Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 81 of 425
Found at i:23169031 original size:46 final size:46
Alignment explanation
Indices: 23168856--23169031 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
23168846 TGTAACCCAC
* *
23168856 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
23168902 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-A-TTCACAT
* * *
23168952 CTC-T---CGAACTTGGACTCAACTCAACGAGTTCGGACATTCACAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
* *
23168995 CCATAAGTGAACTCGGACTCAACTCAAGGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
23169032 TGCCCAACTA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 2 0.02
46 62 0.56
47 25 0.23
49 2 0.02
50 6 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:23171686 original size:23 final size:23
Alignment explanation
Indices: 23171627--23171791 Score: 251
Period size: 23 Copynumber: 7.1 Consensus size: 23
23171617 CCTAGCCTCT
* * *
23171627 TTTAGTAACTGGGGCAAAAGGCCT
1 TTTAATAACTGGGGCATAA-GCCC
**
23171651 TTTTGTAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
23171674 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
23171697 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
23171721 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
23171744 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
23171766 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
23171789 TTT
1 TTT
23171792 TGCACTTCCT
Statistics
Matches: 132, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
22 22 0.17
23 71 0.54
24 39 0.30
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:23171707 original size:47 final size:47
Alignment explanation
Indices: 23171627--23171793 Score: 268
Period size: 47 Copynumber: 3.6 Consensus size: 47
23171617 CCTAGCCTCT
* * *
23171627 TTTAGTAACTGGGGCAAAAGGCCTTTTTG-TAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAA-GCCCTTTTGATAACTGGGGCATAAGCCC
23171674 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
23171721 TTTAATAACTGGGGCATAAGCCC-TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
23171766 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
23171794 CACTTCCTCC
Statistics
Matches: 113, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
45 35 0.31
46 20 0.18
47 58 0.51
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:23171866 original size:20 final size:20
Alignment explanation
Indices: 23171838--23171908 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
23171828 GCATTTATGA
*
23171838 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
23171858 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
23171878 ACATGTCATGTGCATGTCAT
1 ACATATCATGTGCATATCAT
23171898 ACATATCATGT
1 ACATATCATGT
23171909 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:23178811 original size:17 final size:17
Alignment explanation
Indices: 23178789--23178821 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23178779 ACAGATACAA
23178789 TATGCCCAAGAAAACTT
1 TATGCCCAAGAAAACTT
23178806 TATGCCCAAGAAAACT
1 TATGCCCAAGAAAACT
23178822 AACTTTCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.21
Consensus pattern (17 bp):
TATGCCCAAGAAAACTT
Found at i:23180751 original size:49 final size:49
Alignment explanation
Indices: 23180691--23181029 Score: 408
Period size: 49 Copynumber: 6.8 Consensus size: 49
23180681 AGGCTATCTA
* *
23180691 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCG
* * * ** *
23180740 GTACACGTAGTAGTCTACACTTAGTACTACACACGTGACCTAACCATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCG
* * * *
23180790 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCG
* * * *
23180841 GTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATTATCCG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCG
* * *
23180890 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCG
* * * * *
23180941 GTACGCATAGTAGCGTGCAATTAGTACTACACATGCGACCAATTATCCG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCG
*
23180990 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
23181030 TCACAATAGA
Statistics
Matches: 241, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
49 114 0.47
50 52 0.22
51 75 0.31
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCG
Found at i:23180922 original size:100 final size:99
Alignment explanation
Indices: 23180691--23181027 Score: 480
Period size: 100 Copynumber: 3.4 Consensus size: 99
23180681 AGGCTATCTA
* * * * * * *
23180691 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACGTAGTAGT
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAG-
* * * ** *
23180754 CTACACTTAGTACTACACACGTGACCTAACCATCTG
65 CTGCACTTAGTACTACACATGCGACC-AATTATCCG
* *
23180790 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGC
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGC
23180855 ATGCACTTAGTACTACACATGCGACCAATTATCCG
66 -TGCACTTAGTACTACACATGCGACCAATTATCCG
23180890 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGC
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGC
*
23180955 GTGCAATTAGTACTACACATGCGACCAATTATCCG
66 -TGCACTTAGTACTACACATGCGACCAATTATCCG
23180990 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
23181028 CCTCACAATA
Statistics
Matches: 217, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
99 34 0.16
100 144 0.66
101 39 0.18
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (99 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGC
TGCACTTAGTACTACACATGCGACCAATTATCCG
Found at i:23180923 original size:150 final size:149
Alignment explanation
Indices: 23180691--23181022 Score: 468
Period size: 150 Copynumber: 2.2 Consensus size: 149
23180681 AGGCTATCTA
*
