCTACTTCATGCCAGTACGTGAAGACAAGATCTGCTTTCTTCGATCTACCCCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
13583827 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
*
13583892 TCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
13583957 AGTACAT
261 AGTACAT
* *
13583964 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13584029 TTGATCTACTTCACGCCAGTAGATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* * *
13584094 ATGGGAAGACAAGATCTATTATCTTTGATCTACATCACGCCAGTACATGAAGATAAGATCTGCTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * *
13584159 TCTTCGATCTACTTCGCCATCAGTATAGGAAGACAAGATCTGTTATCTTTGATCGACTTCACGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
13584224 AGTACAT
261 AGTACAT
* * *
13584231 GAAGACAAGATCTACTTTCTTCGATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13584296 TTGATCTACTTCACGCCAGTACATGAAGAC-A-A------------GATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
13584347 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTT
131 ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
13584412 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
196 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
13584477 AGTACAT
261 AGTACAT
*
13584484 GAAGACAAGATCT-ATTATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATC
* * * **
13584548 TTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTTTTTGATCTACTTTACCACCAG
65 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAG
*
13584613 TATGGCAAGACAAGAT
130 TATGGGAAGACAAGAT
13584629 TTACTGCTAC
Statistics
Matches: 1366, Mismatches: 83, Indels: 33
0.92 0.06 0.02
Matches are distributed among these distances:
252 2 0.00
253 237 0.17
254 1 0.00
255 1 0.00
265 1 0.00
266 33 0.02
267 1091 0.80
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (267 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACAT
Found at i:13584336 original size:89 final size:89
Alignment explanation
Indices: 13582897--13584332 Score: 2408
Period size: 89 Copynumber: 16.1 Consensus size: 89
13582887 ACCTGTATGG
* * * * * ** * *
13582897 GAAGACAAGACCTACTTTCTTCGATCTACTTC-ACGCCAATATATGAAGACAAGATATGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13582961 TCGATCTACTTCACGCCAATACAT
66 TTGATCTACTTCACGCCAGTACAT
* *
13582985 GAAGACAAGATCTGCTTTCTTCGATATACTTCGCCACCAGTATGGGAAGACAAGATCCGCTT-TC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATC
13583049 TTTGATCTACTTCACGCCAGTACAT
65 TTTGATCTACTTCACGCCAGTACAT
* *
13583074 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGGTCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13583139 TTGATCTACCTCACACCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
13583163 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13583228 TTGATCAACTTCACACCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
* * *
13583252 GAAGAAAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGTTGTCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13583317 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
* * *
13583341 GAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGAAAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13583406 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
13583430 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13583495 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
*
13583519 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13583584 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
*
13583608 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACAAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
*
13583673 TTGATCTACTTCACGCCAGTACGT
66 TTGATCTACTTCACGCCAGTACAT
* * *
13583697 GAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGTATAGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
* *
13583762 TTGATCTACTTCATGCCAGTACGT
66 TTGATCTACTTCACGCCAGTACAT
**
13583786 GAAGACAAGATCTGCTTTCTTCGATCTACCCCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13583851 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
*
13583875 GAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13583940 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
* *
13583964 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
*
13584029 TTGATCTACTTCACGCCAGTAGAT
66 TTGATCTACTTCACGCCAGTACAT
* *
13584053 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
*
13584118 TTGATCTACATCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
* * *
13584142 GAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCATCAGTATAGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
*
13584207 TTGATCGACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
* * *
13584231 GAAGACAAGATCTACTTTCTTCGATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
13584296 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
