Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 39 of 175
Found at i:10724429 original size:18 final size:19
Alignment explanation
Indices: 10724391--10724435 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10724381 GTTAAATAAC
* *
10724391 TTTAAATAAATTTTCTTTT
1 TTTAAATAAAATATCTTTT
10724410 TTTAAATAAAATAT-TTTT
1 TTTAAATAAAATATCTTTT
*
10724428 TTGAAATA
1 TTTAAATA
10724436 TTTGAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTAAATAAAATATCTTTT
Found at i:10724501 original size:25 final size:27
Alignment explanation
Indices: 10724457--10724512 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
10724447 TAATAGTGAT
*
10724457 TTTAAAATTTTTTATATTT-AAATT-A
1 TTTAAAATTTTATATATTTAAAATTAA
10724482 TTTAAAATTCTTATAT-TTTAAAATTAA
1 TTTAAAATT-TTATATATTTAAAATTAA
10724509 TTTA
1 TTTA
10724513 TATTTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 12 0.44
26 10 0.37
27 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTAAAATTTTATATATTTAAAATTAA
Found at i:10734105 original size:16 final size:16
Alignment explanation
Indices: 10734065--10734099 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10734055 TTTATGAAAC
*
10734065 AAAACCAAACATAAAA
1 AAAACAAAACATAAAA
10734081 AAAACAAAACA-AAAA
1 AAAACAAAACATAAAA
10734096 AAAA
1 AAAA
10734100 GGAAAAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAACAAAACATAAAA
Found at i:10734553 original size:19 final size:20
Alignment explanation
Indices: 10734531--10734568 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
10734521 TTTTAAAATA
10734531 ATTTACTTT-TTTT-CTTTTT
1 ATTT-CTTTATTTTCCTTTTT
10734550 ATTTCTTTATTTTCCTTTT
1 ATTTCTTTATTTTCCTTTT
10734569 CTTCTTCGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTCTTTATTTTCCTTTTT
Found at i:10741404 original size:16 final size:16
Alignment explanation
Indices: 10741383--10741413 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10741373 CAAGAGCAGA
10741383 GAGGGAGAGAGAGAGG
1 GAGGGAGAGAGAGAGG
*
10741399 GAGGGAGGGAGAGAG
1 GAGGGAGAGAGAGAG
10741414 CATACCGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (16 bp):
GAGGGAGAGAGAGAGG
Found at i:10751633 original size:17 final size:18
Alignment explanation
Indices: 10751607--10751643 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10751597 TTAATATTTC
10751607 TTTTACATTTTTAATAAT
1 TTTTACATTTTTAATAAT
*
10751625 TTTTA-ATTTTTTATAAT
1 TTTTACATTTTTAATAAT
10751642 TT
1 TT
10751644 AAAAATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTACATTTTTAATAAT
Found at i:10753050 original size:14 final size:15
Alignment explanation
Indices: 10753013--10753054 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
10753003 TAAATAACTC
10753013 TTATATAATATTTTG
1 TTATATAATATTTTG
10753028 TTGA-A-AATATTTT-
1 TT-ATATAATATTTTG
10753041 TTATATAATATTTT
1 TTATATAATATTTT
10753055 AAATATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 3 0.12
14 16 0.67
15 3 0.12
16 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (15 bp):
TTATATAATATTTTG
Found at i:10754929 original size:31 final size:33
Alignment explanation
Indices: 10754876--10754965 Score: 93
Period size: 32 Copynumber: 2.8 Consensus size: 33
10754866 CATGTACATA
*
10754876 TATAAAAAAATAATTATATACATATATATAGAT
1 TATAAAAAAATAATAATATACATATATATAGAT
*
10754909 TATAAAAAAA-GATAAT-TACATATATAT--A-
1 TATAAAAAAATAATAATATACATATATATAGAT
10754937 TA-AAAACAAATAATAATAATTACATATAT
1 TATAAAA-AAATAATAAT-A-TACATATAT
10754966 TGAAATTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 6 0.12
31 11 0.22
32 13 0.27
33 10 0.20
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (33 bp):
TATAAAAAAATAATAATATACATATATATAGAT
Found at i:10754939 original size:16 final size:17
Alignment explanation
Indices: 10754920--10754965 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
10754910 ATAAAAAAAG
10754920 ATAATTACATATATAT-
1 ATAATTACATATATATA
** *
10754936 ATAAAAACAAATA-ATA
1 ATAATTACATATATATA
10754952 ATAATTACATATAT
1 ATAATTACATATAT
10754966 TGAAATTAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATTACATATATATA
Found at i:10755206 original size:3 final size:3
Alignment explanation
Indices: 10755198--10755238 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
10755188 ATGTAGGTAC
10755198 AAT AAT AAT AAT ATAT AAT -AT AAT AAT AAT AAT AATT AAT A
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT A
10755239 CAATAAGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:10755224 original size:21 final size:21
Alignment explanation
Indices: 10755195--10755244 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
10755185 TATATGTAGG
10755195 TACAATAATAATAAT-ATATAA
1 TACAATAATAATAATAAT-TAA
*
10755216 TATAATAATAATAATAATTAA
1 TACAATAATAATAATAATTAA
10755237 TACAATAA
1 TACAATAA
10755245 GAATGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
TACAATAATAATAATAATTAA
Found at i:10756738 original size:44 final size:44
Alignment explanation
Indices: 10756631--10756742 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
10756621 CGGCTTTAAT
* * * *
10756631 CTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCAAT
1 CTGCTCCACTGCAA-CTTAGGGAGATAAGATCTGTAATCTTCAAC
* ** *
10756676 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTGCTCCACTGCAACTTAGGGAGATAAGATCTGTAATCTTCAAC
*
10756720 CTGCTCCGCTGCAACTTAGGGAG
1 CTGCTCCACTGCAACTTAGGGAG
10756743 GCAAGGCTGG
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 44 0.80
45 11 0.20
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTAGGGAGATAAGATCTGTAATCTTCAAC
Found at i:10756796 original size:88 final size:88
Alignment explanation
Indices: 10756701--10757629 Score: 1080
Period size: 88 Copynumber: 10.6 Consensus size: 88
10756691 TTAGGGAGAT
* * * ** * *
10756701 AAGATCTG-TAATTTTCAACCTGCTCCGCTGCAACTTAGGGAGGCAAGGCTGGTGTCTTCAATCT
1 AAGATCTGCT-ATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
*
10756765 GCTTCACTGTTAGTACAGGAATGC
65 GCTTCACTGTTAGTACAGGAAGGC
* * * * * * * *
10756789 AAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
10756854 CTTCACTGTTAGTACAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
* * * * * * *
10756877 AAGATCTGCTATCTTTAACCTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTA
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* ** * * **
10756942 CTCCACTACT-GCT-TAGGGAGAT
66 CTTCACTGTTAG-TACAGGAAGGC
* * * * ** * *
10756964 AAGATCTGCAATTTTCAACC-GACTCCGCTGCAACCCAATGAGGCAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCTATCTTCAACCTG-CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* **
10757028 GCTTCGCTGTCGGTACAGGAAGGC
65 GCTTCACTGTTAGTACAGGAAGGC
* * * * ** * *
10757052 AAGATCTGTTATTTTTAACCTGCTCCGCTGTAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
*
10757117 CTTCGCTGTTAGTACAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
* * *
10757140 AAGATCTGCTATCTTCAACCTGCTCCACTACGACCTAGGGAGGCAAAGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* **
10757205 CTTCACTATCGGTACAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
10757228 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* * *
10757293 CTTCGCTG-TCGATGCAGGAAGGC
66 CTTCACTGTTAG-TACAGGAAGGC
* * * *
10757316 AAGATCTGCTATCTTCAACCTGCTCTACTACAACCAAAGGATGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
** **
10757381 CTTCACTGTCGGTGTAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
10757404 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* * *
10757469 CTTCGCTG-TCGATGCAGGAAGGC
66 CTTCACTGTTAG-TACAGGAAGGC
*
10757492 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* * * *
10757557 CTTCGCTG-TCGATGCAAGAAGGC
66 CTTCACTGTTAG-TACAGGAAGGC
10757580 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCT
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCT
10757630 TTGTGATTTC
Statistics
Matches: 744, Mismatches: 88, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
86 1 0.00
87 66 0.09
88 674 0.91
89 3 0.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (88 bp):
AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
CTTCACTGTTAGTACAGGAAGGC
Found at i:10756855 original size:43 final size:43
Alignment explanation
Indices: 10756808--10756948 Score: 124
Period size: 43 Copynumber: 3.2 Consensus size: 43
10756798 TATCTTTAAC
*
10756808 CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAAT
1 CTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAAT
* ** * * * * * *
10756851 CTGCTTCACTGTTAGTAC-AGGAAGGCAAGATCT-GCTATCTTTAAC
1 CTGCTCCACTGCCA--CCGAGGGAGGCAAG-GCTAG-TGTCTTCAAT
*
10756896 CTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
1 CTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAAT
*
10756939 CTACTCCACT
1 CTGCTCCACT
10756949 ACTGCTTAGG
Statistics
Matches: 71, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 28 0.39
44 22 0.31
45 21 0.30
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (43 bp):
CTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAAT
Found at i:10756877 original size:44 final size:43
Alignment explanation
Indices: 10756741--10756879 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
10756731 CAACTTAGGG
10756741 AGGCAAGGCTGGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
1 AGGCAAGGCT-GTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
* * * * * * * ** * *
10756785 ATGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCA--CCGAGGG
1 AGGCAAG-GCTG-TGTCTTCAATCTGCTTCACTGTTAGTAC-AGGA
10756829 AGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
1 AGGCAAGGCT-GTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
10756873 AGGCAAG
1 AGGCAAG
10756880 ATCTGCTATC
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
43 20 0.30
44 27 0.40
45 20 0.30
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (43 bp):
AGGCAAGGCTGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
Found at i:10756906 original size:45 final size:45
Alignment explanation
Indices: 10756763--10756906 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 45
10756753 TGTCTTCAAT
* *
10756763 CTGCTTCACTGTTAGTACAGGAATGCAAGATCTGCTATCTTTAAC
