Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 73 of 290
Found at i:24065059 original size:40 final size:39
Alignment explanation
Indices: 24065012--24065234 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 39
24065002 GCTAAGCGAA
* *
24065012 TATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATAC
1 TATATCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATAC
* * * *
24065052 TAAATCCGGGTTAAGTCCCGAGGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGATAC
*
24065092 TA-ATTCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTAC
1 TATA-TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGATAC
* *
24065132 TATATCCGGGCTAGGTCTTGAAGGCATTTGTGCGA-ACTAC
1 TATATCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGA-TAC
*
24065172 TATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGC
1 TATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGATA-C
*
24065212 TATATCC-GGTTAAGTCCCGAAGG
1 TATATCCGGGCTAAGT-CCGAAGG
24065235 TACCATATGA
Statistics
Matches: 160, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 20 0.12
40 138 0.86
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATAC
Found at i:24071657 original size:48 final size:47
Alignment explanation
Indices: 24071586--24071681 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 47
24071576 AGAAAAAGAA
24071586 GGGAAAGAGCTTGGAGAAAATCGGCTATGGTGGTTCACTAGACTAAG
1 GGGAAAGAGCTTGGAGAAAATCGGCTATGGTGGTTCACTAGACTAAG
*
24071633 NGGGAAAGAGCTTGGAGAAAATCGGTTATGGTGGTTCACTAGACTAAG
1 -GGGAAAGAGCTTGGAGAAAATCGGCTATGGTGGTTCACTAGACTAAG
24071681 G
1 G
24071682 TATGTTGATG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 1 0.02
48 46 0.98
ACGTcount: A:0.31, C:0.11, G:0.34, T:0.22
Consensus pattern (47 bp):
GGGAAAGAGCTTGGAGAAAATCGGCTATGGTGGTTCACTAGACTAAG
Found at i:24075362 original size:25 final size:25
Alignment explanation
Indices: 24075328--24075375 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
24075318 AATTGTCAAT
24075328 TCATTTATATGCATGACCTTTATAC
1 TCATTTATATGCATGACCTTTATAC
24075353 TCATTTATATGCATGACCTTTAT
1 TCATTTATATGCATGACCTTTAT
24075376 TTTTTTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (25 bp):
TCATTTATATGCATGACCTTTATAC
Found at i:24090040 original size:35 final size:35
Alignment explanation
Indices: 24089994--24090063 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
24089984 GGCCCAAACA
*
24089994 AAACGAATCAAACACAAAAAGTAGAAATAGTTTTC
1 AAACGAATCAAACACAAAAACTAGAAATAGTTTTC
24090029 AAACGAATCAAACACAAAAACTAGAAATAGTTTTC
1 AAACGAATCAAACACAAAAACTAGAAATAGTTTTC
24090064 TTTTCTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.54, C:0.16, G:0.10, T:0.20
Consensus pattern (35 bp):
AAACGAATCAAACACAAAAACTAGAAATAGTTTTC
Found at i:24100574 original size:30 final size:29
Alignment explanation
Indices: 24100540--24100606 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 29
24100530 ACCCTTTTAC
* *
24100540 AGATTTTATAGTTTTGCCACTGGTTTTTCT
1 AGATTTTATAGTTCTGCCACT-GTTTTTCA
24100570 AGATTTTATAGTTCTGCCACTGTTTTTCA
1 AGATTTTATAGTTCTGCCACTGTTTTTCA
*
24100599 AAATTTTA
1 AGATTTTA
24100607 CAATTTTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.51
Consensus pattern (29 bp):
AGATTTTATAGTTCTGCCACTGTTTTTCA
Found at i:24110187 original size:86 final size:85
Alignment explanation
Indices: 24110097--24110295 Score: 197
Period size: 86 Copynumber: 2.3 Consensus size: 85
24110087 TTAAAGGTGT
* * *
24110097 AAAAAGTCCTCAAATTTTTTTTCAAAAAAAGCAATTAAG-CTTTTTTTTTTGCACTCAATTGAGC
1 AAAAAGCCCTCAAA-TTTTTTTCAAAAAAAGCAATTAAGACCTGTTTTTTT-CACTCAATTGAGC
*
24110161 ACTTGAACTTTCAAAATGCATC
64 ACTTGAACTTTCAAAATGCAAC
** *** * * * *
24110183 AAAAAGGCTTTC-AAGCATTTTCAAGAAAAGCAATTACGCACCTGTTTTTTTCACTCAATTGGGT
1 AAAAA-GCCCTCAAATTTTTTTCAAAAAAAGCAATTAAG-ACCTGTTTTTTTCACTCAATTGAGC
*
24110247 ACTTGAACTTTCAAAATGTAAC
64 ACTTGAACTTTCAAAATGCAAC
*
24110269 AAAAAGACCCTCAAAATTTTTT-AAAAA
1 AAAAAG-CCCTCAAATTTTTTTCAAAAA
24110296 TATAATTACG
Statistics
Matches: 88, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
85 20 0.23
86 50 0.57
87 18 0.20
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (85 bp):
AAAAAGCCCTCAAATTTTTTTCAAAAAAAGCAATTAAGACCTGTTTTTTTCACTCAATTGAGCAC
TTGAACTTTCAAAATGCAAC
Found at i:24110212 original size:85 final size:85
Alignment explanation
Indices: 24110115--24110274 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 85
24110105 CTCAAATTTT
* *
24110115 TTTTCAAAAAAAGCAATTAAG-CTTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATG
1 TTTTCAAAAAAAGCAATTAAGACCTGTTTTTTT-CACTCAATTGAGCACTTGAACTTTCAAAATG
*
24110179 CATCAAAAAGGCTTTCAAGCA
65 CAACAAAAAGGCTTTCAAGCA
* * * *
24110200 TTTTCAAGAAAAGCAATTACGCACCTGTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATG
1 TTTTCAAAAAAAGCAATTAAG-ACCTGTTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATG
*
24110265 TAACAAAAAG
65 CAACAAAAAG
24110275 ACCCTCAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
85 19 0.29
86 37 0.57
87 9 0.14
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (85 bp):
TTTTCAAAAAAAGCAATTAAGACCTGTTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGC
AACAAAAAGGCTTTCAAGCA
Found at i:24110720 original size:9 final size:9
Alignment explanation
Indices: 24110680--24110747 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
24110670 CTTAATAAAA
24110680 TTTTATAAT
1 TTTTATAAT
*
24110689 TTTT-TTAT
1 TTTTATAAT
*
24110697 ATTTATATAT
1 TTTTATA-AT
24110707 ATTTTATAAT
1 -TTTTATAAT
**
24110717 TTTTACGAT
1 TTTTATAAT
24110726 TTTTAT-AT
1 TTTTATAAT
*
24110734 TTTTCTAAT
1 TTTTATAAT
24110743 TTTTA
1 TTTTA
24110748 ATATTTGAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
8 13 0.28
9 23 0.50
10 4 0.09
11 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:24110928 original size:92 final size:89
Alignment explanation
Indices: 24110832--24111060 Score: 245
Period size: 92 Copynumber: 2.6 Consensus size: 89
24110822 AATTTTTAAT
*
24110832 AAAAACATGGGCTTAATTGTTTTTTCTTTGAAAAAGTTTGAGAGTATTTTTGATGTATTTTGAAA
1 AAAAACA-GGGCTTAATTGTTTTTTCTTT-AAAAAGTTTGAGAGT-TTTTTGATGCATTTTGAAA
* *
24110897 GTTCAAGCATCCAATTGAGTGCAAAAA
63 GTTCAAGCACCCAAATGAGTGCAAAAA
* * * *
24110924 AAAAAGCAGAGGCTTAATTGCTTTTTTC--TAAAAAGCATTGAGGGCCTTTTTCATGCATTTTGA
1 AAAAA-CAG-GGCTTAATTG-TTTTTTCTTTAAAAAG-TTTGAGAG-TTTTTTGATGCATTTTGA
*
24110987 AAGTTCAAGTACCCAAATGAGTGCAAAAA
61 AAGTTCAAGCACCCAAATGAGTGCAAAAA
* * *
24111016 AAAAA-AAGACTTAATTG--TTTT-TTTAAAAAGTTTGAGAATTTTTTG
1 AAAAACAGGGCTTAATTGTTTTTTCTTTAAAAAGTTTGAGAGTTTTTTG
24111061 CACCCTTAAG
Statistics
Matches: 115, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
85 5 0.04
86 9 0.08
87 7 0.06
89 9 0.08
90 1 0.01
91 6 0.05
92 59 0.51
93 12 0.10
94 7 0.06
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (89 bp):
AAAAACAGGGCTTAATTGTTTTTTCTTTAAAAAGTTTGAGAGTTTTTTGATGCATTTTGAAAGTT
CAAGCACCCAAATGAGTGCAAAAA
Found at i:24118629 original size:18 final size:18
Alignment explanation
Indices: 24118608--24118642 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24118598 AATTAATATT
24118608 GGAAATAAATTTAAATTG
1 GGAAATAAATTTAAATTG
24118626 GGAAATAAATTTAAATT
1 GGAAATAAATTTAAATT
24118643 TTTGTAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (18 bp):
GGAAATAAATTTAAATTG
Found at i:24119492 original size:6 final size:6
Alignment explanation
Indices: 24119481--24119514 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
24119471 TTCAACATAT
*
24119481 AATTAA AATTAA AATT-A AATAAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTA
24119515 TATATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:24130493 original size:20 final size:19
Alignment explanation
Indices: 24130457--24130506 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
24130447 AAGGGCTATT
24130457 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTAAAATAA
*
24130476 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTAAAATAA
*
24130496 TTGAAAATGTG
1 TTGTAAATGTG
24130507 AGTTGCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTAAATGTGTAAAATAA
Found at i:24131200 original size:48 final size:47
Alignment explanation
Indices: 24131076--24131283 Score: 208
Period size: 46 Copynumber: 4.4 Consensus size: 47
24131066 TATGTGTGCT
* *
24131076 AGTGTAAGACATGTTTGGGACATGCATCGG-C-C-ACATTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATTAC-A-AGCC
* *
24131122 AGTGTAAGACGTGTCTGGGACATGCGTCGGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-TACAAGCC
* * * * * * * * *
24131170 AGTGAAAGACATGTTTCGGAAATGCATCGGCATTGAGATGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATTACAAGCC
* *
24131216 ATTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-TACAAGCC
*
24131264 AGTGTAAGACCTGTCTGGGA
1 AGTGTAAGACATGTCTGGGA
24131284 TTTGGCGTCA
Statistics
Matches: 130, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
46 62 0.48
47 3 0.02
48 58 0.45
49 4 0.03
50 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATTACAAGCC
Found at i:24131364 original size:49 final size:48
Alignment explanation
Indices: 24131307--24131479 Score: 161
Period size: 49 Copynumber: 3.6 Consensus size: 48
24131297 TGTTGTGTGT
* *
24131307 CAGTGTAAGACTTGTCTGGGACATGGCATCAACACTGATAGATGAGAGC
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGAC-CTGATAGATGAAAGC
* * * * * * *
24131356 CAGTGTAAGACCTATCTGGGACATGGAATCGGCCTCAATATATGAAAGT
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGACCT-GATAGATGAAAGC
* * **