23180691 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGTCT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
* * * *
23180756 ACACTTAGTACTACACACGTGACCTAA-CCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
66 ACACTTAGTACTACACACGTGACCGAAGCCATCAGATACACATAGTAGCCTGCAATTAGTACTAC
* * *
23180820 ACACGTGATCGAAGTTATCGG
131 ACACGCGA-CCAA-TTATCCG
* *
23180841 GTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
* * ** * * *
23180906 GCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCGTGCAATTAGTACTAC
66 ACACTTAGTACTACACACGTGACCGAAGCCATCAGATACACATAGTAGCCTGCAATTAGTACTAC
*
23180971 ACATGCGACCAATTATCCG
131 ACACGCGACCAATTATCCG
*
23180990 GTACACGTAGTAGCCTGCACTTAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
23181023 CGTGACCTCA
Statistics
Matches: 160, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
149 36 0.22
150 89 0.56
151 35 0.22
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (149 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
ACACTTAGTACTACACACGTGACCGAAGCCATCAGATACACATAGTAGCCTGCAATTAGTACTAC
ACACGCGACCAATTATCCG
Found at i:23189074 original size:93 final size:93
Alignment explanation
Indices: 23188962--23189133 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23188952 CGCCCATAAG
* *
23188962 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23189027 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
23189055 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23189120 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
23189134 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:23189130 original size:46 final size:46
Alignment explanation
Indices: 23188955--23189130 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23188945 TGTAACCCGC
* * *
23188955 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
23189001 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
23189051 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
23189094 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
23189131 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23195545 original size:93 final size:93
Alignment explanation
Indices: 23195433--23195604 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23195423 CGCCCATAAG
* *
23195433 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23195498 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
23195526 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23195591 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
23195605 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:23195601 original size:46 final size:46
Alignment explanation
Indices: 23195426--23195601 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23195416 TGTAACCCGC
* * *
23195426 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
23195472 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
23195522 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
23195565 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
23195602 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23200081 original size:30 final size:30
Alignment explanation
Indices: 23200045--23200204 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
23200035 GACAAGATTG
* * * * *
23200045 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
23200075 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
23200103 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
23200132 GCACTAAGTGTGCAAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
23200162 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
23200191 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23200205 GATTCACTAT
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 48 0.41
30 44 0.37
31 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:23210258 original size:29 final size:28
Alignment explanation
Indices: 23210152--23210269 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 28
23210142 ACTTACATGC
* *
23210152 ATATGGCCCACTT-GGCCC-AATCTCATTT
1 ATATGGCCCA-TTAGGCCCAAATCAC-CTT
* * **
23210180 ATATGGCCCATCAGGCCCAATTCATATT
1 ATATGGCCCATTAGGCCCAAATCACCTT
23210208 CATATGGCCCATTAGGCCCAAATCACCTTT
1 -ATATGGCCCATTAGGCCCAAATCACC-TT
*
23210238 ATATGGCCCGTTAGGCCCAAATCACCTT
1 ATATGGCCCATTAGGCCCAAATCACCTT
23210266 ATAT
1 ATAT
23210270 TCATGCTCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
27 1 0.01
28 23 0.30
29 50 0.66
30 2 0.03
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACCTT
Found at i:23216452 original size:16 final size:16
Alignment explanation
Indices: 23216431--23216469 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
23216421 CCAAACTTTT
*
23216431 GGCTTTTCGGTATTTC
1 GGCTTTTCGGCATTTC
23216447 GGCTTTTCGGCATTTC
1 GGCTTTTCGGCATTTC
*
23216463 AGCTTTT
1 GGCTTTT
23216470 ACCAATCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.21, G:0.23, T:0.49
Consensus pattern (16 bp):
GGCTTTTCGGCATTTC
Found at i:23234006 original size:28 final size:28
Alignment explanation
Indices: 23233942--23234029 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
23233932 TGGTATTGTT
23233942 CTAAGTGAAATAA-TACCATGGCA---T-
1 CTAAGTGAAATAAGT-CCATGGCATGGTG
*
23233966 CTAAGTGAAATAAGTCTATGGCAAT-GTG
1 CTAAGTGAAATAAGTCCATGGC-ATGGTG
23233994 CTAAGTGAAATAAGTCCATGGCATGGTG
1 CTAAGTGAAATAAGTCCATGGCATGGTG
23234022 CTAAGTGA
1 CTAAGTGA
23234030 GAAATTTCCC
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
24 19 0.34
25 2 0.04
27 3 0.05
28 32 0.57
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (28 bp):
CTAAGTGAAATAAGTCCATGGCATGGTG
Found at i:23234187 original size:51 final size:51
Alignment explanation
Indices: 23234053--23234187 Score: 225