1 CTGCTCCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
* ** * * * * * *
10756808 CTGCTCCGCTGCCA--CCGAGGGAGGCAAG-GCTAG-TGTCTTCAAT
1 CTGCTCCACTGTTAGTAC-AGGAAGGCAAGATCT-GCTATCTTTAAC
*
10756851 CTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
1 CTGCTCCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
10756896 CTGCTCCACTG
1 CTGCTCCACTG
10756907 CCACCGAGGG
Statistics
Matches: 71, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
43 20 0.28
44 21 0.30
45 30 0.42
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (45 bp):
CTGCTCCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
Found at i:10756921 original size:44 final size:44
Alignment explanation
Indices: 10756787--10756923 Score: 136
Period size: 44 Copynumber: 3.1 Consensus size: 44
10756777 GTACAGGAAT
*
10756787 GCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAG
1 GCAAGATCTGCTATCTTTAACCTGCTCCACTGCCACCGAGGGAG
* * * * * ** * *
10756831 GCAAG-GCTAG-TGTCTTCAATCTGCTTCACTGTTAGTAC-AGGAAG
1 GCAAGATCT-GCTATCTTTAACCTGCTCCACTGCCA--CCGAGGGAG
10756875 GCAAGATCTGCTATCTTTAACCTGCTCCACTGCCACCGAGGGAG
1 GCAAGATCTGCTATCTTTAACCTGCTCCACTGCCACCGAGGGAG
10756919 GCAAG
1 GCAAG
10756924 GCTAGTGTCT
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
43 20 0.29
44 27 0.40
45 21 0.31
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (44 bp):
GCAAGATCTGCTATCTTTAACCTGCTCCACTGCCACCGAGGGAG
Found at i:10757054 original size:44 final size:43
Alignment explanation
Indices: 10757004--10757142 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 43
10756994 CAACCCAATG
*
10757004 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTACAGGA
1 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGT-AGTACAGGA
* * * * * * * *** *
10757048 AGGCAAGATCTGTTATTTTTAACCTGCTCCGCTGTAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTTGATCTGCTTCGCTGTAGTACAGGA
* *
10757092 AGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGA
1 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTG-TAGTACAGGA
10757136 AGGCAAG
1 AGGCAAG
10757143 ATCTGCTATC
Statistics
Matches: 68, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 17 0.25
44 31 0.46
45 20 0.29
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTAGTACAGGA
Found at i:10757376 original size:264 final size:263
Alignment explanation
Indices: 10756701--10757629 Score: 1191
Period size: 264 Copynumber: 3.5 Consensus size: 263
10756691 TTAGGGAGAT
* * * ** * *
10756701 AAGATCTG-TAATTTTCAACCTGCTCCGCTGCAACTTAGGGAGGCAAGGCTGGTGTCTTCAATCT
1 AAGATCTGCT-ATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* * * * * * * *
10756765 GCTTCACTGT-TAGTACAGGAATGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGG
65 GCTTCGCTGTCGA-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGG
* *
10756829 AGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTA
129 AGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCA
* * * * * * * * *
10756894 ACCTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTA-CTGCTTAG
194 ACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATC-GATCAG
* **
10756958 GGAGAT
258 GAAGGC
* * * * ** * *
10756964 AAGATCTGCAATTTTCAACC-GACTCCGCTGCAACCCAATGAGGCAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCTATCTTCAACCTG-CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* * * * * **
10757028 GCTTCGCTGTCGGTACAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTGTAACCCAGGGA
65 GCTTCGCTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGA
*
10757093 GGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAA
130 GGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAA
* * * *
10757158 CCTGCTCCACTACGACCTAGGGAGGCAAAGCTGGTATCTTCGATCTGCTTCACTATCGGTACAGG
195 CCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGAT-CAGG
10757223 AAGGC
259 AAGGC
10757228 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* * * * *
10757293 CTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTACTACAACCAAAGGAT
66 CTTCGCTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAG
* * ** **
10757358 GCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATCTTCAAC
131 GCAAGGCTAGTGTCTTCGATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAAC
* *
10757423 CTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGA
196 CTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGAT-CAGGA
10757488 AGGC
260 AGGC
*
10757492 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* *
10757557 CTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAG
66 CTTCGCTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAG
10757622 GCAAGGCT
131 GCAAGGCT
10757630 TTGTGATTTC
Statistics
Matches: 588, Mismatches: 72, Indels: 11
0.88 0.11 0.02
Matches are distributed among these distances:
262 1 0.00
263 220 0.37
264 366 0.62
265 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (263 bp):
AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
CTTCGCTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAG
GCAAGGCTAGTGTCTTCGATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAAC
CTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGATCAGGAA
GGC
Found at i:10764023 original size:32 final size:33
Alignment explanation
Indices: 10763969--10764057 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 33
10763959 CATGTACATA
*
10763969 TATAAAAAAATAATTATATACATATATATAGAT
1 TATAAAAAAATAATAATATACATATATATAGAT
10764002 TATAAAAAAA-AGATAAT-TACATATATAT--A-
1 TATAAAAAAATA-ATAATATACATATATATAGAT
10764031 TA-AACAAATAATAATAAT-TACATATAT
1 TATAA-AAA-AATAATAATATACATATAT
10764058 TGAAATTAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
28 2 0.04
29 5 0.10
30 17 0.33
31 1 0.02
32 12 0.24
33 14 0.27
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (33 bp):
TATAAAAAAATAATAATATACATATATATAGAT
Found at i:10764318 original size:15 final size:15
Alignment explanation
Indices: 10764298--10764363 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
10764288 AGGTACAATA
10764298 ATAATAAT-ATATAAT
1 ATAATAATAAT-TAAT
10764313 ATAATAATAATTAAT
1 ATAATAATAATTAAT
* * *
10764328 ACAATAAGAA-T-GT
1 ATAATAATAATTAAT
10764341 A-AA-AATAATTAAT
1 ATAATAATAATTAAT
*
10764354 TTAATAATAA
1 ATAATAATAA
10764364 ATAACTAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
11 4 0.10
12 3 0.08
13 3 0.08
14 3 0.08
15 25 0.62
16 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (15 bp):
ATAATAATAATTAAT
Found at i:10764334 original size:18 final size:18
Alignment explanation
Indices: 10764291--10764334 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
10764281 TATATGTAGG
10764291 TACAATAATAATAATATA
1 TACAATAATAATAATATA
10764309 TA-ATATAATAATAAT-TAA
1 TACA-ATAATAATAATAT-A
10764327 TACAATAA
1 TACAATAA
10764335 GAATGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.09
18 20 0.87
19 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
TACAATAATAATAATATA
Found at i:10769054 original size:3 final size:3
Alignment explanation
Indices: 10769048--10769132 Score: 125
Period size: 3 Copynumber: 28.3 Consensus size: 3
10769038 GACGATGATG
* * * **
10769048 ATA ATA ACA ATA ACA ATA ATA ATA ATG ACG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10769096 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 A
10769133 AGAAGTAGGT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:10769531 original size:23 final size:23
Alignment explanation
Indices: 10769505--10769548 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10769495 TAAATATTAT
10769505 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* * *
10769528 TTTATTATTCTTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
10769549 AAATGGTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:10772670 original size:29 final size:28
Alignment explanation
Indices: 10772638--10772698 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
10772628 TAGAATAGAT
* *
10772638 AATAATATAACCATGCATATATATTAT-AA
1 AATAAT-TAAACATGCATATACA-TATGAA
10772667 AAT-ATTAAACATGCATATACATATGAA
1 AATAATTAAACATGCATATACATATGAA
10772694 AATAA
1 AATAA
10772699 AAGTGCACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.11
27 19 0.68
28 3 0.11
29 3 0.11
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (28 bp):
AATAATTAAACATGCATATACATATGAA
Found at i:10772906 original size:3 final size:3
Alignment explanation
Indices: 10772898--10772936 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10772888 AAGATGAAAC
10772898 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10772937 CAACACTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10774439 original size:56 final size:57
Alignment explanation
Indices: 10774341--10774484 Score: 137
Period size: 56 Copynumber: 2.5 Consensus size: 57
10774331 AAAATTCTAG
* ** * **
10774341 AAAGGCAAGCCATTGTGGTGAACCTATTAAAGGGTAACCTTTGT-GAAAAACTTTCA
1 AAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACCTTTGTGGAAAAACTTTCA
** * **
10774397 AAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAGGCTTTGTGGTAAAACTTTGG
1 AAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACCTTTGTGGAAAAACTTTCA
* * ** *
10774454 AAATGCAACCCTTCATGGCAAACCTGTTAAA
1 AAAGGCAAGCCTTTGTGGCAAACCTATTAAA
10774485 GGATGCCTTT
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
56 36 0.51
57 35 0.49
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (57 bp):
AAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACCTTTGTGGAAAAACTTTCA
Found at i:10774549 original size:28 final size:29
Alignment explanation
Indices: 10774482--10774556 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
10774472 CAAACCTGTT
* *
10774482 AAAGG-ATGCCTTTGTGGCAATCTCTGGA
1 AAAGGAATGCATTTGTGGCTATCTCTGGA
* *
10774510 TAATGAAT-CATTTGTGGCTATCTCT-GA
1 AAAGGAATGCATTTGTGGCTATCTCTGGA
*
10774537 AAAGGAATGCATTCGTGGCT
1 AAAGGAATGCATTTGTGGCT
10774557 CCACCTAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 8 0.21
28 28 0.74
29 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (29 bp):
AAAGGAATGCATTTGTGGCTATCTCTGGA