24131405 TAGTGTAAGACTTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGAC-CTGATAGATGAAAGC
* *
24131452 CAGTGTAATACCATGTCTGGGACATGGC
1 CAGTGTAAGA-CTTGTCTGGGACATGGC
24131480 GACGACTTCT
Statistics
Matches: 98, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
47 12 0.12
48 18 0.18
49 67 0.68
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACTTGTCTGGGACATGGCATCGACCTGATAGATGAAAGC
Found at i:24142093 original size:13 final size:13
Alignment explanation
Indices: 24142075--24142102 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24142065 GATTCTATTT
24142075 TAGAATAGATCAA
1 TAGAATAGATCAA
24142088 TAGAATAGATCAA
1 TAGAATAGATCAA
24142101 TA
1 TA
24142103 TATCATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (13 bp):
TAGAATAGATCAA
Found at i:24150725 original size:113 final size:113
Alignment explanation
Indices: 24150588--24150812 Score: 441
Period size: 113 Copynumber: 2.0 Consensus size: 113
24150578 GCCGAAGTCA
24150588 CAAAAGCCGAAATCCTATGATCACTGCTTGTGCCGATTTCTTCAAAGCCAGGTCCTTCTATGTTC
1 CAAAAGCCGAAATCCTATGATCACTGCTTGTGCCGATTTCTTCAAAGCCAGGTCCTTCTATGTTC
24150653 TTTTGTTTTTATTAAATCTACGATTATCTTTTCTTAATCCTAGATACG
66 TTTTGTTTTTATTAAATCTACGATTATCTTTTCTTAATCCTAGATACG
*
24150701 CAAAAGCCGAAATCCTGTGATCACTGCTTGTGCCGATTTCTTCAAAGCCAGGTCCTTCTATGTTC
1 CAAAAGCCGAAATCCTATGATCACTGCTTGTGCCGATTTCTTCAAAGCCAGGTCCTTCTATGTTC
24150766 TTTTGTTTTTATTAAATCTACGATTATCTTTTCTTAATCCTAGATAC
66 TTTTGTTTTTATTAAATCTACGATTATCTTTTCTTAATCCTAGATAC
24150813 CTGACGGTAA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (113 bp):
CAAAAGCCGAAATCCTATGATCACTGCTTGTGCCGATTTCTTCAAAGCCAGGTCCTTCTATGTTC
TTTTGTTTTTATTAAATCTACGATTATCTTTTCTTAATCCTAGATACG
Found at i:24157717 original size:43 final size:44
Alignment explanation
Indices: 24157562--24157718 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 44
24157552 TGTGTTATCG
* * *
24157562 TGTAAGACCACATTTGGGAC-GTTGGCATC-A-ACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACAGTTGGCATCGATA-TT-TGA-TTACA
* * * * * *
24157606 TGTAAGACCATGTCTTGGACA-TCGACAGCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGGGACAGTTGGCATCGATATTTGATTACA
* *
24157648 TGTAAGACC-CTGTTTAGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTTGGCATCGATATTTGATTACA
24157691 TGTAAGACCACGTCTGGGA-AGTTGGCAT
1 TGTAAGACCACGTCTGGGACAGTTGGCAT
24157719 TGTATGAGCT
Statistics
Matches: 87, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
42 27 0.31
43 35 0.40
44 24 0.28
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACAGTTGGCATCGATATTTGATTACA
Found at i:24158314 original size:10 final size:10
Alignment explanation
Indices: 24158299--24158323 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24158289 ATATGAAATG
24158299 TGATGCAATA
1 TGATGCAATA
24158309 TGATGCAATA
1 TGATGCAATA
24158319 TGATG
1 TGATG
24158324 TGTTTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (10 bp):
TGATGCAATA
Found at i:24169914 original size:21 final size:21
Alignment explanation
Indices: 24169851--24169918 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
24169841 GGGGTCTACC
**
24169851 CGCCCATGTG-AAGGCCACACA
1 CGCCCATGTGAAAGG-GGCACA
*
24169872 CGCCCGTGTGAAAGGGGCACA
1 CGCCCATGTGAAAGGGGCACA
*
24169893 CGCCCATGTG-AAGAGGGTACA
1 CGCCCATGTGAAAG-GGGCACA
24169914 CGCCC
1 CGCCC
24169919 GTGTAAGTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.08
21 33 0.82
22 4 0.10
ACGTcount: A:0.25, C:0.34, G:0.31, T:0.10
Consensus pattern (21 bp):
CGCCCATGTGAAAGGGGCACA
Found at i:24171240 original size:25 final size:25
Alignment explanation
Indices: 24171212--24171261 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24171202 TTTGGCTTGG
* *
24171212 CATTTACTAAGCAATGTCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
24171237 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
24171262 TAAATTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:24172282 original size:21 final size:21
Alignment explanation
Indices: 24172234--24172275 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24172224 TGCTTGAAAC
* * *
24172234 GACATACGAGGTGCCTGATAT
1 GACACACGAGGTGCCTAAAAT
24172255 GACACACGAGGTGCCTAAAAT
1 GACACACGAGGTGCCTAAAAT
24172276 ACGACACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (21 bp):
GACACACGAGGTGCCTAAAAT
Found at i:24172291 original size:23 final size:23
Alignment explanation
Indices: 24172265--24172318 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
24172255 GACACACGAG
24172265 GTGCCTAAAATACGACACATAAA
1 GTGCCTAAAATACGACACATAAA
* * *
24172288 GTGCTTGATATACGACACATAAA
1 GTGCCTAAAATACGACACATAAA
24172311 GTGCCTAA
1 GTGCCTAA
24172319 TCAGCAAAGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (23 bp):
GTGCCTAAAATACGACACATAAA
Found at i:24187574 original size:27 final size:27
Alignment explanation
Indices: 24187544--24187721 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24187534 ATATTGAGTC
* * * *
24187544 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24187571 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24187598 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24187626 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24187653 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24187680 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24187707 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24187722 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24187683 original size:82 final size:81
Alignment explanation
Indices: 24187565--24187720 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24187555 TGCTATATAA
* *
24187565 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24187630 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24187647 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24187711 CACTTAGTGC
65 CACTTAGTGC
24187721 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24190052 original size:60 final size:60
Alignment explanation
Indices: 24189961--24190099 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
24189951 ATTAGAGTTA
* * *
24189961 ATTGGGCCTTAGCCTATATCAATATTAATCTGGGCCATAGCCC-ATTTC-AGTATCAGAGTAT
1 ATTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGT-TCAGA-TAT
* * *
24190022 ATTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTTGAGATAT
1 ATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTTCAGATAT
* *
24190082 ATTAGGCCTTGCCCATAT
1 ATTGGGCCTAGCCCATAT
24190100 TAACATAGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
60 49 0.72
61 16 0.24
62 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (60 bp):
ATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTTCAGATAT
Found at i:24190063 original size:28 final size:27
Alignment explanation
Indices: 24189963--24190063 Score: 85
Period size: 28 Copynumber: 3.4 Consensus size: 27
24189953 TAGAGTTAAT
* * *
24189963 TGGGCCTTAGCCTATATCAATATTAATC
1 TGGGCC-TAGCCCATATCAGTATCAATC
* *
24189991 TGGGCCATAGCCCATTTCAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAGTATC--A--AT-C
24190024 TGGGCCTAGCCCATATCAGTATCAATC
1 TGGGCCTAGCCCATATCAGTATCAATC
24190051 TGGGCCGTAGCCC
1 TGGGCC-TAGCCC
24190064 TATTACAAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
27 6 0.10
28 27 0.46
30 2 0.03
32 18 0.31
33 6 0.10
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (27 bp):
TGGGCCTAGCCCATATCAGTATCAATC
Found at i:24197513 original size:79 final size:80
Alignment explanation
Indices: 24197377--24197561 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
24197367 TTGAATGATG
* *
24197377 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
24197442 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
24197456 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
24197518 ATTGTGCGAGTTACTATA
63 ATTGTGCGAGATACTATA
* *
24197536 ACCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
24197562 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:24197568 original size:40 final size:40
Alignment explanation
Indices: 24197377--24197561 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
24197367 TTGAATGATG
* * * *
24197377 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
24197417 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
24197457 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24197496 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
24197537 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24197562 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24197583 original size:79 final size:79
Alignment explanation
Indices: 24197430--24197594 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
24197420 GGACTAAGAT
* * **
24197430 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
24197495 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
24197509 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* * *
24197572 TATAT-CTGGTTAAATT
63 TAAATCCGGGTTAAATC
24197588 CCGAAGG
1 CCGAAGG
24197595 TAAGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.67
80 22 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:24205104 original size:40 final size:39
Alignment explanation
Indices: 24205060--24205164 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
24205050 AGTGACCATA
*
24205060 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
24205100 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
24205138 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