Period size: 51 Copynumber: 2.6 Consensus size: 51
23234043 TGAACCGTAG
* * *
23234053 GAATAAAATAACTTTGGACACAAGTGTGGTACAATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACCTTGT
* *
23234104 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGATGGCCACCTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACCTTGT
23234155 GAATAAAATAGCTTTGGACACAAGTGTGGTACT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACT
23234188 TCTTTGGCTA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACCTTGT
Found at i:23234200 original size:23 final size:23
Alignment explanation
Indices: 23234166--23234210 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23234156 AATAAAATAG
*
23234166 CTTTGGACACAAGTGTGGTACTT
1 CTTTGGACACAAGGGTGGTACTT
23234189 CTTTGG-CTACAAGGGTGGTACT
1 CTTTGGAC-ACAAGGGTGGTACT
23234211 ATGTGACGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (23 bp):
CTTTGGACACAAGGGTGGTACTT
Found at i:23237911 original size:39 final size:39
Alignment explanation
Indices: 23237830--23237992 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
23237820 TATGGTAACC
* *
23237830 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
23237870 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
23237909 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
23237948 CGCACAATTGCCTTCGGGCTTAGCTCAGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
23237987 CGCACA
1 CGCACA
23237993 TTCATACACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:23239609 original size:29 final size:29
Alignment explanation
Indices: 23239508--23239601 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
23239498 GTGACGAGAT
23239508 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23239537 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23239566 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
23239595 CGGCACT
1 TGGCACT
23239602 GGGTGTGCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:23239626 original size:58 final size:58
Alignment explanation
Indices: 23239504--23239638 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 58
23239494 TACGGTGACG
* *
23239504 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
* **
23239561 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
23239619 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
23239639 GGGCTTAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 3 0.04
58 63 0.94
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
Found at i:23244191 original size:40 final size:40
Alignment explanation
Indices: 23244146--23244311 Score: 192
Period size: 40 Copynumber: 4.2 Consensus size: 40
23244136 GAATACAACT
*
23244146 GGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATAACCACACGCACGAATGCCTTCGGGTATTAGCCC
* * *
23244186 GGATATAACGACTCGCACAAATGCCTTCGGGTATTAGCCC
1 GGATATAACCACACGCACGAATGCCTTCGGGTATTAGCCC
* **
23244226 GGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCC
1 GGATATAACCACACGCACGAATGCCTTCGGGTATTAGCCC
* * * * *
23244266 GGATAAAATCACTA-GCAC-AATTGCCTTCGGGTCTTAACCT
1 GGATATAACCAC-ACGCACGAA-TGCCTTCGGGTATTAGCCC
23244306 GGATAT
1 GGATAT
23244312 CATTCAATTG
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 107 0.98
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
GGATATAACCACACGCACGAATGCCTTCGGGTATTAGCCC
Found at i:23244284 original size:80 final size:80
Alignment explanation
Indices: 23244146--23244311 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 80
23244136 GAATACAACT
* * * *
23244146 GGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATGCC
1 GGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATAAAACGACTAGCACAAATGCC
*
23244211 TTCGGGTATTAGCCC
66 TTCGGGTATTAACCC
** *
23244226 GGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATAAAATC-ACTAGCACAATTGC
1 GGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATAAAA-CGACTAGCACAAATGC
* *
23244290 CTTCGGGTCTTAACCT
65 CTTCGGGTATTAACCC
23244306 GGATAT
1 GGATAT
23244312 CATTCAATTG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
80 74 0.99
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
GGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATAAAACGACTAGCACAAATGCC
TTCGGGTATTAACCC
Found at i:23249715 original size:28 final size:28
Alignment explanation
Indices: 23249672--23249802 Score: 192
Period size: 28 Copynumber: 4.7 Consensus size: 28
23249662 TATCTAGGAT
*
23249672 ATGGCATTGTGCTAAGTGAAATAAGACC
1 ATGGCAATGTGCTAAGTGAAATAAGACC
*
23249700 ATGGCAATGTGTTAAGTGAAATAAGACC
1 ATGGCAATGTGCTAAGTGAAATAAGACC
* *
23249728 ATGGCAATGTGTTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACC
*
23249756 ATGGCAATGTGCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACC
*
23249784 ATGAC-ATGGTGCTAAGTGA
1 ATGGCAAT-GTGCTAAGTGA
23249803 GAAATTTCCC
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 2 0.02
28 95 0.98
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (28 bp):
ATGGCAATGTGCTAAGTGAAATAAGACC
Found at i:23249881 original size:51 final size:51
Alignment explanation
Indices: 23249826--23250126 Score: 469
Period size: 51 Copynumber: 5.9 Consensus size: 51
23249816 TGAACCTTAG
*
23249826 GAATAAAATAACTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * * *
23249877 GAATATAATAGATTTGGACACAAGCGTGGTACTATGTGATGGTCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
23249928 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * *
23249979 GAATATAATAGCTTTGGACACAAGCGTGGTACTATGTGATGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
23250030 GAATAAAATAGTTTTGGAAACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
23250081 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