Found at i:10784410 original size:33 final size:33
Alignment explanation
Indices: 10784358--10784424 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
10784348 GAAGGGAGCA
*
10784358 AGGACAATGCGTCAGTTGGCAAGTAACAGGTGG
1 AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
* *
10784391 AGGACAATGTGTCATTTGGCAAGTAACAGCTGG
1 AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
10784424 A
1 A
10784425 CTAACTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (33 bp):
AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
Found at i:10792934 original size:19 final size:19
Alignment explanation
Indices: 10792912--10792976 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 19
10792902 CAAAATTCTG
10792912 AAAAAAAGTATAAATAAAT
1 AAAAAAAGTATAAATAAAT
*
10792931 AAAAAAAGTATAAAATAAAAAAA
1 AAAAAAAGTAT-AAAT---AAAT
10792954 ATAAAAAAGTATAAATAAAT
1 A-AAAAAAGTATAAATAAAT
10792974 AAA
1 AAA
10792977 GTATAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 13 0.33
20 8 0.21
23 8 0.21
24 10 0.26
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAAAAAGTATAAATAAAT
Found at i:10792949 original size:24 final size:24
Alignment explanation
Indices: 10792921--10792998 Score: 97
Period size: 24 Copynumber: 3.2 Consensus size: 24
10792911 GAAAAAAAGT
10792921 ATAAATAAATAAAAAAAGTATAAA
1 ATAAATAAATAAAAAAAGTATAAA
*
10792945 ATAAA-AAAAATAAAAAAGTAT-AA
1 ATAAATAAATA-AAAAAAGTATAAA
10792968 ATAAATAAAGTATAAAAAAAGTATAAA
1 ATAAAT-AA--ATAAAAAAAGTATAAA
10792995 ATAA
1 ATAA
10792999 GAAACGTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
23 11 0.24
24 15 0.33
25 2 0.04
26 10 0.22
27 8 0.17
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (24 bp):
ATAAATAAATAAAAAAAGTATAAA
Found at i:10792950 original size:15 final size:16
Alignment explanation
Indices: 10792951--10792984 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
10792941 TAAAATAAAA
10792951 AAAATAAA-AAAGTAT
1 AAAATAAATAAAGTAT
10792966 -AAATAAATAAAGTAT
1 AAAATAAATAAAGTAT
10792981 AAAA
1 AAAA
10792985 AAAGTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.41
15 7 0.41
16 3 0.18
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAATAAATAAAGTAT
Found at i:10802368 original size:27 final size:28
Alignment explanation
Indices: 10802328--10802382 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
10802318 TGTTAACTAT
*
10802328 GAGCTACATACAAG-AAAGCATGCATGC
1 GAGCTACATACAAGCAAAGAATGCATGC
* * *
10802355 GAGCTGCATGCAAGCAAGGAATGCATGC
1 GAGCTACATACAAGCAAAGAATGCATGC
10802383 AAGTTGTGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (28 bp):
GAGCTACATACAAGCAAAGAATGCATGC
Found at i:10809028 original size:220 final size:221
Alignment explanation
Indices: 10808645--10809082 Score: 842
Period size: 220 Copynumber: 2.0 Consensus size: 221
10808635 TGTGTGATCC
* *
10808645 TAAAAGACTCCGTTGTGGTCCTTAGAGTTTAATAATTTTATGCATCTTTGAGGGACCAAGAGTAA
1 TAAAAGACTCCGTTGTGGTCCTTACAGTTTAAGAATTTTATGCATCTTTGAGGGACCAAGAGTAA
10808710 AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
66 AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
10808775 TAGAATTAGTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
131 TAGAATTAGTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
10808840 TAGATTACTTTAGAGACATAAATTTG
196 TAGATTACTTTAGAGACATAAATTTG
10808866 TAAAAGACTCCGTTGTGGTCCTTACAGTTTAAGAATTTTATGCATCTTTGAGGGACCAAGAGT-A
1 TAAAAGACTCCGTTGTGGTCCTTACAGTTTAAGAATTTTATGCATCTTTGAGGGACCAAGAGTAA
10808930 AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
66 AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
*
10808995 TAGAATTATTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
131 TAGAATTAGTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
10809060 TAGATTACTTTAGAGACATAAAT
196 TAGATTACTTTAGAGACATAAAT
10809083 ATTGACAATG
Statistics
Matches: 214, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
220 153 0.71
221 61 0.29
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (221 bp):
TAAAAGACTCCGTTGTGGTCCTTACAGTTTAAGAATTTTATGCATCTTTGAGGGACCAAGAGTAA
AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
TAGAATTAGTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
TAGATTACTTTAGAGACATAAATTTG
Found at i:10815150 original size:24 final size:24
Alignment explanation
Indices: 10815123--10815218 Score: 129
Period size: 24 Copynumber: 4.0 Consensus size: 24
10815113 TTTACTGGAA
* *
10815123 TATTGAGTGGTTTAACCACAATGT
1 TATTGAGTGGCTTGACCACAATGT
* *
10815147 TATTGAGTGGCTTGACCCCAATGC
1 TATTGAGTGGCTTGACCACAATGT
*
10815171 TATTGAGTGGCTTGGCCACAATGT
1 TATTGAGTGGCTTGACCACAATGT
**
10815195 TATTGAGTGGCTTGGTCACAATGT
1 TATTGAGTGGCTTGACCACAATGT
10815219 GGTGTGTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAATGT
Found at i:10815473 original size:53 final size:53
Alignment explanation
Indices: 10815415--10815525 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 53
10815405 AATTCTGTTT
* *
10815415 ATTTTATGTTGAATTCATATTGGGTTTTGAAAGCTCACCCCTTCAATTTCCTG
1 ATTTTATGTTGAATTCACATTGGATTTTGAAAGCTCACCCCTTCAATTTCCTG
*
10815468 ATTTTATGTTGAATTCACATTGGATTTTGAAAGCTTACCCCTTCAATTTCCTG
1 ATTTTATGTTGAATTCACATTGGATTTTGAAAGCTCACCCCTTCAATTTCCTG
10815521 ATTTT
1 ATTTT
10815526 TCAAATAACC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (53 bp):
ATTTTATGTTGAATTCACATTGGATTTTGAAAGCTCACCCCTTCAATTTCCTG
Found at i:10817394 original size:21 final size:21
Alignment explanation
Indices: 10817370--10817411 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10817360 GTCAGCTGCC
10817370 ATAAATATTTAATAGAAATAT
1 ATAAATATTTAATAGAAATAT
*
10817391 ATAAATGTTTAATAGAAATAT
1 ATAAATATTTAATAGAAATAT
10817412 TTATGAGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
ATAAATATTTAATAGAAATAT
Found at i:10818235 original size:13 final size:13
Alignment explanation
Indices: 10818217--10818241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10818207 ATTTGTGAAC
10818217 AACCCCACAAACA
1 AACCCCACAAACA
10818230 AACCCCACAAAC
1 AACCCCACAAAC
10818242 CCCACAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (13 bp):
AACCCCACAAACA
Found at i:10820870 original size:14 final size:15
Alignment explanation
Indices: 10820835--10820870 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
10820825 AATGTTTGTG
10820835 AGAAAAAATAAATGA
1 AGAAAAAATAAATGA
10820850 AGAAAAAATAAATGA
1 AGAAAAAATAAATGA
10820865 AGAAAA
1 AGAAAA
10820871 GAAGAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (15 bp):
AGAAAAAATAAATGA
Found at i:10827623 original size:6 final size:6
Alignment explanation
Indices: 10827612--10827636 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10827602 AGGTTTCCAA
10827612 AAATGG AAATGG AAATGG AAATGG A
1 AAATGG AAATGG AAATGG AAATGG A
10827637 TTACTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:10828722 original size:34 final size:34
Alignment explanation
Indices: 10828679--10828746 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
10828669 TTTACCACCA
10828679 AACACACAATTCACTCATTAGGTAGATTTCTGAT
1 AACACACAATTCACTCATTAGGTAGATTTCTGAT
10828713 AACACACAATTCACTCATTAGGTAGATTTCTGAT
1 AACACACAATTCACTCATTAGGTAGATTTCTGAT
10828747 TTCTTACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (34 bp):
AACACACAATTCACTCATTAGGTAGATTTCTGAT
Found at i:10832342 original size:23 final size:23
Alignment explanation
Indices: 10832292--10832425 Score: 169
Period size: 23 Copynumber: 5.8 Consensus size: 23
10832282 AGGGCGTTAC
*
10832292 AGAATACGCCACAAAAGGCTTCAT
1 AGAATACGCCAC-AAAGGCATCAT
* *
10832316 AGAATATGCCACAAAAGCATCAT
1 AGAATACGCCACAAAGGCATCAT
* * *
10832339 AGAATACACCACAAAGGCTTCAC
1 AGAATACGCCACAAAGGCATCAT
*
10832362 AGAATACGCCATAAAGGCATCAT
1 AGAATACGCCACAAAGGCATCAT
* *
10832385 AGAGTACGCAACAAAGGCATCAT
1 AGAATACGCCACAAAGGCATCAT
*
10832408 AGAATACACCACAAAGGC
1 AGAATACGCCACAAAGGC
10832426 TTTTCTTGAG
Statistics
Matches: 92, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
23 81 0.88
24 11 0.12
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.14
Consensus pattern (23 bp):
AGAATACGCCACAAAGGCATCAT
Found at i:10832387 original size:69 final size:70
Alignment explanation
Indices: 10832290--10832427 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 70
10832280 TGAGGGCGTT
* * *
10832290 ACAGAATACGCCACAAAAGGCTTCATAGAATATGCCACAAAAGCATCATAGAATACACCACAAAG
1 ACAGAATACGCCACAAAAGGCATCATAGAATACGCAACAAAAGCATCATAGAATACACCACAAAG
10832355 GCTTC
66 GCTTC
* * *
10832360 ACAGAATACGCCA-TAAAGGCATCATAGAGTACGCAACAAAGGCATCATAGAATACACCACAAAG
1 ACAGAATACGCCACAAAAGGCATCATAGAATACGCAACAAAAGCATCATAGAATACACCACAAAG
10832424 GCTT
66 GCTT
10832428 TTCTTGAGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 49 0.79
70 13 0.21
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.15
Consensus pattern (70 bp):
ACAGAATACGCCACAAAAGGCATCATAGAATACGCAACAAAAGCATCATAGAATACACCACAAAG
GCTTC
Found at i:10840052 original size:6 final size:6
Alignment explanation
Indices: 10840041--10840079 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
10840031 GGTTTTATCC
**
10840041 AAAATG AAAATG GGAATG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
10840080 TTCATTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:10843937 original size:26 final size:26
Alignment explanation
Indices: 10843884--10844027 Score: 180
Period size: 27 Copynumber: 5.4 Consensus size: 26
10843874 TTCGGGCGTT
* **
10843884 ACAAAGGCATTCCTTTCATATTCCGCC
1 ACAAAGGC-TTTCTTTCATATTATGCC
* *
10843911 ACAAAGGCTTTCTTTTACATTATGCC
1 ACAAAGGCTTTCTTTCATATTATGCC
10843937 ACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGC-TTTCTTTCATATTATGCC
10843964 ACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGC-TTTCTTTCATATTATGCC
** * *
10843991 ATGAATGCTTTCTTTCATATTACGCC
1 ACAAAGGCTTTCTTTCATATTATGCC
10844017 ACAAAGGCTTT
1 ACAAAGGCTTT
10844028 TTTTATTTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
26 46 0.45
27 56 0.55
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (26 bp):
ACAAAGGCTTTCTTTCATATTATGCC
Found at i:10843965 original size:53 final size:52
Alignment explanation