24205165 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24205121 original size:39 final size:40
Alignment explanation
Indices: 24205020--24205183 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
24205010 TTGAATGATG
* *
24205020 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
24205060 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
24205099 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
24205139 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
24205179 TCCGG
1 TCCGG
24205184 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:24205183 original size:79 final size:80
Alignment explanation
Indices: 24205020--24205170 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
24205010 TTGAATGATG
*
24205020 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
24205085 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
24205100 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
24205162 TTGAACGAG
64 TTGAACGAG
24205171 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:24213519 original size:48 final size:48
Alignment explanation
Indices: 24213440--24213673 Score: 228
Period size: 48 Copynumber: 5.0 Consensus size: 48
24213430 CACATGGTAG
* * * * *
24213440 GATGCCAATTCCATATCCCGGAAATGGTCTTACATTGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *** **
24213488 GATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATTGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
24213536 GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATAGC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * ** *
24213584 GATGCCAAT---A--ACCCAG-CTATGGTCTTACACGAAATCACATATT
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * *
24213627 GATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCATATAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
24213674 AACCCTAATG
Statistics
Matches: 146, Mismatches: 33, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
45 1 0.01
46 1 0.01
48 110 0.75
49 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:24216955 original size:68 final size:66
Alignment explanation
Indices: 24216881--24217028 Score: 165
Period size: 67 Copynumber: 2.2 Consensus size: 66
24216871 CATCATGTGT
* * * *
24216881 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
24216944 TGTAG
62 TGTAG
* * * *
24216949 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGTATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
24217014 AG
65 AG
24217016 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
24217029 GAGATAAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 23 0.33
65 3 0.04
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:24219614 original size:43 final size:43
Alignment explanation
Indices: 24219548--24219720 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
24219538 AGCTCGTACA
* ** *
24219548 ATGCC-ATATCCCAGATATAGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACATATCG
* * * * *
24219590 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACATATCG
* * * *
24219633 ATGTCAATGTCCCCGA-CGTGGTCTTACACT-TAATCACA-ATACA
1 ATGCCAATGTCCCAGATAG-GGTCTTACA-TGTAATCACATAT-CG
* * *
24219676 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACATATCG
24219719 AT
1 AT
24219721 AACCTAATGT
Statistics
Matches: 100, Mismatches: 24, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
42 8 0.08
43 91 0.91
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACATATCG
Found at i:24220227 original size:26 final size:26
Alignment explanation
Indices: 24220198--24220305 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
24220188 TGGTACAAAT
24220198 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
24220224 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24220250 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
24220276 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24220302 TGAT
1 TGAT
24220306 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:24221976 original size:27 final size:27
Alignment explanation
Indices: 24221925--24222092 Score: 207
Period size: 27 Copynumber: 6.2 Consensus size: 27
24221915 AGGAAGCGTC
* * *
24221925 CTGGTGACTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
* *
24221952 CTCGTGGCTCTGCCACATATGTCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* *
24221979 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGTT
*
24222006 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
24222033 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
24222060 CTGGTGGCTCTACCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTGT-T
24222087 CTGGTG
1 CTGGTG
24222093 ACTTCGTCAC
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.08
27 111 0.90
28 3 0.02
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:24222007 original size:54 final size:53
Alignment explanation
Indices: 24221925--24222092 Score: 230
Period size: 54 Copynumber: 3.1 Consensus size: 53
24221915 AGGAAGCGTC
* * *
24221925 CTGGTGACTATGCCACAATTATCTGATCTCGTGGCTCTGCCACATATGTCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
24221979 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
24222033 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACA-ATATCTGTAT
1 CTGGTGGCTATGCCACAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-T
24222087 CTGGTG
1 CTGGTG
24222093 ACTTCGTCAC
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 10 0.10
54 93 0.90
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:24222060 original size:81 final size:80
Alignment explanation
Indices: 24221925--24222110 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 80
24221915 AGGAAGCGTC
* *
24221925 CTGGTGACTATGCCACAATTATCTGATCTCGTGGCTCTGCCACATATGTCTGTTCTGGTGGCTAT
1 CTGGTGACTTTGCCACAA-TATCTGATCTCGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
* *
24221990 GCCACGATTATCTG-AT
65 ACCAC-AATATCTGTAT
* * * *
24222006 CTGGTGGCTTTGCCACATATATCTGTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGACTTTGCCACA-ATATCTGATCTCGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
24222071 ACCACAATATCTGTAT
65 ACCACAATATCTGTAT
* *
24222087 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGACTTTGCCACAATATCTG
24222111 GCAGCCTCGC
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 14 0.15
81 77 0.84
82 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGACTTTGCCACAATATCTGATCTCGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATA
CCACAATATCTGTAT
Found at i:24222103 original size:27 final size:26
Alignment explanation
Indices: 24221936--24222110 Score: 160
Period size: 27 Copynumber: 6.5 Consensus size: 26
24221926 TGGTGACTAT
* *
24221936 GCCACA-ATTATCTGATCTCGTGGCTC
1 GCCACATA-TATCTGTTCTGGTGGCTC
* *
24221962 TGCCACATATGTCTGTTCTGGTGGCTAT
1 -GCCACATATATCTGTTCTGGTGGCT-C
* *
24221990 GCCACGAT-TATCTGATCTGGTGGCTTT
1 GCCAC-ATATATCTGTTCTGGTGGC-TC
24222017 GCCACATATATCTGTTCTGGTGGCTC
1 GCCACATATATCTGTTCTGGTGGCTC
24222043 TGCCACATATATCTGTTCTGGTGGCTC
1 -GCCACATATATCTGTTCTGGTGGCTC
* *
24222070 TACCACA-ATATCTGTATCTGGTGACTTC
1 -GCCACATATATCTGT-TCTGGTGGC-TC
*
24222098 GTCACA-ATATCTG
1 GCCACATATATCTG
24222111 GCAGCCTCGC
Statistics
Matches: 128, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.09
27 111 0.87
28 6 0.05
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
GCCACATATATCTGTTCTGGTGGCTC
Found at i:24224812 original size:12 final size:12
Alignment explanation
Indices: 24224791--24224824 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
24224781 ATGATATCTA
24224791 CAAG-AAAACAT
1 CAAGTAAAACAT
24224802 CAAGTAAAACAT
1 CAAGTAAAACAT
24224814 CAAGTAAAACA
1 CAAGTAAAACA
24224825 AGTAAGCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (12 bp):
CAAGTAAAACAT
Found at i:24236277 original size:3 final size:3
Alignment explanation
Indices: 24236271--24236295 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24236261 AAAAGAAAAA
24236271 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
24236296 CCCAAATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24246338 original size:46 final size:44
Alignment explanation
Indices: 24246279--24246393 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
24246269 ACAGGACAGA
* *
24246279 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
24246325 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
24246369 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
24246394 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:24246374 original size:44 final size:45
Alignment explanation
Indices: 24246279--24246412 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
24246269 ACAGGACAGA
* *
24246279 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
24246325 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
24246369 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
24246413 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:24253112 original size:87 final size:87
Alignment explanation
Indices: 24252966--24253140 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
24252956 CTTTACGTTT
*
24252966 TTAAGTCCCGGTAGCTCGATAAAGATTATGCTAGCAATAATTTAAGTTAGGAATCAAATTTGGAA
1 TTAAGTCCCGGTAGCTCGATAAAGATTATGCTAGCAATAATTTAAGTTACGAATCAAATTTGGAA
24253031 AAATACCCATAGGTGAAATTTG
66 AAATACCCATAGGTGAAATTTG
*
24253053 TTAAGTCCCGGTAGCTCGATAAAGCTTATGCTAGCAATAATTTAAGTTACGAATCAAATTTGGAA