23250127 CGTATATCCG
Statistics
Matches: 225, Mismatches: 24, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
51 225 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:23255775 original size:31 final size:31
Alignment explanation
Indices: 23255740--23255800 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
23255730 TATATGATTG
23255740 TCAAATGTGACTACTAAGAAGTAAAATTGAA
1 TCAAATGTGACTACTAAGAAGTAAAATTGAA
23255771 TCAAATGTGACTACTAAGAAGTAAAATTGA
1 TCAAATGTGACTACTAAGAAGTAAAATTGA
23255801 GTAAGTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (31 bp):
TCAAATGTGACTACTAAGAAGTAAAATTGAA
Found at i:23256288 original size:39 final size:39
Alignment explanation
Indices: 23256232--23256362 Score: 147
Period size: 39 Copynumber: 3.3 Consensus size: 39
23256222 GTATGAGATT
* *
23256232 GAAAATATATTCGGACATGAAGTCCGCAGGTTATATGCTG
1 GAAAA-ATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
23256272 GAAAAATATCCGGACATG-AGATCCGCAAGCTATATGCTA
1 GAAAAATATCCGGACATGAAG-TCCGCAGGCTATATGCTG
* * * * **
23256311 GAAATATATCCGGACTTGAGGTCCGTAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAAGTCCGCAGGCTATATGCTG
23256350 GAAAAATATCCGG
1 GAAAAATATCCGG
23256363 GTTAAAAACC
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.03
39 68 0.89
40 6 0.08
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAAGTCCGCAGGCTATATGCTG
Found at i:23264054 original size:14 final size:14
Alignment explanation
Indices: 23264035--23264064 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23264025 AGTTATGAGA
23264035 CTCCAAATTAAGAT
1 CTCCAAATTAAGAT
23264049 CTCCAAATTAAGAT
1 CTCCAAATTAAGAT
23264063 CT
1 CT
23264065 TCTTACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (14 bp):
CTCCAAATTAAGAT
Found at i:23266959 original size:43 final size:43
Alignment explanation
Indices: 23266898--23267061 Score: 204
Period size: 43 Copynumber: 3.8 Consensus size: 43
23266888 CAATATCATA
* * * *
23266898 TCCCAGATATTGTCTTACATGTTATCACATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
* ** * *
23266941 TCCCAGAAATGGTCTTACACAAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
*
23266984 TCCCAGACATGGTCTTACACGTAATCACA-ATACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATAT-CGATGCCAATG
* *
23267027 TCCCAGACATGGTCTTACATGTAATCACATCTCGA
1 TCCCAGACATGGTCTTACACGTAATCACATATCGA
23267062 AAATCCTAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.01
43 100 0.98
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
Found at i:23269479 original size:49 final size:47
Alignment explanation
Indices: 23269365--23269492 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
23269355 AGTATGATGA
* * * *
23269365 CGATGCCATGTCCCAGACATAGTCTTACACTAGCTCATGTCTCAAGT
1 CGATACCATGTCCCAGACATGGTCTTACACTAACTCATGTCTCAAGG
* *
23269412 CGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATTGTCATCGAGG
1 CGATACCATGTCCCAGACATGGTCTTACACTAACTCA-TGTC-TCAAGG
* *
23269460 CTGATACCATGTCCTAGACATGGTCTAACACTA
1 C-GATACCATGTCCCAGACATGGTCTTACACTA
23269493 GCTCTCACAT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
46 1 0.01
47 37 0.52
48 5 0.07
49 28 0.39
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATACCATGTCCCAGACATGGTCTTACACTAACTCATGTCTCAAGG
Found at i:23269674 original size:138 final size:144
Alignment explanation
Indices: 23269367--23269680 Score: 367
Period size: 138 Copynumber: 2.2 Consensus size: 144
23269357 TATGATGACG
* * *
23269367 ATGCCATGTCCCAGACATAGTCTTACACTAGCTCATGTCTCAAGTCGATGCCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACA-GTCTCAAGTCGATGCCATGTCCCAGACAT
* ** *
23269432 GGTCTTACACTAACTATTGTCATCGAGGCTGATACCATGTCCTAGACATGGTCTAACACTAGCTC
65 GGTCTTACACTAACTACTGTCATCGAGGCCAATACCATGTCCTAGACATCGTCTAACACTAGCTC
**
23269497 TCACATATCCGTGCCA
130 T-ACATATCAATGCCA
*
23269513 ATGCCATGTCCCAGACATGGTCTTACACTAACACA-TCTCATAGTCGATG-CATGTCCCTGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACAGTCTCA-AGTCGATGCCATGTCCCAGACAT
* ** * *
23269576 -GTCTTATACTGGCTTACCT-T-A-CGAGGCCAAT-GCATGTCCTAGACA-CGTCTTACACTAGC
65 GGTCTTACACTAAC-TA-CTGTCATCGAGGCCAATACCATGTCCTAGACATCGTCTAACACTAGC
* *
23269635 TCT-CGTCTCAATGCCA
128 TCTACATATCAATGCCA
23269651 ATGCCATGTCCCAGACATGGTCTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
23269681 GCTCACAATA
Statistics
Matches: 148, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
138 39 0.26
140 15 0.10
141 13 0.09
142 8 0.05
143 11 0.07
144 21 0.14
145 9 0.06
146 32 0.22
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACACAGTCTCAAGTCGATGCCATGTCCCAGACATG
GTCTTACACTAACTACTGTCATCGAGGCCAATACCATGTCCTAGACATCGTCTAACACTAGCTCT
ACATATCAATGCCA
Found at i:23272512 original size:17 final size:16
Alignment explanation
Indices: 23272490--23272525 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
23272480 TTCTTTCAAG
23272490 TAATTCATATCATATCA
1 TAATTCATATCA-ATCA
*
23272507 TAATTCATATGAATCA
1 TAATTCATATCAATCA
23272523 TAA
1 TAA
23272526 CTTATCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (16 bp):
TAATTCATATCAATCA
Found at i:23273935 original size:204 final size:203
Alignment explanation
Indices: 23273581--23273987 Score: 509
Period size: 204 Copynumber: 2.0 Consensus size: 203
23273571 TTAACAATCA
** *
23273581 TGTAACACCCCTTACCCATATTCAATGCCAGAATAGGGTACGAGGCATTACCCGAACTTACAACA
1 TGTAACACCCCTTACCCATATTCAACACCAGAATAGGGTACGAGGCATTACCAGAACTTACAACA
*
23273646 CAAACAATCATACAATTTCGAGCCATAAATTTGCGTCCAAATTAAAATCATTTTCATCCAACCAT
66 CAAACAAACATACAATTTCGAGCCATAAATTTGCGTCCAAATTAAAAT-ATTTTCATCCAACCAT
* * *
23273711 AAAGTCCCTAATACGAGCCTACGAGGCCCTAAACATGCTTT-GAGAGTGG-TCTGGGACTAAACT
130 AAAGTCCATAATACGAGCCTACGAGGCCCAAAACATGCTTTGGA-AGTGGTTC-AGGACTAAAC-
*
23273774 GAGGACTTTAGT