Indices: 10843884--10844032 Score: 192
Period size: 53 Copynumber: 2.8 Consensus size: 52
10843874 TTCGGGCGTT
* *
10843884 ACAAAGGCATTCCTTTCATATTCCGCCACAAAGGCTTTCTTTTACATTATGCC
1 ACAAAGGC-TTTCTTTCATATTACGCCACAAAGGCTTTCTTTTACATTATGCC
* * *
10843937 ACAAAGGCTTTTCTTTCATATTATGCCACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGC-TTTCTTTCATATTACGCCACAAAGGC-TTTCTTTTACATTATGCC
** *
10843991 ATGAATGCTTTCTTTCATATTACGCCACAAAGGCTTT-TTTTA
1 ACAAAGGCTTTCTTTCATATTACGCCACAAAGGCTTTCTTTTA
10844033 TTTTTCATGC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.05
52 3 0.04
53 56 0.67
54 21 0.25
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.39
Consensus pattern (52 bp):
ACAAAGGCTTTCTTTCATATTACGCCACAAAGGCTTTCTTTTACATTATGCC
Found at i:10851694 original size:4 final size:4
Alignment explanation
Indices: 10851685--10851712 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
10851675 TATATCATGT
10851685 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
10851713 TTTATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:10851775 original size:21 final size:20
Alignment explanation
Indices: 10851745--10851784 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
10851735 AAATATATAT
10851745 TATTTATAA-TTATATTTAAC
1 TATTTATAATTTA-ATTTAAC
10851765 TATTATATAATTTAATTTAA
1 TATT-TATAATTTAATTTAA
10851785 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 11 0.61
22 3 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTATAATTTAATTTAAC
Found at i:10854257 original size:21 final size:21
Alignment explanation
Indices: 10854232--10854275 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
10854222 ATGCCTTTTG
10854232 AAATTGTGCTTCAATAATAAA
1 AAATTGTGCTTCAATAATAAA
* *
10854253 AAATTGTGCTTTAATAATCAA
1 AAATTGTGCTTCAATAATAAA
10854274 AA
1 AA
10854276 TGCTAGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (21 bp):
AAATTGTGCTTCAATAATAAA
Found at i:10861509 original size:35 final size:35
Alignment explanation
Indices: 10861470--10861564 Score: 95
Period size: 35 Copynumber: 2.8 Consensus size: 35
10861460 CCGAACCCGT
* * * *
10861470 AACCCAAAATCCTTGGACCCTGAACTTGAACCTTG
1 AACCCAAAACCCTTGAACCCTAAACTTGAACCTTA
* * *
10861505 AACCCCAAACCCTTGAACCTTAAACTTGAATCTTA
1 AACCCAAAACCCTTGAACCCTAAACTTGAACCTTA
* *
10861540 AACCC-CAA-GCTTGAACCCTAAACTT
1 AACCCAAAACCCTTGAACCCTAAACTT
10861565 TAAATCTCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 15 0.30
34 2 0.04
35 33 0.66
ACGTcount: A:0.35, C:0.33, G:0.09, T:0.23
Consensus pattern (35 bp):
AACCCAAAACCCTTGAACCCTAAACTTGAACCTTA
Found at i:10862587 original size:15 final size:15
Alignment explanation
Indices: 10862567--10862608 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
10862557 AATTTTGTAT
10862567 TATTTTAATATTAAA
1 TATTTTAATATTAAA
*
10862582 TATTTTAAAATTAAA
1 TATTTTAATATTAAA
*
10862597 TAATATTAATAT
1 T-ATTTTAATAT
10862609 AATTGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTTAATATTAAA
Found at i:10863148 original size:17 final size:17
Alignment explanation
Indices: 10863126--10863159 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10863116 ATCCAAATTC
10863126 TCTAACTTTTTTAGTTA
1 TCTAACTTTTTTAGTTA
10863143 TCTAACTTTTTTAGTTA
1 TCTAACTTTTTTAGTTA
10863160 CCATTGGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (17 bp):
TCTAACTTTTTTAGTTA
Found at i:10872127 original size:50 final size:50
Alignment explanation
Indices: 10871997--10872232 Score: 226
Period size: 50 Copynumber: 4.7 Consensus size: 50
10871987 GATAATAACA
* * *
10871997 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-TGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATAT-CGG
* * * *
10872046 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
** * * ** * * *
10872096 TGCCCGTGTCATGTCCCAGACATGGTTTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
** * * * *
10872146 TGCCAACACCATGTCCCAAATATGGTCTTACATGGGACATCTCGTATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
*
10872196 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
10872233 TCTTTTTACC
Statistics
Matches: 149, Mismatches: 35, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
48 1 0.01
49 39 0.26
50 109 0.73
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:10895094 original size:16 final size:17
Alignment explanation
Indices: 10895069--10895106 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10895059 CACAATAAAC
10895069 ATTAAACTAA-ACAAAA
1 ATTAAACTAACACAAAA
*
10895085 ATTAACCTAATCACAAAA
1 ATTAAACTAA-CACAAAA
10895103 ATTA
1 ATTA
10895107 CTAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTAAACTAACACAAAA
Found at i:10896055 original size:26 final size:25
Alignment explanation
Indices: 10896008--10896056 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
10895998 TTTCATTTAC
* *
10896008 TTATTATATTTACTTTAGTATTATA
1 TTATTATATTTACTTAAATATTATA
10896033 TTATATATATTTACTTAAATATTA
1 TTAT-TATATTTACTTAAATATTA
10896057 AGTAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
TTATTATATTTACTTAAATATTATA
Found at i:10896068 original size:26 final size:26
Alignment explanation
Indices: 10896013--10896069 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
10896003 TTTACTTATT
* * * *
10896013 ATATTTACTTTAGTATTATATTATAT
1 ATATTTACTTAAATATTATATAATAA
10896039 ATATTTACTTAAATATTA-AGTAATAA
1 ATATTTACTTAAATATTATA-TAATAA
10896065 ATATT
1 ATATT
10896070 ATAATATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATAATAA
Found at i:10900103 original size:13 final size:13
Alignment explanation
Indices: 10900085--10900112 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10900075 TACCACATTT
10900085 ATATCATCAAAAC
1 ATATCATCAAAAC
10900098 ATATCATCAAAAC
1 ATATCATCAAAAC
10900111 AT
1 AT
10900113 TATTCAAGTC
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:0.21, G:0.00, T:0.25
Consensus pattern (13 bp):
ATATCATCAAAAC
Found at i:10905134 original size:6 final size:6
Alignment explanation
Indices: 10905109--10905156 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
10905099 GAAAAATTAG
* * *
10905109 AAAATA AAAATT AAACTA AAAATA AAAAT- AAAAT- ATAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
10905155 AA
1 AA
10905157 TGGCTAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:10905134 original size:11 final size:10
Alignment explanation
Indices: 10905110--10905157 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 10
10905100 AAAAATTAGA
10905110 AAATAAAAATT
1 AAATAAAAA-T
10905121 AAACTAAAAAT
1 AAA-TAAAAAT
*
10905132 AAAAATAAAAT
1 AAATA-AAAAT
10905143 ATAATAAAAAT
1 A-AATAAAAAT
10905154 AAAT
1 AAAT
10905158 GGCTAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 4 0.12
11 19 0.59
12 9 0.28
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:10935891 original size:40 final size:40
Alignment explanation
Indices: 10935834--10936212 Score: 456
Period size: 40 Copynumber: 9.5 Consensus size: 40
10935824 AATTATTGAA
* *
10935834 TGATTGCATTTACGTGCCCCTGTTTGCACTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* ** * * * * *
10935874 TGATTGCTCTTTTGTGCCCCTATTTATATTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * *
10935914 TGATTACACTTACATGCCCTTGTTTGTACTTTGGTACTCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* *
10935954 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
10935994 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACACC-
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC-CCT
* *
10936034 TGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * *
10936074 TGATTGCACTTGCATACCCTTATTTGTACTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
*
10936114 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTATCCC-
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCT
* * *
10936154 TGACTGCACTTACGTGCCCCTATTTGTACTTTGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* *
10936194 TGGTTGCACTTCCGTGCCC
1 TGATTGCACTTACGTGCCC
10936213 TTGGTTATAC
Statistics
Matches: 290, Mismatches: 45, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
39 5 0.02
40 280 0.97
41 5 0.02
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:10935993 original size:20 final size:20
Alignment explanation
Indices: 10935970--10936192 Score: 130
Period size: 20 Copynumber: 11.2 Consensus size: 20
10935960 CACTTACATG
10935970 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * *
10935990 CCCCTGATTGCACTTAC-GTG
1 CCCCTGTTTGTACTT-CGGTA
10936010 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * ** *
10936030 CACCTGATTGCACTTATGTG
1 CCCCTGTTTGTACTTCGGTA
*
10936050 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
10936070 CCCTTGATTGCACTT-GCATA
1 CCCCTGTTTGTACTTCG-GTA
* *
10936090 CCCTTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
10936110 CCCTTGATTGCACTTAC-GTG
1 CCCCTGTTTGTACTT-CGGTA
*
10936130 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* ** * *
10936150 TCCCTGACTGCACTTAC-GTG
1 CCCCTGTTTGTACTT-CGGTA
* *
10936170 CCCCTATTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
10936190 CCC
1 CCC
10936193 TTGGTTGCAC
Statistics
Matches: 147, Mismatches: 48, Indels: 16
0.70 0.23 0.08
Matches are distributed among these distances:
19 3 0.02
20 140 0.95
21 4 0.03
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:10936214 original size:120 final size:119
Alignment explanation
Indices: 10935834--10936204 Score: 508
Period size: 120 Copynumber: 3.1 Consensus size: 119
10935824 AATTATTGAA
* * * * **
10935834 TGATTGCATTTACGTGCCCCTGTTTGCACTTCGGTACCCTTGATTGCTCTTTTGTGCCCCTATTT
1 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
* * * * * * *
10935899 ATATTTTGGTACCCCTGATTACACTTACATGCCCTTGTTTGTACTTTGGTACTCT
66 GTACTTCGGTA-CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCT
* *
10935954 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTACGTGCCCCTGTTT
1 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
*
10936019 GTACTTCGGTACACCTGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACCCT
66 GTACTTCGGTAC-CCTGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCT
* * * *
10936074 TGATTGCACTTGCATACCCTTATTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
1 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
* *
10936139 GTACTTCGGTATCCCTGACTGCACTTACGTGCCCCTATTTGTACTTTGGTACCCT
66 GTACTTCGGTA-CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCT
*
10936194 TGGTTGCACTT
1 TGATTGCACTT
10936205 CCGTGCCCTT
Statistics
Matches: 223, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
119 1 0.00
120 221 0.99
121 1 0.00
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.40
Consensus pattern (119 bp):
TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
GTACTTCGGTACCCTGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCT
Found at i:10952964 original size:19 final size:19
Alignment explanation
Indices: 10952940--10952986 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
10952930 TTTATATTTC
*
10952940 TAAAAGAATTATAAA-AATT
1 TAAAAGAA-TATAAAGAATA
10952959 TAAAAGAATATAAAGAATA
1 TAAAAGAATATAAAGAATA
10952978 TATAAAGAA
1 TA-AAAGAA
10952987 AATTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (19 bp):
TAAAAGAATATAAAGAATA
Found at i:10954852 original size:19 final size:19
Alignment explanation
Indices: 10954824--10954865 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10954814 AGTAACAGCT
* *
10954824 TAACTGCTAACAGACTTAG
1 TAACTACTAACAGAATTAG
10954843 TAACTACTAACAGAATTAG
1 TAACTACTAACAGAATTAG
10954862 TAAC
1 TAAC
10954866 AGCTTTGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (19 bp):
TAACTACTAACAGAATTAG
Found at i:10959465 original size:19 final size:19
Alignment explanation
Indices: 10959441--10959477 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10959431 ACAGCTTAAC
*
10959441 TGCTAATAGACTTAGTAAT
1 TGCTAACAGACTTAGTAAT
10959460 TGCTAACAGACTTAGTAA
1 TGCTAACAGACTTAGTAA
10959478 CAACTTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (19 bp):
TGCTAACAGACTTAGTAAT
Found at i:10960673 original size:15 final size:17
Alignment explanation
Indices: 10960653--10960689 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
10960643 TTTTTTTCTC
10960653 TAAAAACA-GTTTAT-T
1 TAAAAACACGTTTATCT
*
10960668 TAAAAACACTTTTATCT
1 TAAAAACACGTTTATCT
10960685 TAAAA
1 TAAAA
10960690 GTGTTTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAAAACACGTTTATCT
Found at i:10965886 original size:146 final size:147
Alignment explanation
Indices: 10965621--10965894 Score: 487
Period size: 146 Copynumber: 1.9 Consensus size: 147
10965611 TTTGGCTGGG
* *
10965621 GGAGAGTGTTAGTATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGTTTCT
1 GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
*
10965686 TGGTCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
66 TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
10965751 CTCTCTCTCTGGCATGA
131 CTCTCTCTCTGGCATGA
* *
10965768 GGAGAGTGTTAGGATTTTGTTTTTGAGTAATCAGGAACA-TTTCTTTTGTTGTCTAAATGCTTCT
1 GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
*
10965832 TGATCACTCTGCACTAACCTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCT
66 TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCT
10965895 AGTGGCTAGA
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
146 85 0.70
147 36 0.30
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (147 bp):
GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
CTCTCTCTCTGGCATGA
Found at i:10972863 original size:23 final size:19
Alignment explanation
Indices: 10972795--10972851 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
10972785 TTAAAGTTCC
*
10972795 AAAATAATTTTAATAA-TT-
1 AAAATAA-TTAAATAATTTA
*
10972813 AAATTAATTAAATAATTTA
1 AAAATAATTAAATAATTTA
10972832 AAAATAATTAAATATATTTA
1 AAAATAATTAAATA-ATTTA
10972852 CACAATCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 7 0.21
18 8 0.24
19 13 0.39
20 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAATTAAATAATTTA
Found at i:10977391 original size:32 final size:32
Alignment explanation
Indices: 10977355--10977415 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
10977345 AAATAAACAC
10977355 ATAATTATTCATTT-AATA-TTATAAATATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAAATATTCAA
*
10977387 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAAATATT
10977416 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAAATATTCAA
Found at i:10982508 original size:5 final size:5
Alignment explanation
Indices: 10982498--10982663 Score: 118
Period size: 5 Copynumber: 33.2 Consensus size: 5
10982488 AAGTATAACT
* * * *
10982498 TATCA TATCA TAACGA -ATCA TAACA TATCA TATCA TATCA TATCG TATCG
1 TATCA TATCA TATC-A TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * * * * * * * *
10982548 TATCG TATCG TATCG TATCG TATCG TATCG TATCG TACCG TATCG TATCG
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * * *
10982598 TATCG TATCG TATCA TATCA TATCA TATCA TATCG TAACA TAGCA TAGCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
*
10982648 TATCA AATCA TATCA T
1 TATCA TATCA TATCA T
10982664 GTCCTACCCC
Statistics
Matches: 144, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
4 1 0.01
5 142 0.99
6 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (5 bp):
TATCA
Found at i:10982906 original size:7 final size:7
Alignment explanation
Indices: 10982890--10982936 Score: 62
Period size: 7 Copynumber: 6.7 Consensus size: 7
10982880 ACATGCATAA
10982890 CATA-AT
1 CATATAT
10982896 CATATAT
1 CATATAT
10982903 CATACT-T
1 CATA-TAT
10982910 ACATATAT
1 -CATATAT
10982918 CATATAT
1 CATATAT
10982925 CATATAT
1 CATATAT
10982932 CATAT
1 CATAT
10982937 GGCATACGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 4 0.11
7 27 0.73
8 6 0.16
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (7 bp):
CATATAT
Found at i:10983013 original size:14 final size:14
Alignment explanation
Indices: 10982994--10983024 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10982984 GTTTTAATTG
*
10982994 TAACATATTATATT
1 TAACATATCATATT
10983008 TAACATATCATATT
1 TAACATATCATATT
10983022 TAA
1 TAA
10983025 TTGTCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
TAACATATCATATT
Found at i:10983258 original size:49 final size:49
Alignment explanation
Indices: 10983167--10983385 Score: 224
Period size: 49 Copynumber: 4.5 Consensus size: 49
10983157 TCACGCGGTC
* * * ** * * *
10983167 TACAAAATCTCACATGGTCGTGTGCTCCACACAATCAAGCCACACGAGC
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* * *
10983216 TATAAAAACACACACGGTTGTGTGCTCCACACAGCCTAGCCACACGTGA
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* *
10983265 TACAAAAACATACACGGTTGTGTGCTCCACACAGCCTAGCCACACGGGA
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* * * * * * * *
10983314 TGCAAAAACGCACACGGCCGTGTACTCCATATAGCCTAGCCACATGGGC
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
*
10983363 TGA-AAAAATACACACGGTCGTGT
1 T-ACAAAAACACACACGGTCGTGT
10983386 AGTGCACATG
Statistics
Matches: 142, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 142 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (49 bp):
TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
Found at i:10983963 original size:31 final size:31
Alignment explanation
Indices: 10983928--10983987 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10983918 AAGGCTTCCA
10983928 AAAAAAAAAAGAAAGAACAAGAAAGAGCAAG
1 AAAAAAAAAAGAAAGAACAAGAAAGAGCAAG
* * * *
10983959 AAAAATAAAAGAAATAAGAATAAAGAGCA
1 AAAAAAAAAAGAAAGAACAAGAAAGAGCA
10983988 CAAGAACAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.73, C:0.05, G:0.17, T:0.05
Consensus pattern (31 bp):
AAAAAAAAAAGAAAGAACAAGAAAGAGCAAG
Found at i:10984600 original size:27 final size:27
Alignment explanation
Indices: 10984570--10984623 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
10984560 TTCATACTTT
10984570 AATTA-TAAAATAATTAATTTTCAATTA
1 AATTATTAAAATAATTAATTTT-AATTA
* *
10984597 AATTATTAACATATTTAATTTTAATTA
1 AATTATTAAAATAATTAATTTTAATTA
10984624 TTTTTATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (27 bp):
AATTATTAAAATAATTAATTTTAATTA
Found at i:10986507 original size:29 final size:30
Alignment explanation
Indices: 10986446--10986511 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
10986436 AAAATAAACA
* * * *
10986446 TTAGTGACCGATTTGTCATTTTTCTAAATT
1 TTAGTGACCGAGTTGTAACTTTTCTAAAGT
*
10986476 TTAGTGACTGAGTTGTAACTTTT-TAAAGT
1 TTAGTGACCGAGTTGTAACTTTTCTAAAGT
10986505 TTAGTGA
1 TTAGTGA
10986512 TTGTTTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (30 bp):
TTAGTGACCGAGTTGTAACTTTTCTAAAGT
Found at i:10988966 original size:18 final size:18
Alignment explanation
Indices: 10988952--10989007 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
10988942 CACAGTTTGG
10988952 CAAATTAATACAGTTCGC
1 CAAATTAATACAGTTCGC
* ** *
10988970 CATATTAATACAAATCAC
1 CAAATTAATACAGTTCGC
*
10988988 CAAATTAACACAGTTCGC
1 CAAATTAATACAGTTCGC
10989006 CA
1 CA
10989008 TAATAATATA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (18 bp):
CAAATTAATACAGTTCGC
Found at i:10988993 original size:36 final size:36
Alignment explanation
Indices: 10988952--10989039 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
10988942 CACAGTTTGG
* *
10988952 CAAATTAATACAGTTCGCCATATTAATACAAATCAC
1 CAAATTAACACAGTTCGCCATAATAATACAAATCAC
* *
10988988 CAAATTAACACAGTTCGCCATAATAATATAATTCAC
1 CAAATTAACACAGTTCGCCATAATAATACAAATCAC
* *
10989024 CAAGTTAACATAGTTC
1 CAAATTAACACAGTTC
10989040 ACAATATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (36 bp):
CAAATTAACACAGTTCGCCATAATAATACAAATCAC
Found at i:10989979 original size:6 final size:6
Alignment explanation
Indices: 10989968--10990004 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
10989958 GGGATTTTGG
*
10989968 TTTATT TTTA-T TTTA-T TTTATT TTTGTT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
10990005 TTTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:10989987 original size:16 final size:17
Alignment explanation
Indices: 10989968--10990007 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
10989958 GGGATTTTGG