1 TTAAGTCCCGGTAGCTCGATAAAGATTATGCTAGCAATAATTTAAGTTACGAATCAAATTTGGAA
24253118 AAATACCCATAGGTGAAATTTG
66 AAATACCCATAGGTGAAATTTG
24253140 T
1 T
24253141 GTATTTTGAT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (87 bp):
TTAAGTCCCGGTAGCTCGATAAAGATTATGCTAGCAATAATTTAAGTTACGAATCAAATTTGGAA
AAATACCCATAGGTGAAATTTG
Found at i:24253463 original size:180 final size:180
Alignment explanation
Indices: 24253161--24253520 Score: 702
Period size: 180 Copynumber: 2.0 Consensus size: 180
24253151 GTTTTATGGT
24253161 GGAATATGAGGCTTTAAATTATGTTAGACAACTTGTGCTACTTGGTTTTAAGTGAAAACGAGTAA
1 GGAATATGAGGCTTTAAATTATGTTAGACAACTTGTGCTACTTGGTTTTAAGTGAAAACGAGTAA
24253226 AAAGGCTTAATCGATAAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTG
66 AAAGGCTTAATCGATAAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTG
*
24253291 TCATAGAAGGGGAAAATGATCAGTATGTCATAAAACATAAGAAAATAGGA
131 TCATAGAAGGGAAAAATGATCAGTATGTCATAAAACATAAGAAAATAGGA
24253341 GGAATATGAGGCTTTAAATTATGTTAGACAACTTGTGCTACTTGGTTTTAAGTGAAAACGAGTAA
1 GGAATATGAGGCTTTAAATTATGTTAGACAACTTGTGCTACTTGGTTTTAAGTGAAAACGAGTAA
*
24253406 AAAGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTG
66 AAAGGCTTAATCGATAAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTG
24253471 TCATAGAAGGGAAAAATGATCAGTATGTCATAAAACATAAGAAAATAGGA
131 TCATAGAAGGGAAAAATGATCAGTATGTCATAAAACATAAGAAAATAGGA
24253521 TGAAGTTTAA
Statistics
Matches: 178, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 178 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (180 bp):
GGAATATGAGGCTTTAAATTATGTTAGACAACTTGTGCTACTTGGTTTTAAGTGAAAACGAGTAA
AAAGGCTTAATCGATAAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTG
TCATAGAAGGGAAAAATGATCAGTATGTCATAAAACATAAGAAAATAGGA
Found at i:24253991 original size:46 final size:44
Alignment explanation
Indices: 24253932--24254046 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
24253922 ACAGGACAGA
* *
24253932 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
24253978 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
24254022 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
24254047 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:24254027 original size:44 final size:45
Alignment explanation
Indices: 24253932--24254065 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
24253922 ACAGGACAGA
* *
24253932 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
24253978 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
24254022 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
24254066 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:24257932 original size:30 final size:30
Alignment explanation
Indices: 24257896--24257956 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
24257886 CAACATTGTG
24257896 TCTGACACAAATATCACCTAAAGGAAAGTA
1 TCTGACACAAATATCACCTAAAGGAAAGTA
* *
24257926 TCTGACACAAATATCACCTGAAGGGAAGTA
1 TCTGACACAAATATCACCTAAAGGAAAGTA
24257956 T
1 T
24257957 TTTACCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (30 bp):
TCTGACACAAATATCACCTAAAGGAAAGTA
Found at i:24258759 original size:15 final size:15
Alignment explanation
Indices: 24258739--24258770 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
24258729 AAAGAAAGAA
24258739 ATCAATAAAGTGGCC
1 ATCAATAAAGTGGCC
24258754 ATCAATAAAGTGGCC
1 ATCAATAAAGTGGCC
24258769 AT
1 AT
24258771 TAAACCTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (15 bp):
ATCAATAAAGTGGCC
Found at i:24268959 original size:43 final size:43
Alignment explanation
Indices: 24268906--24268988 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
24268896 AGGTTATCAA
* *
24268906 ATTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATTGAGATTACATGTAAGACCATGTCCGGGACATTGGCATTGT
*
24268949 ATTGAGATTACGTGTAAGACCATGTCCGGGACATTGGCAT
1 ATTGAGATTACATGTAAGACCATGTCCGGGACATTGGCAT
24268989 CGTTAATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
ATTGAGATTACATGTAAGACCATGTCCGGGACATTGGCATTGT
Found at i:24269007 original size:43 final size:43
Alignment explanation
Indices: 24268906--24269017 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
24268896 AGGTTATCAA
* * * *
24268906 ATTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATTGAGATTACGTGTAAGACCATGTCCGGGACATTGGCATCGT
24268949 ATTGAGATTACGTGTAAGACCATGTCCGGGACATTGGCATCGTT
1 ATTGAGATTACGTGTAAGACCATGTCCGGGACATTGGCATCG-T
* *
24268993 AATTGA-TTTA-GTGTAAGACCCTGTC
1 -ATTGAGATTACGTGTAAGACCATGTC
24269018 TGAAACAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 52 0.85
44 4 0.07
45 5 0.08
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
ATTGAGATTACGTGTAAGACCATGTCCGGGACATTGGCATCGT
Found at i:24274915 original size:17 final size:17
Alignment explanation
Indices: 24274893--24274935 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
24274883 CTTGAATTTT
*
24274893 TATAAATTATTTTTAAA
1 TATAAAGTATTTTTAAA
24274910 TATAAAGTATTTTTAAA
1 TATAAAGTATTTTTAAA
24274927 TATAAAGTA
1 TATAAAGTA
24274936 AATTCAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
TATAAAGTATTTTTAAA
Found at i:24275950 original size:8 final size:7
Alignment explanation
Indices: 24275934--24275981 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
24275924 TACAGCCTTT
24275934 GGGTTTA
1 GGGTTTA
24275941 GGGTTTTA
1 GGG-TTTA
24275949 GGGTTTA
1 GGGTTTA
*
24275956 AGGTTTAA
1 GGGTTT-A
**
24275964 GATTTTA
1 GGGTTTA
24275971 GGGTTTA
1 GGGTTTA
24275978 GGGT
1 GGGT
24275982 AAGTTTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 22 0.67
8 11 0.33
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:24275954 original size:15 final size:15
Alignment explanation
Indices: 24275934--24275981 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
24275924 TACAGCCTTT
24275934 GGGTTTAGGGTTTTA
1 GGGTTTAGGGTTTTA
* *
24275949 GGGTTTAAGGTTTAA
1 GGGTTTAGGGTTTTA
**
24275964 GATTTTAGGG-TTTA
1 GGGTTTAGGGTTTTA
24275978 GGGT
1 GGGT
24275982 AAGTTTATAA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
GGGTTTAGGGTTTTA
Found at i:24275969 original size:22 final size:22
Alignment explanation
Indices: 24275935--24275977 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24275925 ACAGCCTTTG
* *
24275935 GGTTTAGGGTTTTAGGGTTTAA
1 GGTTTAAGATTTTAGGGTTTAA
24275957 GGTTTAAGATTTTAGGGTTTA
1 GGTTTAAGATTTTAGGGTTTA
24275978 GGGTAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (22 bp):
GGTTTAAGATTTTAGGGTTTAA
Found at i:24276799 original size:26 final size:24
Alignment explanation
Indices: 24276762--24276809 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
24276752 TTATTTTAAT
*
24276762 ATTTGTTTTTATGTTTTTAAATAC
1 ATTTGTTTTTATATTTTTAAATAC
24276786 ATTTGATTTATTATATTTTTAAAT
1 ATTTG-TTT-TTATATTTTTAAAT
24276810 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 13 0.62
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
ATTTGTTTTTATATTTTTAAATAC
Found at i:24283198 original size:43 final size:43
Alignment explanation
Indices: 24283146--24283401 Score: 367
Period size: 43 Copynumber: 6.0 Consensus size: 43
24283136 ATATCATACA
* * * *
24283146 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCATATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
24283189 ATGCTAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
24283232 ATTCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
*
24283275 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
24283318 ATGCCAACGTCCCAAACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
24283361 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCACATAT
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATAT
24283402 AAAAAATCCT
Statistics
Matches: 193, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
42 5 0.03
43 185 0.96
44 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:24283376 original size:129 final size:129
Alignment explanation
Indices: 24283146--24283401 Score: 431
Period size: 129 Copynumber: 2.0 Consensus size: 129
24283136 ATATCATACA
* * * * * *
24283146 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCATATATCAATGCTAACGTCCCAGACGTGGT
1 ATGCCAACATCCCAAACGTGGTCTTACACGTAATCACATATCAATGCCAACGTCCCAAACATGGT
*
24283211 CTTACACGTAATCACATATCGATTCCACTGTCCCAGACAGGGTCTTACACGTAATCACATATCG
66 CTTACACGTAATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATATCG
* *
24283275 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAAACATGGT
1 ATGCCAACATCCCAAACGTGGTCTTACACGTAATCACATATCAATGCCAACGTCCCAAACATGGT
24283340 CTTACACGTAATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATAT
66 CTTACACGTAATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATAT
24283402 AAAAAATCCT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 118 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (129 bp):
ATGCCAACATCCCAAACGTGGTCTTACACGTAATCACATATCAATGCCAACGTCCCAAACATGGT
CTTACACGTAATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATATCG
Found at i:24284311 original size:22 final size:21
Alignment explanation
Indices: 24284286--24284335 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
24284276 TGGACTGAAT
*
24284286 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAA-ATAAA-TAAATAAAA
24284308 ATAAATAAATAAATAAATAAAA
1 ATAAA-AAATAAATAAATAAAA
24284330 ATAAAA
1 ATAAAA
24284336 CATTACAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 17 0.68
23 2 0.08
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
ATAAAAAATAAATAAATAAAA