13584320 GAAGACAAGATCT
1 GAAGACAAGATCT
13584333 ACTTCGCCAC
Statistics
Matches: 1266, Mismatches: 79, Indels: 5
0.94 0.06 0.00
Matches are distributed among these distances:
88 31 0.02
89 1234 0.97
90 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (89 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
TTGATCTACTTCACGCCAGTACAT
Found at i:13584376 original size:75 final size:75
Alignment explanation
Indices: 13584253--13584407 Score: 283
Period size: 75 Copynumber: 2.1 Consensus size: 75
13584243 TACTTTCTTC
13584253 GATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCCAGTAC
1 GATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCCAGTAC
13584318 ATGAAGACAA
66 ATGAAGACAA
* * *
13584328 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTAC
1 GATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCCAGTAC
13584393 ATGAAGACAA
66 ATGAAGACAA
13584403 GATCT
1 GATCT
13584408 GCTTTCTTCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (75 bp):
GATCTACATCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCCAGTAC
ATGAAGACAA
Found at i:13584404 original size:44 final size:44
Alignment explanation
Indices: 13584351--13584603 Score: 312
Period size: 44 Copynumber: 5.7 Consensus size: 44
13584341 ACCAGTATGG
*
13584351 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * ***
13584395 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTACAT
13584440 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * * ***
13584484 GAAGACAAGATCTATTATCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCTTTGATCTACTTC-ACGCCAGTACAT
*
13584529 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
*
13584573 GAAGACAAGATCTGCTT-TTTTTGATCTACTT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTT
13584604 TACCACCAGT
Statistics
Matches: 175, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
44 100 0.57
45 75 0.43
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (44 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:13584421 original size:89 final size:89
Alignment explanation
Indices: 13584328--13584628 Score: 523
Period size: 89 Copynumber: 3.4 Consensus size: 89
13584318 ATGAAGACAA
13584328 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTAC
1 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTAC
13584393 ATGAAGACAAGATCTGCTTTCTTC
66 ATGAAGACAAGATCTGCTTTCTTC
*
13584417 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
1 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTAC
*
13584482 ATGAAGACAAGATCT-ATTATCTTC
66 ATGAAGACAAGATCTGCTT-TCTTC
13584506 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTAC
1 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTAC
* *
13584571 ATGAAGACAAGATCTGCTTTTTTT
66 ATGAAGACAAGATCTGCTTTCTTC
** *
13584595 GATCTACTTTACCACCAGTATGGCAAGACAAGAT
1 GATCTACTTCGCCACCAGTATGGGAAGACAAGAT
13584629 TTACTGCTAC
Statistics
Matches: 201, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
88 2 0.01
89 197 0.98
90 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTAC
ATGAAGACAAGATCTGCTTTCTTC
Found at i:13585923 original size:14 final size:13
Alignment explanation
Indices: 13585888--13585929 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13585878 CCTTAGCCTC
*
13585888 TTCATTTTAC-TT
1 TTCATTTTTCATT
13585900 CTTCATTTTTCATT
1 -TTCATTTTTCATT
13585914 TTCATCTTTTCATT
1 TTCAT-TTTTCATT
13585928 TT
1 TT
13585930 TTCACATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCATTTTTCATT
Found at i:13586889 original size:19 final size:19
Alignment explanation
Indices: 13586865--13586904 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13586855 GGTTTGGCAG
13586865 AAAAAATCCAAAAGAATGA
1 AAAAAATCCAAAAGAATGA
**
13586884 AAAAAATCGTAAAGAATGA
1 AAAAAATCCAAAAGAATGA
13586903 AA
1 AA
13586905 GAACATTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAAAATCCAAAAGAATGA
Found at i:13589299 original size:17 final size:16
Alignment explanation
Indices: 13589273--13589307 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
13589263 TTCTATGATG
13589273 AAATGCCATGCAGTCAA
1 AAATGCCATGCAG-CAA
*
13589290 AAATGTCATGCAGCAA
1 AAATGCCATGCAGCAA
13589306 AA
1 AA
13589308 GCAAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGCAA
Found at i:13591045 original size:25 final size:26
Alignment explanation
Indices: 13590996--13591051 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
13590986 ACCCTTAAAA
*
13590996 GTATATATTAAAATATGCATATATAT
1 GTATATATAAAAATATGCATATATAT
* *
13591022 -TATATATAAAAATATGCGTGTATAT
1 GTATATATAAAAATATGCATATATAT
13591047 GTATA
1 GTATA
13591052 GCAAATACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.41
Consensus pattern (26 bp):
GTATATATAAAAATATGCATATATAT
Found at i:13591906 original size:25 final size:26
Alignment explanation