10989968 TTTATTTTT-ATTTTAT
1 TTTATTTTTGATTTTAT
*
10989984 TTTATTTTTGTTTTTAT
1 TTTATTTTTGATTTTAT
10990001 TTT-TTTT
1 TTTATTTT
10990008 CTTTTCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTATTTTTGATTTTAT
Found at i:10990000 original size:22 final size:21
Alignment explanation
Indices: 10989972--10990012 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
10989962 TTTTGGTTTA
10989972 TTTTTATTTTATTTTATTTTTG
1 TTTTTATTTT-TTTTATTTTTG
*
10989994 TTTTTATTTTTTTTCTTTT
1 TTTTTATTTTTTTTATTTT
10990013 CTCTCTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.85
Consensus pattern (21 bp):
TTTTTATTTTTTTTATTTTTG
Found at i:10993031 original size:23 final size:22
Alignment explanation
Indices: 10992978--10993031 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
10992968 CCTAACCTAA
*
10992978 AATTATTAATTCTAATTATTCT
1 AATTATTTATTCTAATTATTCT
10993000 AA-TATTTTATT-TAATTAATTTCT
1 AATTA-TTTATTCTAATT-A-TTCT
10993023 AATTATTTA
1 AATTATTTA
10993032 ATTATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 7 0.26
22 8 0.30
23 10 0.37
24 2 0.07
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTATTTATTCTAATTATTCT
Found at i:10993047 original size:32 final size:31
Alignment explanation
Indices: 10992982--10993048 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
10992972 ACCTAAAATT
* * *
10992982 ATTAATTCTAATTATTCTAATATTTTATTTA
1 ATTAATTCTAATTATTCTAATATATAATCTA
10993013 ATTAATTTCTAATTATT-TAATTATATAATCTA
1 ATTAA-TTCTAATTATTCTAA-TATATAATCTA
10993045 ATTA
1 ATTA
10993049 CAGTTTCCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 8 0.26
32 23 0.74
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (31 bp):
ATTAATTCTAATTATTCTAATATATAATCTA
Found at i:10993614 original size:25 final size:25
Alignment explanation
Indices: 10993554--10993618 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
10993544 ATTTAAAACT
* *
10993554 TATATTTACATATAAATATATTTATA
1 TATATATA-ATATAAATATATTTACA
** * *
10993580 TGGATGTAATATAGATATATTTACA
1 TATATATAATATAAATATATTTACA
10993605 TATATATAATATAA
1 TATATATAATATAA
10993619 TTTTTTACCA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (25 bp):
TATATATAATATAAATATATTTACA
Found at i:10994234 original size:23 final size:24
Alignment explanation
Indices: 10994204--10994248 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
10994194 ATTATTTATT
10994204 AAATAATATATT-TTA-TAATTTC
1 AAATAATATATTATTACTAATTTC
10994226 AAATAAATATATTATTACTAATT
1 AAAT-AATATATTATTACTAATT
10994249 GAATAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 3 0.15
25 5 0.25
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATAATATATTATTACTAATTTC
Found at i:10996919 original size:125 final size:125
Alignment explanation
Indices: 10996697--10996984 Score: 495
Period size: 125 Copynumber: 2.3 Consensus size: 125
10996687 ATTTATTAAG
* * * * *
10996697 GAAATCTCTCCCATGTGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
10996762 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* *
10996822 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAGTAATTTCGATTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
10996887 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
*
10996947 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
10996985 CATGTTTGGG
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 154 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
Found at i:11000312 original size:22 final size:21
Alignment explanation
Indices: 11000277--11000388 Score: 83
Period size: 22 Copynumber: 5.4 Consensus size: 21
11000267 TAGGGATTTA
*
11000277 AGAGAAATTAAGAGGAAATTG
1 AGAGAAATTGAGAGGAAATTG
*
11000298 AGAGCAAATTGAGAGCAAATTG
1 AGAG-AAATTGAGAGGAAATTG
* * *
11000320 AGATTAAA-T-A-TGG-ATTTG
1 AGA-GAAATTGAGAGGAAATTG
11000338 AGAGAAATTTG-GAAGGAAATTG
1 AGAGAAA-TTGAG-AGGAAATTG
*
11000360 AGAGCAATTTGAGAGGAAATTG
1 AGAG-AAATTGAGAGGAAATTG
11000382 AGA-AAAT
1 AGAGAAAT
11000389 AATTGAGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 21
0.69 0.11 0.21
Matches are distributed among these distances:
17 3 0.04
18 7 0.10
19 2 0.03
20 4 0.06
21 7 0.10
22 44 0.63
23 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.28, T:0.23
Consensus pattern (21 bp):
AGAGAAATTGAGAGGAAATTG
Found at i:11000328 original size:11 final size:11
Alignment explanation
Indices: 11000277--11000322 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
11000267 TAGGGATTTA
*
11000277 AGAG-AAATTA
1 AGAGCAAATTG
*
11000287 AGAGGAAATTG
1 AGAGCAAATTG
11000298 AGAGCAAATTG
1 AGAGCAAATTG
11000309 AGAGCAAATTG
1 AGAGCAAATTG
11000320 AGA
1 AGA
11000323 TTAAATATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
10 4 0.12
11 29 0.88
ACGTcount: A:0.50, C:0.04, G:0.28, T:0.17
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:11000372 original size:62 final size:61
Alignment explanation
Indices: 11000264--11000384 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 61
11000254 AAATAATTAA
11000264 AAATAGGGATTTAAGAGAAATTAAGAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTAAGAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
* * ** * *
11000325 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGAGGAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTAAG-AGGAAATTGAGAGCAAATTGAGAGCAAATTGAGA
11000385 AAATAATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
61 21 0.40
62 32 0.60
ACGTcount: A:0.45, C:0.02, G:0.28, T:0.24
Consensus pattern (61 bp):
AAATAGGGATTTAAGAGAAATTAAGAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
Found at i:11001915 original size:17 final size:16
Alignment explanation
Indices: 11001892--11001935 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
11001882 AATAAGAGGA
11001892 TATTTTTAATTGAATAGT
1 TATTTTTAATTG--TAGT
*
11001910 TA-TTTTAACTGTAGT
1 TATTTTTAATTGTAGT
11001925 TATTTTTAATT
1 TATTTTTAATT
11001936 TCTAGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.26
16 7 0.30
17 8 0.35
18 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (16 bp):
TATTTTTAATTGTAGT
Found at i:11003863 original size:66 final size:66
Alignment explanation
Indices: 11003757--11003953 Score: 322
Period size: 66 Copynumber: 3.0 Consensus size: 66
11003747 CAAACAAAGA
* * * * *
11003757 CTATTCAAGTGTCACGGTTGGCGACCAAGAATGGAGGTCCTTATTACAAGGAGCTGAAGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
11003822 G
66 G
*
11003823 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTGCAGGGAGCTGATGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
11003888 G
66 G
* *
11003889 CTATTCAAGTTTCACAGTCGGTGACCAAGAATGGAGGTTCTTATTACAGGGAGCTGATGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
11003954 AACAAGACAT
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 122 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.24
Consensus pattern (66 bp):
CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
G
Found at i:11006064 original size:87 final size:87
Alignment explanation
Indices: 11005872--11006126 Score: 377
Period size: 87 Copynumber: 2.9 Consensus size: 87
11005862 AAATTTAAAT
* *
11005872 TCGGTGAATTCATCAAGTTCGTCTCACTAGGACCACCCAAACTCTGGGATATGAACTCAATTAAG
1 TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTC-ATTAAG
11005937 AGTAATAAACTCAACCTCACATG
65 AGTAATAAACTCAACCTCACATG
** * * * *
11005960 TTAGTGAATTCATCAAGTCCATCGCAATAGGACCACCCAAACTCTAGGATATAAACTCATTAAGA
1 TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGA
11006025 GTAATAAACTCAACCTCACATG
66 GTAATAAACTCAACCTCACATG
* * * *
11006047 TCGGTGAATTCATCAAGTCCGTCTTAATAGGACCACCCAAACTCTGGGCTATGAATTAATTAAGA
1 TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGA
*
11006112 GTAA-GAACTCAACCT
66 GTAATAAACTCAACCT
11006127 TATGCATGTA
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 10 0.07
87 88 0.59
88 50 0.34
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (87 bp):
TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGA
GTAATAAACTCAACCTCACATG
Found at i:11011084 original size:41 final size:40
Alignment explanation
Indices: 11011039--11011134 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 40
11011029 ACCGGCTTTT
* *
11011039 AGCCTGCTAGACTTAA-AGTCTAAATAATTTCACTGGCATTA
1 AGCCTGCTAGAC--AAGAGTCTAAATAATATCACTGGCATCA
* *
11011080 AGCCTGTTAGACAATGAGTCTAAATTATATCACTGGCATCA
1 AGCCTGCTAGACAA-GAGTCTAAATAATATCACTGGCATCA
*
11011121 AGCCTACTAGACAA
1 AGCCTGCTAGACAA
11011135 TAAATCTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.04
41 45 0.96
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (40 bp):
AGCCTGCTAGACAAGAGTCTAAATAATATCACTGGCATCA
Found at i:11011135 original size:41 final size:41
Alignment explanation
Indices: 11011055--11011135 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
11011045 CTAGACTTAA
* * **
11011055 AGTCTAAATAATTTCACTGGCATTAAGCCTGTTAGACAATG
1 AGTCTAAATAATATCACTGGCATCAAGCCTACTAGACAATG
*
11011096 AGTCTAAATTATATCACTGGCATCAAGCCTACTAGACAAT
1 AGTCTAAATAATATCACTGGCATCAAGCCTACTAGACAAT
11011136 AAATCTGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (41 bp):
AGTCTAAATAATATCACTGGCATCAAGCCTACTAGACAATG
Found at i:11011147 original size:41 final size:41
Alignment explanation
Indices: 11011039--11011147 Score: 112
Period size: 41 Copynumber: 2.7 Consensus size: 41
11011029 ACCGGCTTTT
* * * * *
11011039 AGCCTGCTAGAC-TTAAAGTCTAAATAATTTCACTGGCATTA
1 AGCCTACTAGACAATAAA-TCTAAATTATATCACTGGCATCA
** * *
11011080 AGCCTGTTAGACAATGAGTCTAAATTATATCACTGGCATCA
1 AGCCTACTAGACAATAAATCTAAATTATATCACTGGCATCA
*
11011121 AGCCTACTAGACAATAAATCTGAATTA
1 AGCCTACTAGACAATAAATCTAAATTA
11011148 CATTCGATCA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 53 0.96
42 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (41 bp):
AGCCTACTAGACAATAAATCTAAATTATATCACTGGCATCA
Found at i:11015493 original size:12 final size:12
Alignment explanation
Indices: 11015476--11015507 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
11015466 GGTTGTTAGC
11015476 CATGTGACTTAA
1 CATGTGACTTAA
11015488 CATGTGACTTAA
1 CATGTGACTTAA
11015500 CATGTGAC
1 CATGTGAC