192 GAGAACTTTAGT
* ** *
23273786 TGTAACACCCCTTACCCGTATTCAACACTGGAATAGGGTACGAGGCATTACTAG-ACTTATC-AC
1 TGTAACACCCCTTACCCATATTCAACACCAGAATAGGGTACGAGGCATTACCAGAACTTA-CAAC
* ** * ** ** *
23273849 ACAAACAAACATACAATTTCGGGTTATACATTTGTTTCCAAATTAAAA-ATTTTTGCATTTAATC
65 ACAAACAAACATACAATTTCGAGCCATAAATTTGCGTCCAAATTAAAATA-TTTT-CATCCAACC
* *
23273913 ATAAAGTCCATAATATGAGCCTATGAGGCCCAAAACATGCTTTGGAAGTGGTTCAGGACTAAACG
128 ATAAAGTCCATAATACGAGCCTACGAGGCCCAAAACATGCTTTGGAAGTGGTTCAGGACTAAACG
23273978 AGAACTTTAG
193 AGAACTTTAG
23273988 AAAATTTTAC
Statistics
Matches: 174, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
202 1 0.01
203 14 0.08
204 107 0.61
205 52 0.30
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (203 bp):
TGTAACACCCCTTACCCATATTCAACACCAGAATAGGGTACGAGGCATTACCAGAACTTACAACA
CAAACAAACATACAATTTCGAGCCATAAATTTGCGTCCAAATTAAAATATTTTCATCCAACCATA
AAGTCCATAATACGAGCCTACGAGGCCCAAAACATGCTTTGGAAGTGGTTCAGGACTAAACGAGA
ACTTTAGT
Found at i:23275947 original size:46 final size:46
Alignment explanation
Indices: 23275800--23276019 Score: 189
Period size: 47 Copynumber: 4.7 Consensus size: 46
23275790 ACACTGTGAG
* * * *
23275800 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-ATTGATACGAG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTA-TGAGA-TAT
* * * *
23275848 AGCTAGTGTAAGACATGTATGGGACAT-GCATCGGCCTCAAGACATA-
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGG-CT-ATGAGATAT
* *
23275894 AGCCAGTGTAAGACATGTTTGGGACAT-GCATTGGCTATGAGATGAT
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCTATGAGAT-AT
* * * **
23275940 AGTCAGTGTAAGGCCATGTCTGGAACATGGCATCAACT-TGAGATAT
1 AGCCAGTGTAA-GACATGTCTGGGACATGGCATCGGCTATGAGATAT
23275986 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 -AGCCAGTGTAAGA-CATGTCTGGGACATGGCAT
23276020 TGGCACCTTA
Statistics
Matches: 142, Mismatches: 21, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
44 5 0.04
45 3 0.02
46 50 0.35
47 62 0.44
48 21 0.15
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCTATGAGATAT
Found at i:23288036 original size:43 final size:43
Alignment explanation
Indices: 23287853--23288043 Score: 161
Period size: 43 Copynumber: 4.4 Consensus size: 43
23287843 TATCCCAGAT
* * * * * *
23287853 ATGGTCTTACATGTTATC-ACATATTGATGCCACTTTCCCATAC
1 ATGGTCTTACATGTAATCAAAATA-TAACGCCAATGTCCCATAC
* * * * * * * * *
23287896 AGGGTCTTACACGAAATC-AATTAATGATGCCAACGTCTCAGAC
1 ATGGTCTTACATGTAATCAAAAT-ATAACGCCAATGTCCCATAC
* ** * * *
23287939 ATGGTTTTACACATAATCAAAATACAACACCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCAAAATATAACGCCAATGTCCCATAC
23287982 ATGGTCTTACATGTAATCAAAATATAACGCCAATGTCCCATAC
1 ATGGTCTTACATGTAATCAAAATATAACGCCAATGTCCCATAC
23288025 ATGGTCTTACATGTAATCA
1 ATGGTCTTACATGTAATCA
23288044 CATCTCGGTA
Statistics
Matches: 117, Mismatches: 29, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
43 113 0.97
44 4 0.03
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCAAAATATAACGCCAATGTCCCATAC
Found at i:23292735 original size:40 final size:40
Alignment explanation
Indices: 23292684--23292834 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
23292674 TATAACATGT
*
23292684 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
23292724 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
23292764 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
23292803 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
23292835 TCATTCAATT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 83 0.91
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:23292818 original size:80 final size:80
Alignment explanation
Indices: 23292684--23292833 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
23292674 TATAACATGT
* *
23292684 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
23292749 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
23292764 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
23292827 CCCGGAT
64 CCCGGAT
23292834 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:23300729 original size:40 final size:40
Alignment explanation
Indices: 23300678--23300828 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
23300668 TATAACATGT
*
23300678 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
23300718 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
23300758 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
23300797 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
23300829 TCATTCAATT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 83 0.91
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:23300812 original size:80 final size:80
Alignment explanation
Indices: 23300678--23300827 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
23300668 TATAACATGT
* *
23300678 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
23300743 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
23300758 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
23300821 CCCGGAT
64 CCCGGAT
23300828 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:23305047 original size:30 final size:31
Alignment explanation
Indices: 23304991--23305060 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
23304981 CCACCCTTAA
* * * *
23304991 AATATTTGCACTATTAGTCCTTCAAATTTTT
1 AATATTTACACTATTAATCCCTCAAATTTTG
*
23305022 CATATTTACACT-TTAATCCCTCAAATTTTG
1 AATATTTACACTATTAATCCCTCAAATTTTG
23305052 AATATTTAC
1 AATATTTAC
23305061 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 23 0.70
31 10 0.30
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (31 bp):
AATATTTACACTATTAATCCCTCAAATTTTG
Found at i:23307015 original size:23 final size:24
Alignment explanation