Indices: 13591854--13591906 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
13591844 TTATCCCCCC
13591854 TTTTACAGTACTTGAAATCGACCTTT
1 TTTTACAGTACTTGAAATCGACCTTT
*
13591880 TTTTACAGTACTTGAAATCGGCCTTT
1 TTTTACAGTACTTGAAATCGACCTTT
13591906 T
1 T
13591907 ATAGCCGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (26 bp):
TTTTACAGTACTTGAAATCGACCTTT
Found at i:13593406 original size:17 final size:18
Alignment explanation
Indices: 13593386--13593423 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
13593376 GTAAAAATAA
*
13593386 AAAATCA-AATCAAATTG
1 AAAATCATAAACAAATTG
13593403 AAAATCATAAACAAATTG
1 AAAATCATAAACAAATTG
13593421 AAA
1 AAA
13593424 GATTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAATCATAAACAAATTG
Found at i:13595961 original size:19 final size:18
Alignment explanation
Indices: 13595919--13595961 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13595909 GTTTAGAAAT
*
13595919 TATTTTTTATCATACTAA
1 TATTTCTTATCATACTAA
*
13595937 TAATTTCTTATCATAATTAA
1 T-ATTTCTTATCAT-ACTAA
13595957 TATTT
1 TATTT
13595962 TTAAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTCTTATCATACTAA
Found at i:13604473 original size:15 final size:15
Alignment explanation
Indices: 13604453--13604499 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
13604443 TGGTTACTAG
*
13604453 TAATAATAAGGTTAA
1 TAATAATAAGGATAA
*
13604468 TAATAATAATGATAA
1 TAATAATAAGGATAA
* *
13604483 TAATAATGATGATAA
1 TAATAATAAGGATAA
13604498 TA
1 TA
13604500 TATTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (15 bp):
TAATAATAAGGATAA
Found at i:13604482 original size:12 final size:12
Alignment explanation
Indices: 13604467--13604499 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
13604457 AATAAGGTTA
13604467 ATAATAATAATG
1 ATAATAATAATG
13604479 ATAATAATAATG
1 ATAATAATAATG
*
13604491 ATGATAATA
1 ATAATAATA
13604500 TATTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:13606147 original size:87 final size:87
Alignment explanation
Indices: 13606042--13606410 Score: 242
Period size: 87 Copynumber: 4.3 Consensus size: 87
13606032 GACCTACTCT
* * * * * *
13606042 GCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTC-TGACTTCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
13606106 GGATAGTG-TCTTTGATCTGCTCC
65 AGAT-CTGATCTTTGATCTGCTCC
* **
13606129 GCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
* *
13606194 GATCTGAAATTCTTTGGTCTGTTCC
66 GATCTG--A-TCTTTGATCTGCTCC
* * ** * * *
13606219 ACTGTAATCTCA-GGAGATAAGA-C-CTGA-TGT-GATCTTCTCTACTGTAACTTCAGAGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACT-TCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
13606279 AGATC----CTTTAATCCGCTCC
65 AGATCTGATCTTTGATCTGCTCC
** * * ** * * *
13606298 ATTGTAATCTCAAGGAGATAGGAT-TACT-ATCTTTGATCCGCTCCGCTGTAATCTCAGGGAGAT
1 GCTGTAATCTCAGGGAGATAAGATCT-CTGA-CTTCAATCCACTCCACTGTAACCTCAGGGAGAT
* *
13606361 AAGATCTGAAATTCTTTGGTCTGTTCC
64 AAGATCTG--A-TCTTTGATCTGCTCC
*
13606388 ACTGTAATCTCAGGGAGATAAGA
1 GCTGTAATCTCAGGGAGATAAGA
13606411 CCTGTATAAT
Statistics
Matches: 222, Mismatches: 40, Indels: 37
0.74 0.13 0.12
Matches are distributed among these distances:
79 21 0.09
80 9 0.04
81 1 0.00
82 3 0.01
83 29 0.13
86 33 0.15
87 60 0.27
88 2 0.01
89 10 0.05
90 54 0.24
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
GATCTGATCTTTGATCTGCTCC
Found at i:13606178 original size:44 final size:42
Alignment explanation
Indices: 13606082--13606410 Score: 192
Period size: 44 Copynumber: 7.6 Consensus size: 42
13606072 TTTTAATCCA
* **
13606082 CTCCACTGTAA-CTTCAGGGAGATAGGAT-AGTGTCTTTGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTCTG-C-TTGATCTG
* *
13606125 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCT-GCTT-GATCTG
* * * *
13606169 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---CTGC-TTGATCTG
* * *
13606215 TTCCACTGTAATCTCA-GGAGATAAGA-C-CTGATGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCTGCT-TGATCTG
* * * *
13606255 CTCTACTGTAA-CTTCAGAGAGATAAGATC-CT--TTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTCTGCTTGATCTG
* * * * *
13606294 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCCG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-CT-GC-TTGATCTG
* * * *
13606338 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---CTGC-TTGATCTG
*
13606384 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
13606411 CCTGTATAAT
Statistics
Matches: 225, Mismatches: 39, Indels: 41
0.74 0.13 0.13
Matches are distributed among these distances:
39 27 0.12
40 22 0.10
41 9 0.04
42 3 0.01
43 26 0.12
44 68 0.30
45 12 0.05
46 53 0.24
47 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (42 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTCTGCTTGATCTG
Found at i:13619101 original size:15 final size:15
Alignment explanation