11015508 CTCTAACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (12 bp):
CATGTGACTTAA
Found at i:11016737 original size:23 final size:22
Alignment explanation
Indices: 11016694--11016740 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
11016684 TATAAAATCA
11016694 AATAAAAAATATATAATTATAT
1 AATAAAAAATATATAATTATAT
11016716 AAT-AAAAATATAT-ATTAATAT
1 AATAAAAAATATATAATT-ATAT
11016737 AATA
1 AATA
11016741 TTTATTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.13
21 17 0.74
22 3 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAAAAATATATAATTATAT
Found at i:11017587 original size:20 final size:20
Alignment explanation
Indices: 11017558--11017601 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
11017548 CTACATATTG
*
11017558 GTATCGATACTTAAGGAGAA
1 GTATCAATACTTAAGGAGAA
*
11017578 GTATCAATACTTAGGGAGAA
1 GTATCAATACTTAAGGAGAA
11017598 GTAT
1 GTAT
11017602 TGGTACCTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (20 bp):
GTATCAATACTTAAGGAGAA
Found at i:11019219 original size:17 final size:17
Alignment explanation
Indices: 11019187--11019224 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
11019177 AAATGAAACA
*
11019187 AAAATGAAATAAGAGATT
1 AAAATCAAATAAGAGA-T
11019205 AAAATCAAA-AAGAGAT
1 AAAATCAAATAAGAGAT
11019221 AAAA
1 AAAA
11019225 GAACTGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 6 0.32
18 8 0.42
ACGTcount: A:0.68, C:0.03, G:0.13, T:0.16
Consensus pattern (17 bp):
AAAATCAAATAAGAGAT
Found at i:11020890 original size:175 final size:173
Alignment explanation
Indices: 11020685--11021189 Score: 713
Period size: 175 Copynumber: 2.9 Consensus size: 173
11020675 ATCTACTTTG
* * * *
11020685 CTACTGCTTAGGGAGACAAGATCTGCTATCTTCAATCTGCTTCACTTCAACCGATGGAGGCAAGG
1 CTACTGCTTAGGGAGGCAAGATCCGCTATCTT-AA-CTGCTCCACTTCAACCGAGGGAGGCAAGG
* * * * * *
11020750 CTTGTGTCTTCGATCCGCTTCGCTGTCAGAGCAGGAAGGCAATATCTGCTATCTTCAGCCTGCTC
64 CTAGTATCTTCGATCTGCTTCGCTGTCAGAGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTC
* *
11020815 CACTACAACCGAGTGAGGCAAGGCTGGTATCTTTGATCTGCTCCA
129 CACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCA
* * *
11020860 CTACTGCTTAGGGCGGCAAGATCCGCTATCTGTAACCTGCTCCACTGCAACCGAGGGAGGCAAGA
1 CTACTGCTTAGGGAGGCAAGATCCGCTATCT-TAA-CTGCTCCACTTCAACCGAGGGAGGCAAGG
* * * *
11020925 CTGGTACCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTTAATCTGCTC
64 CTAGTATCTTCGATCTGCTTCGCTGTCAGAGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTC
* *
11020990 CACTGCAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCA
129 CACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCA
11021035 CTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAACTTGCTCCACTTCAACCGAGGGAGGCAAGG
1 CTACTGCTTAGGGAGGCAAGATCCGCTATC-TTAAC-TGCTCCACTTCAACCGAGGGAGGCAAGG
* * * * * *
11021100 CTAGTATCTTTGATCTTCTTCGTTGTAAGCGTAGGAAGGCAAGATCTGCTATCTTTAACCTGCTC
64 CTAGTATCTTCGATCTGCTTCGCTGTCAGAGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTC
11021165 CACTACAACCGAGGGAGGCAAGGCT
129 CACTACAACCGAGGGAGGCAAGGCT
11021190 TTGTTTTCGA
Statistics
Matches: 292, Mismatches: 35, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
174 1 0.00
175 289 0.99
176 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (173 bp):
CTACTGCTTAGGGAGGCAAGATCCGCTATCTTAACTGCTCCACTTCAACCGAGGGAGGCAAGGCT
AGTATCTTCGATCTGCTTCGCTGTCAGAGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCA
CTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCA
Found at i:11020922 original size:44 final size:44
Alignment explanation
Indices: 11020694--11021186 Score: 268
Period size: 44 Copynumber: 11.2 Consensus size: 44
11020684 GCTACTGCTT
* * * *
11020694 AGGGAGACAAGATCTGCTATCTTCAATCTGCTTCACTTCAACCG
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * * ** * * * *
11020738 ATGGAGGCAAG-GCTTG-TGTCTTCGATCCGCTTCGCTGTCAGAGC-
1 AGGGAGGCAAGATC-TGCTATCTTTAATCTGCTCCACTG-CA-ACCG
* * * ** *
11020782 AGGAAGGCAATATCTGCTATCTTCAGCCTGCTCCACTACAACCG
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * * * * ** **
11020826 AGTGAGGCAAG-GCTGGTATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * * *
11020869 AGGGCGGCAAGATCCGCTATCTGTAACCTGCTCCACTGCAACCG
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * ** * * **
11020913 AGGGAGGCAAGA-CTGGTACCTTCGATCTGCTTCGCTGTC-AGTG
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTG-CAACCG
* *
11020956 CAGGAAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCT
1 -AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * ** * ** **
11021001 AGGGAGGCAAG-GCTGGTATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* *
11021044 AGGGAGGCAAGATCCGCTATCTTTAA-CTTGCTCCACTTCAACCG
1 AGGGAGGCAAGATCTGCTATCTTTAATC-TGCTCCACTGCAACCG
* * * * ** * *
11021088 AGGGAGGCAAG-GCTAG-TATCTTTGATCTTCTTCGTTGTAAGCG
1 AGGGAGGCAAGATCT-GCTATCTTTAATCTGCTCCACTGCAACCG
* * *
11021131 TAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCG
1 -AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
11021176 AGGGAGGCAAG
1 AGGGAGGCAAG
11021187 GCTTTGTTTT
Statistics
Matches: 320, Mismatches: 111, Indels: 36
0.69 0.24 0.08
Matches are distributed among these distances:
43 122 0.38
44 142 0.44
45 56 0.17
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (44 bp):
AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
Found at i:11020997 original size:88 final size:87
Alignment explanation
Indices: 11020701--11021189 Score: 527
Period size: 88 Copynumber: 5.6 Consensus size: 87
11020691 CTTAGGGAGA
* * * * * * * *
11020701 CAAGATCTGCTATCTTCAATCTGCTTCACTTCAACCGATGGAGGCAAGGCTTGTGTCTTCGATCC
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
*
11020766 GCTTCGCTGTCAGAGCAGGAAGG
66 GCTTCGCTGT-AGTGCAGGAAGG
* * * * *
11020789 CAATATCTGCTATCTTCAGCCTGCTCCACTACAACCGAGTGAGGCAAGGCTGGTATCTTTGATCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
** * **
11020854 GC-TC-CACTACTGCTTAGGGCGG
66 GCTTCGCTGTAGTGC--AGGAAGG
* * * * *
11020876 CAAGATCCGCTATCTGTAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTGGTACCTTCGATCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
11020941 GCTTCGCTGTCAGTGCAGGAAGG
66 GCTTCGCTGT-AGTGCAGGAAGG
* * *
11020964 CAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCTAGGGAGGCAAGGCTGGTATCTTCGATCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
** * *
11021029 GC-TC-CACTACTGCTTAGGGAGG
66 GCTTCGCTGTAGTGC--AGGAAGG
* * * * *
11021051 CAAGATCCGCTATCTTTAACTTGCTCCACTTCAACCGAGGGAGGCAAGGCTAGTATCTTTGATCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
* * * *
11021116 TCTTCGTTGTAAGCGTAGGAAGG
66 GCTTCGCTGT-AGTGCAGGAAGG
11021139 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCT
11021190 TTGTTTTCGA
Statistics
Matches: 331, Mismatches: 60, Indels: 20
0.81 0.15 0.05
Matches are distributed among these distances:
85 7 0.02
86 4 0.01
87 131 0.40
88 180 0.54
89 3 0.01
90 6 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (87 bp):
CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
GCTTCGCTGTAGTGCAGGAAGG
Found at i:11022470 original size:21 final size:21
Alignment explanation
Indices: 11022449--11022501 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
11022439 ACCTCTCCAT
11022449 TTTTCCTTTTTC-CTTTTTCA
1 TTTTCCTTTTTCACTTTTTCA
* *
11022469 TTTTCCATTTTCATTTTTTCA
1 TTTTCCTTTTTCACTTTTTCA
*
11022490 CTTTTCGTTTTT
1 -TTTTCCTTTTT
11022502 TTTCTTTGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.41
21 7 0.26
22 9 0.33
ACGTcount: A:0.08, C:0.21, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTCCTTTTTCACTTTTTCA
Found at i:11022472 original size:13 final size:13
Alignment explanation
Indices: 11022456--11022485 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11022446 CATTTTTCCT
*
11022456 TTTTCCTTTTTCA
1 TTTTCCATTTTCA
11022469 TTTTCCATTTTCA
1 TTTTCCATTTTCA
11022482 TTTT
1 TTTT
11022486 TTCACTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCCATTTTCA
Found at i:11023462 original size:35 final size:35
Alignment explanation
Indices: 11023411--11023478 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
11023401 TTATTGATTT
11023411 TTCTTTTTTCGCTTTTGACTTTGATTTTTCTTTTTC
1 TTCTTTTTTCGCTTTTGACTTTGATTTTT-TTTTTC
* **
11023447 TTCTTTTTT-GTTTTTGTTTTTGATTTTTTTTT
1 TTCTTTTTTCGCTTTTGACTTTGATTTTTTTTT
11023479 ATTGAATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 4 0.14
35 16 0.55
36 9 0.31
ACGTcount: A:0.04, C:0.10, G:0.09, T:0.76
Consensus pattern (35 bp):
TTCTTTTTTCGCTTTTGACTTTGATTTTTTTTTTC
Found at i:11028532 original size:16 final size:15
Alignment explanation
Indices: 11028504--11028539 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
11028494 AACAATATGA
11028504 AATAATAGGAATAAT
1 AATAATAGGAATAAT
*
11028519 AATAATAGCTAATAAT
1 AATAATAG-GAATAAT
11028535 AATAA
1 AATAA
11028540 AAATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (15 bp):
AATAATAGGAATAAT
Found at i:11028544 original size:28 final size:26
Alignment explanation
Indices: 11028504--11028558 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
11028494 AACAATATGA
**
11028504 AATAATAGGAATAATAATAATAGCTAAT
1 AATAATAAAAATAATAATAA-A-CTAAT
*
11028532 AATAATAAAAATATTAATAAACTAAT
1 AATAATAAAAATAATAATAAACTAAT
11028558 A
1 A
11028559 CTAAACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (26 bp):
AATAATAAAAATAATAATAAACTAAT
Found at i:11029040 original size:11 final size:11
Alignment explanation
Indices: 11029011--11029049 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11029001 TTTCAAAACG
*
11029011 AAAACGAAA-A
1 AAAACAAAATA
*
11029021 AAAATAAAATA
1 AAAACAAAATA
11029032 AAAACAAAATA
1 AAAACAAAATA
11029043 AAAACAA
1 AAAACAA
11029050 GAACCCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (11 bp):
AAAACAAAATA
Found at i:11042613 original size:33 final size:32
Alignment explanation
Indices: 11042514--11042619 Score: 142
Period size: 32 Copynumber: 3.3 Consensus size: 32
11042504 TAAAGGAATA
* **
11042514 TTGTTATCATTTAACAAAATGCTAGTTGATAT
1 TTGTTATCATTTTACAAAATGAAAGTTGATAT
*
11042546 TTGTTATCATTTTACAAAATTAAAGTTGCA-AT