Indices: 23306978--23307028 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
23306968 ACGGATACAC
23306978 GAAT-TCCAATCC-AAACACACCA
1 GAATATCCAATCCAAAACACACCA
23307000 GTAATATCCAA-CCAAAACACACCA
1 G-AATATCCAATCCAAAACACACCA
23307024 GAATA
1 GAATA
23307029 ATCATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 1 0.04
23 9 0.35
24 16 0.62
ACGTcount: A:0.49, C:0.31, G:0.06, T:0.14
Consensus pattern (24 bp):
GAATATCCAATCCAAAACACACCA
Found at i:23307069 original size:28 final size:29
Alignment explanation
Indices: 23307014--23307070 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
23307004 TATCCAACCA
*
23307014 AAACACACCAGAATAATCATGTAATCCTCTC
1 AAACACACCAG-A-AATCACGTAATCCTCTC
*
23307045 AAACACACCAG-AATCACGTAGTCCTC
1 AAACACACCAGAAATCACGTAATCCTC
23307071 CTATCCGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.54
31 11 0.46
ACGTcount: A:0.40, C:0.32, G:0.09, T:0.19
Consensus pattern (29 bp):
AAACACACCAGAAATCACGTAATCCTCTC
Found at i:23307560 original size:46 final size:46
Alignment explanation
Indices: 23307498--23307722 Score: 326
Period size: 46 Copynumber: 4.9 Consensus size: 46
23307488 TTATCTTCGA
* * * * *
23307498 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** *
23307544 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
23307590 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
23307636 CATGTTACCATGGTATCTTTCAACCATGGTCTTACACATTTCACAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
23307682 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
23307723 GAATCGCGAC
Statistics
Matches: 165, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 161 0.98
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:23312838 original size:39 final size:38
Alignment explanation
Indices: 23312811--23312969 Score: 174
Period size: 39 Copynumber: 4.1 Consensus size: 38
23312801 TGTCCAGCAC
* *
23312811 ATAGCCTGCGGACCTAAAGTCTGGATATAATTCTCGCAT
1 ATAGCCTGCGGACATAAAGTCCGGATATAATTC-CGCAT
*
23312850 ATAGCCTGCGGACATAAAGTCCGGATATAATTCTGGCAT
1 ATAGCCTGCGGACATAAAGTCCGGATATAATTC-CGCAT
* * * *
23312889 ATAGCCTGCGGACTTGAAGTCCGGATATAATTCTTGCTT
1 ATAGCCTGCGGACATAAAGTCCGGATATAATTC-CGCAT
* * * * *
23312928 TTAGCCTACGGACCTGAAGTCCGGATATAATTCTTGCAT
1 ATAGCCTGCGGACATAAAGTCCGGATATAATTC-CGCAT
23312967 ATA
1 ATA
23312970 TATATTCACA
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (38 bp):
ATAGCCTGCGGACATAAAGTCCGGATATAATTCCGCAT
Found at i:23312893 original size:78 final size:78
Alignment explanation
Indices: 23312811--23312969 Score: 228
Period size: 78 Copynumber: 2.0 Consensus size: 78
23312801 TGTCCAGCAC
* *
23312811 ATAGCCTGCGGACCTAAAGTCTGGATATAATTCTCGCATATAGCCTGCGGACATAAAGTCCGGAT
1 ATAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTACGGACATAAAGTCCGGAT
23312876 ATAATTCTGGCAT
66 ATAATTCTGGCAT
* * * * * * *
23312889 ATAGCCTGCGGACTTGAAGTCCGGATATAATTCTTGCTTTTAGCCTACGGACCTGAAGTCCGGAT
1 ATAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTACGGACATAAAGTCCGGAT
*
23312954 ATAATTCTTGCAT
66 ATAATTCTGGCAT
23312967 ATA
1 ATA
23312970 TATATTCACA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (78 bp):
ATAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAGCCTACGGACATAAAGTCCGGAT
ATAATTCTGGCAT
Found at i:23314866 original size:28 final size:28
Alignment explanation
Indices: 23314820--23314888 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
23314810 TTTAAAACCC
*
23314820 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
23314847 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
23314875 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
23314889 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:23316535 original size:20 final size:20
Alignment explanation
Indices: 23316512--23316549 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23316502 CACATCCAAA
*
23316512 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
23316532 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
23316550 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:23323421 original size:80 final size:80
Alignment explanation
Indices: 23323337--23323485 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
23323327 TATGGTAACC
* * * *
23323337 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
23323401 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
23323417 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
23323482 CCGG
66 CCGG
23323486 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:23323427 original size:40 final size:38
Alignment explanation
Indices: 23323378--23323485 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
23323368 ATCACGATTT
*
23323378 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
23323418 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
23323458 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
23323486 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:23325354 original size:28 final size:28
Alignment explanation
Indices: 23325306--23325373 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
23325296 ATTTAAAACC
* *
23325306 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
23325333 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
23325361 TAGGGGTAATTTC
1 TAGGGGTAATTTC
23325374 GTGATCTACG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCAGTAATTTTGCTCTT
Found at i:23327024 original size:20 final size:20
Alignment explanation
Indices: 23327001--23327038 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23326991 CACATCCAAA
*
23327001 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
23327021 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