Found at i:24284313 original size:4 final size:4
Alignment explanation
Indices: 24284295--24284328 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
24284285 TATAAAAATT
24284295 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
24284329 AATAAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:24285933 original size:23 final size:22
Alignment explanation
Indices: 24285882--24285933 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
24285872 CCTCGTCTTT
*
24285882 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
24285904 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
24285927 TTCTTTT
1 TTCTTTT
24285934 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:24285948 original size:18 final size:18
Alignment explanation
Indices: 24285927--24285965 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24285917 TTTCTTCAAC
* *
24285927 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
24285945 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
24285963 TTC
1 TTC
24285966 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:24288341 original size:22 final size:23
Alignment explanation
Indices: 24288316--24288375 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
24288306 TGGACTGAAT
24288316 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
24288338 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
24288360 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
24288376 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:24288343 original size:4 final size:4
Alignment explanation
Indices: 24288325--24288358 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
24288315 TATAAAAATT
24288325 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
24288359 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:24292908 original size:27 final size:27
Alignment explanation
Indices: 24292410--24292888 Score: 566
Period size: 27 Copynumber: 17.8 Consensus size: 27
24292400 ATATATACAT
*
24292410 CACAT-AGGGCAAATCAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* * * *
24292436 CATATAAGGACAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* * * *
24292463 CACACAAGAGAAAAATAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* * * *
24292490 CATATAAGGGCAAAATAGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATCTTAC
*
24292517 CACATAAGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
*
24292544 CAAATAAGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* * * *
24292571 CACAT-AGGGGAAAAAAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* *
24292597 CACATAAGGGCAAAAAAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
24292624 CACATAAGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* *
24292651 CATATAAGGGCAAAAGAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* *
24292678 CACATAAAGGCAAAAGAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* *
24292705 CACATAAGGGTAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* * *
24292732 TACATAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* * * * *
24292759 CACATAACGACAAAATAGTTATCTTAA
1 CACATAAGGGCAAAACAGTCATCTTAC
* *
24292786 CACATAAGGGCAAAACAATCGTCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* * *
24292813 CACATAAGGTCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
*
24292840 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
*
24292867 CACATAAGGACAAAACAGTCAT
1 CACATAAGGGCAAAACAGTCAT
24292889 TTTATCATAT
Statistics
Matches: 386, Mismatches: 65, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 26 0.07
27 360 0.93
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATCTTAC
Found at i:24297267 original size:23 final size:21
Alignment explanation
Indices: 24297225--24297324 Score: 103
Period size: 23 Copynumber: 4.4 Consensus size: 21
24297215 TCAACTCGTA
24297225 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTAC-G-TTTCAGCTCA-T
*
24297249 AGAGCTTAGCGTTTCAGCTCGT
1 AGAGCTTA-CGTTTCAGCTCAT
24297271 ATGAGCTTACTGTTT-AGCTCGAT
1 A-GAGCTTAC-GTTTCAGCTC-AT
24297294 AGAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTA-CGTTTCAGCTC-AT
24297317 AGAGCTTA
1 AGAGCTTA
24297325 TTGTTCATCA
Statistics
Matches: 67, Mismatches: 3, Indels: 13
0.81 0.04 0.16
Matches are distributed among these distances:
22 19 0.28
23 38 0.57
24 9 0.13
25 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (21 bp):
AGAGCTTACGTTTCAGCTCAT
Found at i:24297307 original size:45 final size:47
Alignment explanation
Indices: 24297219--24297313 Score: 142
Period size: 45 Copynumber: 2.1 Consensus size: 47
24297209 GATATATCAA
*
24297219 CTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTAGCGTTTCAG
1 CTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTACCGTTTCAG
*
24297266 CTCGTATGAGCTTACTG-TTT-AGCTCGA-TAGAGCTTACCGTTTCAG
1 CTCGTAAGAGCTTACTGTTTTCAGCTC-ATTAGAGCTTACCGTTTCAG
24297311 CTC
1 CTC
24297314 AATAGAGCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
45 25 0.56
46 4 0.09
47 16 0.36
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (47 bp):
CTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTACCGTTTCAG
Found at i:24297322 original size:45 final size:45
Alignment explanation
Indices: 24297225--24297329 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
24297215 TCAACTCGTA
* *
24297225 AGAGCTTACTGTTTTCAGCTCATTAGAGCTTAGCGTTTCAGCTCGT
1 AGAGCTTACTG-TTTCAGCTCATTAGAGCTTACCGTTTCAGCTCAT
24297271 ATGAGCTTACTGTTT-AGCTCGA-TAGAGCTTACCGTTTCAGCTCAAT
1 A-GAGCTTACTGTTTCAGCTC-ATTAGAGCTTACCGTTTCAGCTC-AT
*
24297317 AGAGCTTATTGTT
1 AGAGCTTACTGTT
24297330 CATCAGCTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
45 36 0.68
46 7 0.13
47 10 0.19
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (45 bp):
AGAGCTTACTGTTTCAGCTCATTAGAGCTTACCGTTTCAGCTCAT
Found at i:24297531 original size:20 final size:19
Alignment explanation
Indices: 24297500--24297577 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
24297490 AGATATGTGT
* *
24297500 TTATATGGATGAATTACTA
1 TTATACGGATGAACTACTA
* *
24297519 TTGATACGGATGAATTACTG
1 TT-ATACGGATGAACTACTA
*
24297539 TTATTACTGATGAACTACTA
1 TTA-TACGGATGAACTACTA
*
24297559 TTTATACAGATGAACTACT
1 -TTATACGGATGAACTACT
24297578 GGTTATATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.06
20 44 0.88
21 3 0.06
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTATACGGATGAACTACTA
Found at i:24297592 original size:40 final size:38
Alignment explanation
Indices: 24297500--24297604 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 38
24297490 AGATATGTGT
* * *
24297500 TTATATGGATGAATTACTATTGATACGGATGAATTACTG
1 TTATAT-GATGAATTACTATTTATACAGATGAACTACTG
*
24297539 TTATTACTGATGAACTACTATTTATACAGATGAACTACTGG
1 TTA-TA-TGATGAATTACTATTTATACAGATGAACTACT-G
*
24297580 TTATATGAATGAATTACAATTTATA
1 TTATATG-ATGAATTACTATTTATA
24297605 TGAATAGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
39 5 0.09
40 46 0.82
41 5 0.09
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (38 bp):
TTATATGATGAATTACTATTTATACAGATGAACTACTG
Found at i:24302106 original size:43 final size:42
Alignment explanation
Indices: 24302058--24302167 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 42
24302048 TTTGAGGTGT
24302058 GATTTCGTGTAAGACCATGTCTGGGACATTGGCAACGATATGA-
1 GATTTCGTGTAAGACCATGTCTGGGACATTGGCAACG-TAT-AC
* *
24302101 GATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGTATAC
1 GATTTCGTGTAAGACCATGTCTGGGACATTGGCAACGTATAC
* * *
24302143 GA-TTCGTATAAGACCCTTTCTGGGA
1 GATTTCGTGTAAGACCATGTCTGGGA
24302168 TAGTGACATC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
41 20 0.33
42 5 0.08
43 35 0.58
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACATTGGCAACGTATAC
Found at i:24307063 original size:27 final size:26
Alignment explanation
Indices: 24306991--24307085 Score: 86
Period size: 25 Copynumber: 3.7 Consensus size: 26
24306981 TTGTACATGT
* *
24306991 ATGCTCCCACGAGCTGTG-AATCAAA
1 ATGCTCACACGAGCTGTGAAATCAGA
* * * *
24307016 ATACTCATATGAGTTGT-AAATCAGA
1 ATGCTCACACGAGCTGTGAAATCAGA
* *
24307041 ATGCTCACACGAGCTGTGAAAATGAGC
1 ATGCTCACACGAGCTGTG-AAATCAGA
*
24307068 CTGCTCACACGAGCTGTG
1 ATGCTCACACGAGCTGTG
24307086 GAGTATCTGC
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
25 31 0.57
27 23 0.43
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (26 bp):
ATGCTCACACGAGCTGTGAAATCAGA
Found at i:24319189 original size:25 final size:25
Alignment explanation
Indices: 24319135--24319190 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
24319125 TTAATTAGTA
24319135 TAAAATATTAATAATTCAAT-AAAT
1 TAAAATATTAATAATTCAATAAAAT
24319159 TGAAAA-ATTAAATAATT-ATATAAAAT
1 T-AAAATATT-AATAATTCA-ATAAAAT
24319185 TAAAAT
1 TAAAAT
24319191 TTAGGAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
24 5 0.19
25 17 0.63
26 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
TAAAATATTAATAATTCAATAAAAT
Found at i:24319505 original size:20 final size:20
Alignment explanation
Indices: 24319480--24319518 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
24319470 GGCAGTAGGA
24319480 AGGTTCATCGAGCAAGGCCT
1 AGGTTCATCGAGCAAGGCCT
24319500 AGGTTCATCGAGCAAGGCC
1 AGGTTCATCGAGCAAGGCC
24319519 GGGGGAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.31, T:0.18
Consensus pattern (20 bp):
AGGTTCATCGAGCAAGGCCT
Found at i:24320070 original size:16 final size:15
Alignment explanation