1 TTGTTATCATTTTACAAAATGAAAGTTG-ATAT
*
11042578 TTGTTATCTTTTTACAAAATGAAAAGTTGATAT
1 TTGTTATCATTTTACAAAATG-AAAGTTGATAT
11042611 TTGTTATCA
1 TTGTTATCA
11042620 GTTAATAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
32 46 0.72
33 18 0.28
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.45
Consensus pattern (32 bp):
TTGTTATCATTTTACAAAATGAAAGTTGATAT
Found at i:11043566 original size:18 final size:17
Alignment explanation
Indices: 11043545--11043578 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11043535 TGAATATAAA
11043545 AAACAAAAGGAATATTAC
1 AAACAAAA-GAATATTAC
*
11043563 AAACCAAAGAATATTA
1 AAACAAAAGAATATTA
11043579 GTGGCGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.18
Consensus pattern (17 bp):
AAACAAAAGAATATTAC
Found at i:11043576 original size:17 final size:17
Alignment explanation
Indices: 11043530--11043578 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
11043520 GCAATTTCAT
* *
11043530 ACCAATGAATATAAAAA
1 ACCAAAGAATATTAAAA
* *
11043547 ACAAAAGGAATATTACAA
1 ACCAAA-GAATATTAAAA
11043565 ACCAAAGAATATTA
1 ACCAAAGAATATTA
11043579 GTGGCGATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.18
Consensus pattern (17 bp):
ACCAAAGAATATTAAAA
Found at i:11051389 original size:8 final size:8
Alignment explanation
Indices: 11051373--11051422 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
11051363 TTTATCAATT
11051373 TAAAA-CC
1 TAAAACCC
11051380 TAAAACCC
1 TAAAACCC
*
11051388 T-AAACCT
1 TAAAACCC
11051395 TAAAACCC
1 TAAAACCC
**
11051403 TAAAAAAC
1 TAAAACCC
11051411 TAGAAACCC
1 TA-AAACCC
11051420 TAA
1 TAA
11051423 TATAACAGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
7 11 0.32
8 17 0.50
9 6 0.18
ACGTcount: A:0.54, C:0.28, G:0.02, T:0.16
Consensus pattern (8 bp):
TAAAACCC
Found at i:11051398 original size:15 final size:14
Alignment explanation
Indices: 11051375--11051406 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
11051365 TATCAATTTA
11051375 AAACCTAAAACCCT
1 AAACCTAAAACCCT
11051389 AAACCTTAAAACCCT
1 AAACC-TAAAACCCT
11051404 AAA
1 AAA
11051407 AAACTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCTAAAACCCT
Found at i:11052988 original size:3 final size:3
Alignment explanation
Indices: 11052980--11053036 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
11052970 TATCACTATT
* *
11052980 ATA ATA ATA A-A AT- ATA ATA ATA ACA ATA ACA ATA ATA ATA A-A AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11053024 ATA A-A ATA A-A ATA
1 ATA ATA ATA ATA ATA
11053037 TTATAATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
2 12 0.27
3 32 0.73
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:11059866 original size:9 final size:10
Alignment explanation
Indices: 11059846--11059875 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
11059836 AATTATTTTG
11059846 TATTTGGTTT
1 TATTTGGTTT
11059856 TATTT-GTTT
1 TATTTGGTTT
11059865 TATTTGGTTT
1 TATTTGGTTT
11059875 T
1 T
11059876 GGCATTGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.73
Consensus pattern (10 bp):
TATTTGGTTT
Found at i:11060330 original size:44 final size:44
Alignment explanation
Indices: 11060272--11060474 Score: 187
Period size: 45 Copynumber: 4.6 Consensus size: 44
11060262 TTTTTAATCC
* * *
11060272 GCTCCACTACAACTTTAGGGAGATGGGATTAGTAGTTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGTTTCAGTCT
* * * *
11060316 GCTTCACTGCAACTTCAGGGAGATAAGACTCGCTA-TCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGT-TTCAGTCT
* * *
11060361 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT-AATCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAG-TTTCAGTCT
* * * *
11060405 GCTCCAGTGCAACTTCAGGGAGATAAGATTCGCCA-TCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGT-TTCAGTCT
* * *
11060450 GCCCCACTGTAACTTCAGGGGGATA
1 GCTCCACTGCAACTTCAGGGAGATA
11060475 AAACTTGTTT
Statistics
Matches: 127, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
43 1 0.01
44 61 0.48
45 64 0.50
46 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGTTTCAGTCT
Found at i:11060423 original size:89 final size:89
Alignment explanation
Indices: 11060272--11060474 Score: 273
Period size: 89 Copynumber: 2.3 Consensus size: 89
11060262 TTTTTAATCC
* * * * *
11060272 GCTCCACTACAACTTTAGGGAGATGGGATTAGTAGTTTCAGTCTGCTTCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGTTTCAATCTGCTCCACTGCAACTTCAGGGA
*
11060337 GATAAGACTCGCTATCTTCAGTCT
66 GATAAGACTCGCCATCTTCAGTCT
* * *
11060361 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT-AATCTGCTCCAGTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAG-TTTCAATCTGCTCCACTGCAACTTCAGGG
*
11060425 AGATAAGATTCGCCATCTTCAGTCT
65 AGATAAGACTCGCCATCTTCAGTCT
* * *
11060450 GCCCCACTGTAACTTCAGGGGGATA
1 GCTCCACTGCAACTTCAGGGAGATA
11060475 AAACTTGTTT
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 97 0.97
90 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (89 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGTTTCAATCTGCTCCACTGCAACTTCAGGGA
GATAAGACTCGCCATCTTCAGTCT
Found at i:11060526 original size:45 final size:45
Alignment explanation
Indices: 11060308--11060563 Score: 227
Period size: 45 Copynumber: 5.8 Consensus size: 45
11060298 GATTAGTAGT
* *
11060308 TTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTCGCTATC
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* ** **
11060353 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTATTGGC
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* * * *
11060397 TTTAATCTGCTCCAGTGCAACTTCAGGGAGATAAGA-TTCGCCATC
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATC
* * * * * *
11060442 TTCAGTCTGCCCCACTGTAACTTCAGGGGGATAAAACTTGTTTTC
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* * * *
11060487 TTCAGTCTGCTCCCCTTCATCTTTAGGGAGATAAGACTTG--AT-
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* * * **
11060529 ATGA-TCTGCTCTACTGCAACTTCAAAGAGATAAGA
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
11060564 TTGGTAATTT
Statistics
Matches: 165, Mismatches: 44, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
41 24 0.15
42 2 0.01
43 1 0.01
44 37 0.22
45 99 0.60
46 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
Found at i:11060724 original size:50 final size:50
Alignment explanation
Indices: 11060649--11061214 Score: 393
Period size: 50 Copynumber: 11.3 Consensus size: 50
11060639 TGCAATGTCG
* * * *
11060649 GGGAAGTAAGATTTGCTATTGTAGCTTCAATCTGTTCCACTACGCTGCCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * ** * *
11060699 GGGAAGTAAAATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
11060749 GGGAGGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTACCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * * ** * * *
11060799 GGGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
11060849 GGGAAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * * * ** * * *
11060899 GGGAAGTAAGATTCACCGTTGTGGCTTCAATATTTTTAATTGCAATGTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * ** * * ** * * * *
11060949 AGGAAGCAAGATTTGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * * *
11060999 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCAGTGCACCGCTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * ** * * *
11061049 GGGAAGTAAGATTCG-TCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-
1 GGGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * ** * * *
11061098 GGGAAGCAAGATTCGCCGTCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-
1 GGGAAGTAAGATTCG-C-T--GTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
11061151 GGGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA-TCGCCA
1 GGG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACT-GCCA
*
11061202 GAGAAGTAAGATT
1 GGGAAGTAAGATT
11061215 TGCCATTTTG
Statistics
Matches: 412, Mismatches: 96, Indels: 16
0.79 0.18 0.03
Matches are distributed among these distances:
49 16 0.04
50 345 0.84
51 2 0.00
52 1 0.00
53 37 0.09
54 11 0.03
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
Found at i:11060773 original size:100 final size:100
Alignment explanation
Indices: 11060634--11061246 Score: 615
Period size: 100 Copynumber: 6.1 Consensus size: 100
11060624 TTTAGTCTAA
* * * * * *
11060634 TTAACTGCAATGTCGGGGAAGTAAGATTTGCTATTGTAGCTTCAATCTGTTCCACTACGCTGCCA
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
11060699 GGGAAGTAAAATTCGCTGTTGTAGCTTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* *
11060734 TTAACTGCAATGTCAGGGAGGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTACCA
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
*
11060799 GGGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* * *
11060834 TTAACTGCAATGTCGGGGAAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* *
11060899 GGGAAGTAAGATTCACCGTTGTGGCTTCAATATTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * ** * * ** * * * *
11060934 TTAATTGCAATGTCAAGGAAGCAAGATTTGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * *
11060999 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTAT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
** * ** * * * ** * * *
11061034 TCCAGTGCACCG-CTAGGGAAGTAAGATTCG-TCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
1 TTAACTGCAATGTC-AGGGAAGCAAGATTCGCT-GTTGTAGCTTCAATCTGTTCCACTGCACTGC
*
11061097 C-GGGAAGCAAGATTCGCCGTCCGTTGTGGCTTCAATCTTT
64 CAGGGAAGTAAGATT---CG-CCGTTGTGGCTTCAATCTTT
* * *
11061137 TTAATTGCAATGTC-GGGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA-TCGC
1 TTAACTGCAATGTCAGGG-AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACT-GC
* * * *
11061200 CAGAGAAGTAAGATTTGCCATTTTGGCTTCAATCTTT
64 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
*
11061237 TTAATTGCAA
1 TTAACTGCAA
11061247 CCTCAGGGGT
Statistics
Matches: 430, Mismatches: 72, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
99 14 0.03
100 339 0.79
101 1 0.00
102 6 0.01
103 58 0.13
104 12 0.03
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (100 bp):
TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
Done.