23327039 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:23330717 original size:40 final size:39
Alignment explanation
Indices: 23330672--23330879 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
23330662 TCGGAAACAA
*
23330672 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
23330712 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
23330752 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23330792 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
23330832 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
23330872 CCGGATAT
1 CCGGATAT
23330880 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:23330812 original size:80 final size:81
Alignment explanation
Indices: 23330672--23330877 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
23330662 TCGGAAACAA
* * *
23330672 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
23330736 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
23330752 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
23330815 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
23330832 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
23330878 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:23337747 original size:39 final size:39
Alignment explanation
Indices: 23337722--23337879 Score: 246
Period size: 39 Copynumber: 4.1 Consensus size: 39
23337712 TGTCCAGCAC
*
23337722 ATAGCCTGCGGACCTAAAGTCCAGATATAATTCTCGCAT
1 ATAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCAT
*
23337761 ATAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCAT
1 ATAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCAT
* *
23337800 ATAGCCTGCGGA-CTGAAGTCCGGATATAATTCTCGCTT
1 ATAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCAT
* * *
23337838 ATAGCCTACGGACCTGAAGTCCGGATATAATTCTCGAAT
1 ATAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCAT
23337877 ATA
1 ATA
23337880 TATATTCACA
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
38 34 0.31
39 76 0.69
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (39 bp):
ATAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCAT
Found at i:23337834 original size:77 final size:78
Alignment explanation
Indices: 23337722--23337879 Score: 246
Period size: 77 Copynumber: 2.0 Consensus size: 78
23337712 TGTCCAGCAC
*
23337722 ATAGCCTGCGGACCTAAAGTCCAGATATAATTCTCGCATATAGCCTGCGGACATAAAGTCCGGAT
1 ATAGCCTGCGGACCTAAAGTCCAGATATAATTCTCGCATATAGCCTACGGACATAAAGTCCGGAT
*
23337787 ATAATTCTCGCAT
66 ATAATTCTCGAAT
* * * * *
23337800 ATAGCCTGCGGA-CTGAAGTCCGGATATAATTCTCGCTTATAGCCTACGGACCTGAAGTCCGGAT
1 ATAGCCTGCGGACCTAAAGTCCAGATATAATTCTCGCATATAGCCTACGGACATAAAGTCCGGAT
23337864 ATAATTCTCGAAT
66 ATAATTCTCGAAT
23337877 ATA
1 ATA
23337880 TATATTCACA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
77 61 0.84
78 12 0.16
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (78 bp):
ATAGCCTGCGGACCTAAAGTCCAGATATAATTCTCGCATATAGCCTACGGACATAAAGTCCGGAT
ATAATTCTCGAAT
Found at i:23339716 original size:47 final size:48
Alignment explanation
Indices: 23339642--23339962 Score: 224
Period size: 47 Copynumber: 6.9 Consensus size: 48
23339632 GTTACATTAT
* *
23339642 GAGAGCCATTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGAC
* * * *
23339690 GAGGGCTAGTGTAAGA-CATGTTTGGGACAT-GTATCAGCCACATT---AT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG---CATTGAGAC
* * * * *
23339736 GATAGCCATTGTAAGACCATGTTTGGGACATGGCATCAACATTGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGAC
* * * *
23339784 GAGGGCTAGTGTAAGA-CAT-TCTGGGACAT-GCATCGGCCTCGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGAC
* * * * *
23339829 GTA-AGCCAGTGTTAA-A-CATGTCTGGGACAT-GCCTCGGC-TACGAGAT
1 G-AGAGCTAGTG-TAAGACCATGTCTGGGACATGGCATCAGCAT-TGAGAC
* * * * *
23339875 GATAGTTAGTGTAAGACCATGTTTGGGACATGGCATTA--ATATGATA-
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-TGAGAC
*
23339921 TATGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
23339963 CCTTACCCAT
Statistics
Matches: 214, Mismatches: 39, Indels: 39
0.73 0.13 0.13
Matches are distributed among these distances:
45 32 0.15
46 63 0.29
47 80 0.37
48 34 0.16
49 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGAC
Found at i:23339796 original size:94 final size:93
Alignment explanation
Indices: 23339635--23339813 Score: 313
Period size: 94 Copynumber: 1.9 Consensus size: 93
23339625 TAGGGCTGTT
*
23339635 ACATTATGAGAGCCATTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGGGCTAGT
1 ACATTATGAGAGCCATTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGGGCTAGT
*
23339700 GTAAGACATGTTTGGGACATGTATCAGCC
66 GTAAGACAT-TCTGGGACATGTATCAGCC
* *
23339729 ACATTATGATAGCCATTGTAAGACCATGTTTGGGACATGGCATCAACATTGAGACGAGGGCTAGT
1 ACATTATGAGAGCCATTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGGGCTAGT
23339794 GTAAGACATTCTGGGACATG
66 GTAAGACATTCTGGGACATG
23339814 CATCGGCCTC
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 10 0.12
94 71 0.88
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (93 bp):
ACATTATGAGAGCCATTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGGGCTAGT
GTAAGACATTCTGGGACATGTATCAGCC
Found at i:23339886 original size:46 final size:46
Alignment explanation
Indices: 23339651--23339906 Score: 141
Period size: 46 Copynumber: 5.5 Consensus size: 46
23339641 TGAGAGCCAT
* * * *
23339651 TGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACG-AGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-AGCTAG
* * * * * * * *
23339699 TGTAAGACATGTTTGGGACATGTATCAGCCAC-ATTATG-ATAGCCAT
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCTAG
* ** * * *
23339745 TGTAAGACCATGTTTGGGACATGGCATCAACATTGAGACG-AGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-AGCTAG