Indices: 24320045--24320078 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
24320035 AAAGTTGGTA
*
24320045 ATAATTAATATATATT
1 ATAATAAATATA-ATT
24320061 ATAATAAATATAATT
1 ATAATAAATATAATT
24320076 ATA
1 ATA
24320079 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:24321400 original size:23 final size:23
Alignment explanation
Indices: 24321368--24321419 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
24321358 ATAATTTTAC
*
24321368 CTCATTGATGTTTGTTTGGGGAAT
1 CTCA-TGATGTTTGTTCGGGGAAT
*
24321392 CTCATGATGTTTGTTCGGGGCAT
1 CTCATGATGTTTGTTCGGGGAAT
24321415 CTCAT
1 CTCAT
24321420 TTCTATTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.42
Consensus pattern (23 bp):
CTCATGATGTTTGTTCGGGGAAT
Found at i:24323824 original size:32 final size:32
Alignment explanation
Indices: 24323783--24323845 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
24323773 CTTTATTTGG
24323783 TTCAAAGTCTAGAATAACAAAGTCAGCAGGAC
1 TTCAAAGTCTAGAATAACAAAGTCAGCAGGAC
24323815 TTCAAAGTCTAGAATAACAAAGTCAGCAGGA
1 TTCAAAGTCTAGAATAACAAAGTCAGCAGGA
24323846 AAAGCAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (32 bp):
TTCAAAGTCTAGAATAACAAAGTCAGCAGGAC
Found at i:24325256 original size:48 final size:48
Alignment explanation
Indices: 24325185--24325357 Score: 247
Period size: 48 Copynumber: 3.6 Consensus size: 48
24325175 ATAAGATCCT
* * *
24325185 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTA
1 GTGTAAGACCATGTCTAGGACATGGCATCGACATTGATATGAGAGCCA
*
24325233 GTGTAAGACCATGTCTAGGACATGGCATCGACGTTGATATGAGAGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGACATTGATATGAGAGCCA
* * * *
24325281 GTGTAAGACCATGTTTAAGACATGGCATCGACATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGACATTGATATGAGAGCCA
* * *
24325329 GTGCAAGACCATATCTAGGATATGGCATC
1 GTGTAAGACCATGTCTAGGACATGGCATC
24325358 AACCTCGATA
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGACATTGATATGAGAGCCA
Found at i:24325368 original size:48 final size:48
Alignment explanation
Indices: 24325185--24325392 Score: 220
Period size: 48 Copynumber: 4.3 Consensus size: 48
24325175 ATAAGATCCT
* * * * * *
24325185 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTA
1 GTGTAAGACCATATCTAGGACATGGCATCGACATTGATATGTGTGCCA
* * * *
24325233 GTGTAAGACCATGTCTAGGACATGGCATCGACGTTGATATGAGAGCCA
1 GTGTAAGACCATATCTAGGACATGGCATCGACATTGATATGTGTGCCA
* * *
24325281 GTGTAAGACCATGTTTAAGACATGGCATCGACATTGATATGTGTGCCA
1 GTGTAAGACCATATCTAGGACATGGCATCGACATTGATATGTGTGCCA
* * * * * **
24325329 GTGCAAGACCATATCTAGGATATGGCATCAACCTCGATATGTGATTTCA
1 GTGTAAGACCATATCTAGGACATGGCATCGACATTGATATGTG-TGCCA
24325378 -TGTAAGACCATATCT
1 GTGTAAGACCATATCT
24325393 GGGATACGAC
Statistics
Matches: 139, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
48 136 0.98
49 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATATCTAGGACATGGCATCGACATTGATATGTGTGCCA
Found at i:24333899 original size:20 final size:20
Alignment explanation
Indices: 24333862--24333904 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
24333852 GCAACCAAAA
*
24333862 CATGCCAATTTATACACATAT
1 CATGCCAATCTATACACA-AT
*
24333883 CATG-CAATCTATTCACAAT
1 CATGCCAATCTATACACAAT
24333902 CAT
1 CAT
24333905 TTCAACTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (20 bp):
CATGCCAATCTATACACAAT
Found at i:24346851 original size:27 final size:27
Alignment explanation
Indices: 24346794--24346854 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
24346784 ACCTCAGTTT
* * * *
24346794 GTAAGATTACCGAAATACCCTTGTAAT
1 GTAAAATTACCGAAATACCCCTATAAG
*
24346821 GTAAAATTACCGAAATACCCCTATAGG
1 GTAAAATTACCGAAATACCCCTATAAG
24346848 GTAAAAT
1 GTAAAAT
24346855 GACTATTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTATAAG
Found at i:24347788 original size:56 final size:56
Alignment explanation
Indices: 24347700--24347987 Score: 549
Period size: 56 Copynumber: 5.1 Consensus size: 56
24347690 ACAAGGGATG
24347700 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
24347756 ACGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGTAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
24347812 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
24347868 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
24347924 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
24347980 ATGGGCAA
1 ATGGGCAA
24347988 TAAACTAATA
Statistics
Matches: 227, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 227 1.00
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:24349256 original size:79 final size:81
Alignment explanation
Indices: 24349116--24349300 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
24349106 TCGAATGATG
* *
24349116 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATT
24349180 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
24349195 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGAT-CCGAAGGCA
*
24349257 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
24349275 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
24349301 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:24349314 original size:40 final size:40
Alignment explanation
Indices: 24349116--24349300 Score: 200
Period size: 40 Copynumber: 4.6 Consensus size: 40
24349106 TCGAATGATG
* * *
24349116 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * * *
24349156 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
24349196 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24349235 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
*
24349276 -CCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
24349301 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:24349322 original size:79 final size:79
Alignment explanation
Indices: 24349169--24349333 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
24349159 AGACTAAGAT
* **
24349169 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
24349234 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
24349248 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* * *
24349311 TATAT-CTGGTTAAATT
63 TAAATCCGGGTTAAATC
24349327 CCGAAGG
1 CCGAAGG
24349334 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:24353723 original size:46 final size:46
Alignment explanation
Indices: 24353551--24353723 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
24353541 AACACGCCCC
* * * *
24353551 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
* *
24353597 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ATAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * * *
24353645 TCA-CGAATTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
24353690 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24353724 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 58 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:24353742 original size:46 final size:47
Alignment explanation
Indices: 24353549--24353742 Score: 150
Period size: 46 Copynumber: 4.2 Consensus size: 47
24353539 GTAACACGCC
* * ** *
24353549 CCTAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTC-A-CAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
* ***
24353594 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGC-CTAGTTAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-AACCAT
* * * * *** *
24353642 ATCTCA-CGAATTCGGACTCAACTCAACGAGTTCGGACATTC--GCAT
1 -CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
24353687 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
24353735 CCT-AGTGA
1 CCTAAGTGA
24353743 CATGTCACTT
Statistics
Matches: 113, Mismatches: 26, Indels: 19
0.72 0.16 0.12
Matches are distributed among these distances:
44 1 0.01
45 7 0.06
46 66 0.58
47 28 0.25
48 10 0.09
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
Found at i:24354179 original size:30 final size:30
Alignment explanation
Indices: 24354145--24354204 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
24354135 ATTTAATATG
24354145 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
24354175 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
24354205 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:24362267 original size:203 final size:203
Alignment explanation
Indices: 24361908--24362323 Score: 643
Period size: 203 Copynumber: 2.0 Consensus size: 203
24361898 CTCCAACATG
* * *
24361908 TTGGACAGAATTGGGCAAACGAAGAGTTTTAGGCCCTAAGTTAGTAGCAGATACTGAGGGCAAGG
1 TTGGACGGAATTGGGCAAACGAAAAGTTTTAGGCCCTAAGTTAGTAACAGATACTGAGGGCAAGG
* * *
24361973 TAAGATTGATTCAGGATCGGTTGAAGGAGGCCTCGGATAGGCAAAAGTCATATTCTGACCTTAAG
66 TAAAATTGATTCAGGATCGGTTGAAGGAGGCCTCAGATAGGCAAAAGTCATATGCTGACCTTAAG
* * *
24362038 CGTTGAGAGATAGAGTATGTAGTGGGGGACTTAGTTTTTCTTAAGGTCTCTCCATGGAAGAAGGT
131 CATCGAGAGATAGAGTATGCAGTGGGGGACTTAGTTTTTCTTAAGGTCTCTCCATGGAAGAAGGT
24362103 ATTAAGGT
196 ATTAAGGT
* * * * * *
24362111 TTGGACGGAATTGGGCGAACGAAAAGTTTTGGGCCCTGATTTAGTAATAGATACTGAGGGTAAGG
1 TTGGACGGAATTGGGCAAACGAAAAGTTTTAGGCCCTAAGTTAGTAACAGATACTGAGGGCAAGG
* * * *
24362176 TAAAATTGATTCGGGATCGTTTGAAGGAGGCCTCAGATAGGCAGAAGTCGTATGCTGACCTTAAG
66 TAAAATTGATTCAGGATCGGTTGAAGGAGGCCTCAGATAGGCAAAAGTCATATGCTGACCTTAAG
**
24362241 CATCGAGAGATAGAGTATGCAGTGGGGGACTTAGTTTTTCTTAAGGTCTCTCTGTGGAAGAAGGT
131 CATCGAGAGATAGAGTATGCAGTGGGGGACTTAGTTTTTCTTAAGGTCTCTCCATGGAAGAAGGT
24362306 ATTAAGGT
196 ATTAAGGT
24362314 TTGGACGGAA
1 TTGGACGGAA
24362324 GGGGAAGCTA
Statistics
Matches: 192, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