Indices: 13619081--13619127 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
13619071 TGGTTACTAG
*
13619081 TAATAATAAGGTTAA
1 TAATAATAAGGATAA
*
13619096 TAATAATAATGATAA
1 TAATAATAAGGATAA
* *
13619111 TAATAATGATGATAA
1 TAATAATAAGGATAA
13619126 TA
1 TA
13619128 TATTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (15 bp):
TAATAATAAGGATAA
Found at i:13619110 original size:12 final size:12
Alignment explanation
Indices: 13619095--13619127 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
13619085 AATAAGGTTA
13619095 ATAATAATAATG
1 ATAATAATAATG
13619107 ATAATAATAATG
1 ATAATAATAATG
*
13619119 ATGATAATA
1 ATAATAATA
13619128 TATTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:13621071 original size:21 final size:22
Alignment explanation
Indices: 13621030--13621072 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13621020 TAATTTTCAT
*
13621030 TTTTTCTATTTAAGTCGAAACA
1 TTTTCCTATTTAAGTCGAAACA
13621052 TTTTCCTATTTAAGTC-AAACA
1 TTTTCCTATTTAAGTCGAAACA
13621073 ACCACTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (22 bp):
TTTTCCTATTTAAGTCGAAACA
Found at i:13621417 original size:29 final size:29
Alignment explanation
Indices: 13621356--13621420 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
13621346 GTCTAATGTG
* * *
13621356 TAATTTTATATATGAAGTTTGATTTTGTT
1 TAATTTTATATATAAAATTTGATTTTGTC
13621385 TAATTTTATATATAAAATTTGA-TTTGATC
1 TAATTTTATATATAAAATTTGATTTTG-TC
13621414 TAATTTT
1 TAATTTT
13621421 CACAAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (29 bp):
TAATTTTATATATAAAATTTGATTTTGTC
Found at i:13625240 original size:14 final size:14
Alignment explanation
Indices: 13625221--13625259 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13625211 TTGTTTCATT
*
13625221 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
13625235 GAAAATGATTTCTG
1 GAAAATGACTTCCG
13625249 GAAAATGACTT
1 GAAAATGACTT
13625260 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:13625871 original size:18 final size:18
Alignment explanation
Indices: 13625833--13625868 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13625823 TTATTATTTT
*
13625833 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
13625851 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
13625869 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:13625883 original size:14 final size:14
Alignment explanation
Indices: 13625866--13625907 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
13625856 TTTAAATATT
13625866 AAATAATTTATTAA
1 AAATAATTTATTAA
*
13625880 AAATAATTAATT-A
1 AAATAATTTATTAA
*
13625893 TAATAATTATATTAA
1 AAATAATT-TATTAA
13625908 TAATTTATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 8 0.35
14 14 0.61
15 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATAATTTATTAA
Found at i:13626010 original size:18 final size:16
Alignment explanation
Indices: 13625956--13626007 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
13625946 TATGTTTAAT
*
13625956 AATA-TTTAAAAATAT
1 AATATTTTAAAAATAA
*
13625971 AATATTTTAAATAATTTA
1 AATATTTTAAA-AA-TAA
13625989 AATATTTTTAAAAATAA
1 AATA-TTTTAAAAATAA
13626006 AA
1 AA
13626008 ATAAATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 6 0.20
18 7 0.23
19 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATTTTAAAAATAA
Found at i:13628848 original size:22 final size:21
Alignment explanation
Indices: 13628811--13628866 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
13628801 TAGGAAACTG
*
13628811 CATCTTATTCTAATCTGTTCTA
1 CATCTTA-TCTGATCTGTTCTA
*
13628833 CATCTGTATCTGATCTGTTTTA
1 CATCT-TATCTGATCTGTTCTA
13628855 CATCTTATCTGA
1 CATCTTATCTGA
13628867 ATTGTTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 7 0.23
22 22 0.71
23 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (21 bp):
CATCTTATCTGATCTGTTCTA
Found at i:13630388 original size:27 final size:27
Alignment explanation
Indices: 13630324--13630381 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
13630314 TACTAGTTGG
13630324 GTTTGCCAGTTGGTTTGGCGAACTGGT
1 GTTTGCCAGTTGGTTTGGCGAACTGGT
13630351 GTTTGCCAGTTGGTTTGGCGAACTGGT
1 GTTTGCCAGTTGGTTTGGCGAACTGGT
13630378 GTTT
1 GTTT
13630382 AGCAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.10, C:0.14, G:0.36, T:0.40
Consensus pattern (27 bp):
GTTTGCCAGTTGGTTTGGCGAACTGGT
Found at i:13630439 original size:26 final size:26
Alignment explanation
Indices: 13630369--13630439 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
13630359 GTTGGTTTGG
* *
13630369 CGAACTGGTGTTTAGCAGTTAAGTTA
1 CGAACTGGTGTTCACCAGTTAAGTTA
** *
13630395 CGAACTGGTGTTCGTCAGTTAAGTTG
1 CGAACTGGTGTTCACCAGTTAAGTTA
*
13630421 TGAACTGGTGTTCACCAGT
1 CGAACTGGTGTTCACCAGT
13630440 CAAAGTTAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (26 bp):
CGAACTGGTGTTCACCAGTTAAGTTA
Done.