203 192 1.00
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.27
Consensus pattern (203 bp):
TTGGACGGAATTGGGCAAACGAAAAGTTTTAGGCCCTAAGTTAGTAACAGATACTGAGGGCAAGG
TAAAATTGATTCAGGATCGGTTGAAGGAGGCCTCAGATAGGCAAAAGTCATATGCTGACCTTAAG
CATCGAGAGATAGAGTATGCAGTGGGGGACTTAGTTTTTCTTAAGGTCTCTCCATGGAAGAAGGT
ATTAAGGT
Found at i:24363604 original size:21 final size:21
Alignment explanation
Indices: 24363570--24363609 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24363560 AATGGTCATG
*
24363570 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
**
24363591 GATGATTTGCGAGTCACTT
1 GATGATTTAAGAGTCACTT
24363610 GTGTTTAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:24364039 original size:17 final size:18
Alignment explanation
Indices: 24364006--24364039 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24363996 TCGGGCCAGA
24364006 ATGGGCTAAATGGGCCCG
1 ATGGGCTAAATGGGCCCG
*
24364024 ATGGGCTGAA-GGGCCC
1 ATGGGCTAAATGGGCCC
24364040 ATAATAGGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.24, G:0.41, T:0.15
Consensus pattern (18 bp):
ATGGGCTAAATGGGCCCG
Found at i:24364165 original size:27 final size:26
Alignment explanation
Indices: 24364099--24364196 Score: 88
Period size: 28 Copynumber: 3.6 Consensus size: 26
24364089 ATTGCATGAC
* *
24364099 TATGAATGTGATTGCGCCTGACAGGCCA
1 TATGAATGTGATTG-GCCTGA-TGGGCA
*
24364127 TATGAAAGTGATTAGGCCTGATGGGCA
1 TATGAATGTGATT-GGCCTGATGGGCA
* *
24364154 TATGAATTTGATTGGTCCCGATGGGCCA
1 TATGAATGTGATTGG-CCTGATGGG-CA
* *
24364182 TGTGAATGAGATTGG
1 TATGAATGTGATTGG
24364197 GCCTAAAGGG
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
26 2 0.03
27 23 0.40
28 32 0.55
29 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.29
Consensus pattern (26 bp):
TATGAATGTGATTGGCCTGATGGGCA
Found at i:24371580 original size:25 final size:25
Alignment explanation
Indices: 24371507--24371583 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
24371497 CGACCCACAA
*
24371507 CTTGTGAGAGCATGCCAATCTACAG
1 CTTGTGAGAGCATACCAATCTACAG
* ** *
24371532 -TTCGTGTGAGCATACTGATTTACAG
1 CTT-GTGAGAGCATACCAATCTACAG
*
24371557 CTTGTGAGAGTATACCAATCTACAG
1 CTTGTGAGAGCATACCAATCTACAG
24371582 CT
1 CT
24371584 CTAGTGAGCA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
24 2 0.05
25 36 0.90
26 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (25 bp):
CTTGTGAGAGCATACCAATCTACAG
Found at i:24371591 original size:50 final size:50
Alignment explanation
Indices: 24371502--24371608 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 50
24371492 CATTCCGACC
* * * *
24371502 CACAACTTGTGAGAGCATGCCAATCTACAGTTCGTGTGAGCATACTGATT
1 CACAGCTTGTGAGAGCATACCAATCTACAGCTCGTGTGAGCATACCGATT
* *
24371552 TACAGCTTGTGAGAGTATACCAATCTACAGCTC-TAGTGAGCATACCGATT
1 CACAGCTTGTGAGAGCATACCAATCTACAGCTCGT-GTGAGCATACCGATT
24371602 CACAGCT
1 CACAGCT
24371609 CGTATATGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
49 1 0.02
50 48 0.98
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (50 bp):
CACAGCTTGTGAGAGCATACCAATCTACAGCTCGTGTGAGCATACCGATT
Found at i:24371596 original size:25 final size:24
Alignment explanation
Indices: 24371514--24371597 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
24371504 CAACTTGTGA
* *
24371514 GAGCATGCCAATCTACAGTTCGTGT
1 GAGCATACCAATCTACAGCTC-TGT
** *
24371539 GAGCATACTGATTTACAGCT-TGT
1 GAGCATACCAATCTACAGCTCTGT
*
24371562 GAGAGTATACCAATCTACAGCTCTAGT
1 --GAGCATACCAATCTACAGCTCT-GT
24371589 GAGCATACC
1 GAGCATACC
24371598 GATTCACAGC
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 3 0.07
25 39 0.87
26 1 0.02
27 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
GAGCATACCAATCTACAGCTCTGT
Found at i:24374194 original size:93 final size:93
Alignment explanation
Indices: 24374086--24374256 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
24374076 GCCCCTAAGT
* *
24374086 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24374151 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
24374179 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24374244 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24374257 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24374253 original size:46 final size:46
Alignment explanation
Indices: 24374081--24374253 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
24374071 AACCCGCCCC
* * * *
24374081 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
24374127 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
24374175 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
24374220 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24374254 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:24384979 original size:29 final size:29
Alignment explanation
Indices: 24384937--24384995 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
24384927 GGAAATGGGA
24384937 AAGAATTACTATGACTTTGTAACAGGGTT
1 AAGAATTACTATGACTTTGTAACAGGGTT
* *
24384966 AAGAATTACTATGACTTTGTATCGGGGTT
1 AAGAATTACTATGACTTTGTAACAGGGTT
24384995 A
1 A
24384996 CCCCTGTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (29 bp):
AAGAATTACTATGACTTTGTAACAGGGTT
Found at i:24397706 original size:43 final size:43
Alignment explanation
Indices: 24397582--24397732 Score: 180
Period size: 43 Copynumber: 3.5 Consensus size: 43
24397572 GATTAACGAG
* *
24397582 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGACATCATT
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTT
*
24397625 ATGTGATTATATGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* * * *
24397668 ATTTGATTTTGTGTAAGACCATAG-CTGGG-CTATCGGCATCGAT
1 ATGTGATTATGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCGTT
* **
24397711 ATGTGATAACATGTAAGACCAT
1 ATGTGATTATGTGTAAGACCAT
24397733 ATCTAGGATA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 91 0.98
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTT
Found at i:24405684 original size:51 final size:50
Alignment explanation
Indices: 24405607--24405718 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 50
24405597 CTGATCAATA
24405607 ACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTAACAAGTG
1 ACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTAAC-AGTG
* * *
24405658 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAGTG
1 ACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTAACAGTG
24405708 ACAAGTGATAA
1 ACAAGTGATAA
24405719 ATGTGATCAG
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
50 15 0.26
51 43 0.74
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (50 bp):
ACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTAACAGTG
Found at i:24426394 original size:12 final size:12
Alignment explanation
Indices: 24426377--24426407 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24426367 AGTGAGTTAT
24426377 ACGGCCTAACAC
1 ACGGCCTAACAC
24426389 ACGGCCTAACAC
1 ACGGCCTAACAC
*
24426401 ATGGCCT
1 ACGGCCT
24426408 GGCACACAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.39, G:0.19, T:0.13
Consensus pattern (12 bp):
ACGGCCTAACAC
Found at i:24428912 original size:27 final size:26
Alignment explanation
Indices: 24428870--24429023 Score: 98
Period size: 27 Copynumber: 5.8 Consensus size: 26
24428860 GCTCGAGTTG
* * *
24428870 AAAATTACTGAATACCCCTGATTTTT
1 AAAATTACAGAATACCCCTAATTTGT
* *
24428896 GAAATTACAGAAGTACCTCTAATTTGT
1 AAAATTACAGAA-TACCCCTAATTTGT
* ** *
24428923 AAAATTACCAAAATACCCC-AGGTTAT
1 AAAATTA-CAGAATACCCCTAATTTGT
*
24428949 AAAATTATC-GAAATACCCCCAATTTGT
1 AAAATTA-CAG-AATACCCCTAATTTGT
* *
24428976 AAAATTACCGAAATACTCCC-AGTTTGT
1 AAAATTACAG-AATAC-CCCTAATTTGT
* *
24429003 AAAATGACCATAATACCCCTA
1 AAAATTA-CAGAATACCCCTA
24429024 TAGGGTAAAA
Statistics
Matches: 100, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
26 34 0.34
27 58 0.58
28 8 0.08
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
AAAATTACAGAATACCCCTAATTTGT
Found at i:24429031 original size:27 final size:27
Alignment explanation
Indices: 24429001--24429115 Score: 137
Period size: 27 Copynumber: 4.4 Consensus size: 27
24428991 CTCCCAGTTT
* *
24429001 GTAAAATGACCATAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
**
24429028 GTAAAATGA-CGT--GGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
24429052 GTAAATTGACCGTAATACCTCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
24429079 CTAAAATGACCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATACCCCTGTAGG
24429106 GTAAAATGAC
1 GTAAAATGAC
24429116 GATTATGCCC
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
24 17 0.24
25 3 0.04
26 2 0.03
27 50 0.69
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:24429332 original size:26 final size:27
Alignment explanation
Indices: 24429251--24429333 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
24429241 AAGGAGGAAG
* *
24429251 TACTG-TATTGGTGACTATGTCACATT
1 TACTGATACTGGTGACTATGCCACATT
* * *
24429277 CACTGTTACTGGTGACTATGCCACAAT
1 TACTGATACTGGTGACTATGCCACATT
*
24429304 TACTGATACTGGTGGCT-TGCCACATT
1 TACTGATACTGGTGACTATGCCACATT
24429330 TACT
1 TACT
24429334 ATTTCTGGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 16 0.33
27 32 0.67
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
TACTGATACTGGTGACTATGCCACATT
Found at i:24429545 original size:28 final size:28
Alignment explanation
Indices: 24429491--24429557 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
24429481 CATTACACTG
* * * * *
24429491 TACTGATATTGTATTGGGCTTAGGCCCA
1 TACTGTTACTGTATAGGGCTAAAGCCCA
24429519 TACTGTTACTGTATAGGGCTAAAGCCCA
1 TACTGTTACTGTATAGGGCTAAAGCCCA
*
24429547 GACTGTT-CTGT
1 TACTGTTACTGT
24429558 TACTATGTAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (28 bp):
TACTGTTACTGTATAGGGCTAAAGCCCA
Found at i:24429558 original size:33 final size:33
Alignment explanation
Indices: 24429525--24429652 Score: 134
Period size: 33 Copynumber: 3.9 Consensus size: 33
24429515 CCCATACTGT
* * *
24429525 TACTGTATAGGGCTAAAGCCCAGACTGTTCTGT
1 TACTGGATAGGGCTAAGGCCCAGACTGTTCTGA
* * *
24429558 TACTATG-TAGGGCTAAGGCCCAGACTGTACTAA
1 TACT-GGATAGGGCTAAGGCCCAGACTGTTCTGA
* *
24429591 TACTGGATAGGGCTAAGGCTCAGA-TTTTACTGA
1 TACTGGATAGGGCTAAGGCCCAGACTGTT-CTGA
* *
24429624 TACTGGATATGGCTCAGGCCCAGACTGTT
1 TACTGGATAGGGCTAAGGCCCAGACTGTT
24429653 ACTGCATGCA
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
32 3 0.04
33 70 0.92
34 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (33 bp):
TACTGGATAGGGCTAAGGCCCAGACTGTTCTGA
Found at i:24437700 original size:28 final size:27
Alignment explanation
Indices: 24437644--24437795 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
24437634 TAAATTGTGC
* *
24437644 AGCACTAAGTGTACGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
24437671 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
24437699 AGCACTAAGTGTGTGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
24437726 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
24437754 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
24437781 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24437796 GACTTAATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 64 0.55
28 52 0.45
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:24437708 original size:55 final size:55
Alignment explanation
Indices: 24437644--24437795 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
24437634 TAAATTGTGC
* *
24437644 AGCACTAAGTGTACGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
24437699 AGCACTAAGTGTGTGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
24437754 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
24437796 GACTTAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:24449086 original size:25 final size:25
Alignment explanation
Indices: 24449056--24449112 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
24449046 CTATAAACAG
*
24449056 TAAGCTCCTCCAAGCTAAATAACGA
1 TAAGCTCCTCCAAGATAAATAACGA
* * *
24449081 TAAGCTCCTCCGAGATAAATAATGG
1 TAAGCTCCTCCAAGATAAATAACGA
24449106 TAAGCTC
1 TAAGCTC
24449113 ATATGAGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (25 bp):
TAAGCTCCTCCAAGATAAATAACGA
Found at i:24461430 original size:46 final size:45
Alignment explanation
Indices: 24461296--24461461 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 45
24461286 ATATTATGAG
* * * * *
24461296 AGCCAATGTAAGACCATGTCTGGGACTTGGCATCGGTATGAGACGAA
1 AGCCAATGTAAGACCATGTCTGGGACAT-GCATCGCT-CGAGATGTA
* *
24461343 AGCTAATGTAAGA-CATGAT-TGGGACATGCATTGGCCTCGAGATGTA
1 AGCCAATGTAAGACCATG-TCTGGGACATGCA-TCG-CTCGAGATGTA
*
24461389 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCAGCTGCGAGATGT-
1 AGCCAATGTAAGACCATGTCTGGGACATGCATC-GCT-CGAGATGTA
* *
24461434 -GTCAATGTAAGACCATGTCTAGGACATG
1 AGCCAATGTAAGACCATGTCTGGGACATG
24461462 GCAACGGCAC
Statistics
Matches: 99, Mismatches: 13, Indels: 16
0.77 0.10 0.12
Matches are distributed among these distances:
44 10 0.10
45 21 0.21
46 54 0.55
47 14 0.14
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (45 bp):
AGCCAATGTAAGACCATGTCTGGGACATGCATCGCTCGAGATGTA
Found at i:24461606 original size:49 final size:49
Alignment explanation
Indices: 24461434--24461609 Score: 155
Period size: 50 Copynumber: 3.6 Consensus size: 49
24461424 TGCGAGATGT
* * ** *
24461434 GTCAATGTAAGACCATGTCTAGGACATGGCAACGGCA-CG-AT-AGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCCTCGGCATCGAATGTGAGA
* *
24461480 TGTCAGTGTAAAACCATGTCTGGGACATGGCCTCGGCATGGAAATGTGAGA
1 -GTCAGTGTAAGACCATGTCTGGGACATGGCCTCGGCATCG-AATGTGAGA
* * * * * *
24461531 G-CTAGTCTAAGACCATGTCTGTGACATGGCGTCGGCCTCG-ATTTCGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCCTCGGCATCGAATGT-GAGA
*
24461580 GTCAGTGTAAGACTATGTCTGGGACATGGC
1 GTCAGTGTAAGACCATGTCTGGGACATGGC
24461610 ATCAACTTGA
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
47 32 0.31
48 4 0.04
49 29 0.28
50 35 0.34
51 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCCTCGGCATCGAATGTGAGA
Found at i:24463220 original size:43 final size:44
Alignment explanation
Indices: 24463159--24463296 Score: 165
Period size: 43 Copynumber: 3.2 Consensus size: 44
24463149 GGTGTGATTG
24463159 CATGTCTGGGACAATGGCATTGTAT-TGTGATTTCGTGTAAGAC
1 CATGTCTGGGACAATGGCATTGTATATGTGATTTCGTGTAAGAC
* * * *
24463202 CATGTTTGGGACATTGGCATCGT-TATATGATTTCGTGTAAGAC
1 CATGTCTGGGACAATGGCATTGTATATGTGATTTCGTGTAAGAC
* * ** *
24463245 CTTGTCTAGGACAATGGCATTG-ATATGTGATAACATGTAAGAC
1 CATGTCTGGGACAATGGCATTGTATATGTGATTTCGTGTAAGAC
*
24463288 CATATCTGG
1 CATGTCTGG
24463297 ATATGGTGTT
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 76 0.99
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (44 bp):
CATGTCTGGGACAATGGCATTGTATATGTGATTTCGTGTAAGAC
Found at i:24465541 original size:25 final size:25
Alignment explanation
Indices: 24465476--24465595 Score: 109
Period size: 25 Copynumber: 4.8 Consensus size: 25
24465466 ATGCTCATAC
* * * *
24465476 GAGCTGTA-AACAGTAAACTCCTCC
1 GAGCTGAATAACAATAAGCTCCTCT
* *
24465500 GAGCTAAATAACGATAAGCT-CTCTT
1 GAGCTGAATAACAATAAGCTCCTC-T
* * *
24465525 GATCAGAATAACAATAAGATCCTCT
1 GAGCTGAATAACAATAAGCTCCTCT
* * *
24465550 GAGCTGAATAATAGTAAGCTCCTCC
1 GAGCTGAATAACAATAAGCTCCTCT
24465575 GAGCTGAATAACAATAAGCTC
1 GAGCTGAATAACAATAAGCTC
24465596 ATACGAGCTG
Statistics
Matches: 74, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
24 9 0.12
25 62 0.84
26 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (25 bp):
GAGCTGAATAACAATAAGCTCCTCT
Found at i:24467999 original size:55 final size:55
Alignment explanation
Indices: 24467938--24468048 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
24467928 TTGATAATAT
*
24467938 GTCAAATTATGTGATATACTTGGAAAATGTGAAATACTACCGAGTATTGGTATCG
1 GTCAAATTATGTGATATACTTGGAAAATGTGAAATACTACCGAGTATCGGTATCG
*
24467993 GTCAAATTATGTGATATATTTGGAAAATGTGAAATACTACCGAGTATCGGTATCG
1 GTCAAATTATGTGATATACTTGGAAAATGTGAAATACTACCGAGTATCGGTATCG
24468048 G
1 G
24468049 CATTCCATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (55 bp):
GTCAAATTATGTGATATACTTGGAAAATGTGAAATACTACCGAGTATCGGTATCG
Found at i:24468202 original size:46 final size:46
Alignment explanation
Indices: 24468152--24468327 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
24468142 TGTTTGAGCA
* *
24468152 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
24468198 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
** * * *
24468245 TCCGAACTCGTTGAGTTGAGTCTAAGTTCACTCATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
24468291 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24468328 GCGAGTTACA
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.57
47 27 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:24468308 original size:93 final size:93
Alignment explanation
Indices: 24468149--24468320 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
24468139 GGATGTTTGA
* * * *
24468149 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTCATGGATACAAACGTCCGAACTCGTTGAGT
24468214 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
24468242 GCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTCATGGATACGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTCATGGATACAAACGTC-CGAACTCGTTGAG
24468306 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
24468321 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTCATGGATACAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24475273 original size:26 final size:27
Alignment explanation
Indices: 24475208--24475273 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
24475198 AACTGTGGAA
*
24475208 TGGGTTTTTG-AATTTTTTCTCAAAAT
1 TGGGTTTTTGAAAGTTTTTCTCAAAAT
** *
24475234 TGGGTTTTCAAAAGTTTTTCT-AAACCT
1 TGGGTTTTTGAAAGTTTTTCTCAAA-AT
24475261 T-GGTTTTTGAAAG
1 TGGGTTTTTGAAAG
24475274 AGATGATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (27 bp):
TGGGTTTTTGAAAGTTTTTCTCAAAAT
Found at i:24483003 original size:60 final size:60
Alignment explanation
Indices: 24482935--24483054 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 60
24482925 CAAAAGGGGA
*
24482935 AAGAGGAAGG-AATTTGTCTAGGGCATTCGGCTATCTTGGAGGTTAAATAAGGTAGGAGT
1 AAGAGGAAGGAAATTGGTCTAGGGCATTCGGCTATCTTGGAGGTTAAATAAGGTAGGAGT
*
24482994 NAAGAGGAAGGAAATTGGTCTAGGGCATTTGGCTATCTTGGAGGTTAAATAAGGTAGGAGT
1 -AAGAGGAAGGAAATTGGTCTAGGGCATTCGGCTATCTTGGAGGTTAAATAAGGTAGGAGT
24483055 TCATGTTATT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 10 0.18
61 47 0.82
ACGTcount: A:0.31, C:0.07, G:0.34, T:0.27
Consensus pattern (60 bp):
AAGAGGAAGGAAATTGGTCTAGGGCATTCGGCTATCTTGGAGGTTAAATAAGGTAGGAGT
Found at i:24491223 original size:13 final size:13
Alignment explanation
Indices: 24491201--24491233 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24491191 AAAAGGGTTT
24491201 TTAT-TAAACTAA
1 TTATCTAAACTAA
24491213 TTATCTAAACTAA
1 TTATCTAAACTAA
*
24491226 TTAACTAA
1 TTATCTAA
24491234 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Done.