*
23339793 TGTAAGACAT-TCTGGGACATGCATCGGCCTCGAGACGTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCTAG
* * *
23339838 TGTTAA-ACATGTCTGGGACATGCCTCGG-CTACGAGATG-ATAGTTAG
1 TG-TAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTA-AGCTAG
*
23339884 TGTAAGACCATGTTTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
23339907 GCATTAATAT
Statistics
Matches: 163, Mismatches: 34, Indels: 23
0.74 0.15 0.10
Matches are distributed among these distances:
45 30 0.18
46 62 0.38
47 44 0.27
48 26 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCTAG
Found at i:23341186 original size:31 final size:31
Alignment explanation
Indices: 23341109--23341186 Score: 122
Period size: 30 Copynumber: 2.5 Consensus size: 31
23341099 TTTAACGATT
*
23341109 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
23341140 ACT-GGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
23341170 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
23341187 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 27 0.64
31 15 0.36
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:23341257 original size:42 final size:42
Alignment explanation
Indices: 23341210--23341301 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
23341200 TGGCCCATAG
* ** *
23341210 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
23341252 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
23341294 GCCCATTT
1 GCCCATTT
23341302 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:23341491 original size:26 final size:26
Alignment explanation
Indices: 23341446--23341543 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
23341436 CCTCTTTAAT
23341446 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
23341471 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
23341497 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
23341523 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
23341544 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.15
26 57 0.85
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:23342434 original size:27 final size:27
Alignment explanation
Indices: 23342343--23342426 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
23342333 GGGCATATTC
* *
23342343 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
23342370 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
23342397 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
23342424 GTC
1 GTC
23342427 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:23342442 original size:27 final size:27
Alignment explanation
Indices: 23342343--23342443 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
23342333 GGGCATATTC
* * *
23342343 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTATAGGGGCT-TTACG
23342370 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
*
23342397 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
**
23342424 GTCTTTTTA-CCTAATAGGGG
1 GTCACTTTACCCT-ATAGGGG
23342444 TATTTTAGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.05
27 61 0.94
28 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCCTATAGGGGCTTTACG
Found at i:23342518 original size:27 final size:27
Alignment explanation
Indices: 23342465--23342699 Score: 201
Period size: 27 Copynumber: 8.8 Consensus size: 27
23342455 TTTCATCCTA
* * *
23342465 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** **
23342492 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
23342519 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-C
* ** *
23342548 CAAGGGTATTTT--TAACTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
23342573 C-AGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
23342599 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
23342626 C-AGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
23342652 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
23342679 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
23342700 GTAAATCGAG
Statistics
Matches: 169, Mismatches: 32, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
24 10 0.06
25 2 0.01
26 39 0.23
27 100 0.59
28 8 0.05
29 10 0.06
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:23342607 original size:80 final size:80
Alignment explanation
Indices: 23342464--23342699 Score: 196
Period size: 80 Copynumber: 2.9 Consensus size: 80
23342454 ATTTCATCCT
* * * * * ** ** *
23342464 ACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATT
1 ACAAGGGTATTTT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
* *
23342529 TCTATAATTTTTAGAA
65 TCTATAATTTTCACAA
* ***
23342545 AGTCAAGGGTATTTT-TAACTTTGTA-AATC-A-GGGTATTTTGGTAATTTTACAAATTGAGGGT
1 A--CAAGGGTATTTTGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGT
**
23342606 ATTTCGGTAA-TTTCACAA
62 ATTTCTATAATTTTCACAA
*
23342624 ACCAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
1 ACAAGGGTATTTT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
23342689 T-TAGTAATTTT
65 TCTA-TAATTTT
23342700 GTAAATCGAG
Statistics
Matches: 121, Mismatches: 23, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
77 13 0.11
78 6 0.05
79 11 0.09
80 66 0.55
81 8 0.07
82 4 0.03
83 13 0.11
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (80 bp):
ACAAGGGTATTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
CTATAATTTTCACAA
Found at i:23342630 original size:53 final size:53
Alignment explanation
Indices: 23342573--23342713 Score: 194
Period size: 53 Copynumber: 2.6 Consensus size: 53
23342563 CTTTGTAAAT
23342573 CAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
* * *
23342626 CAGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAAC
* ** *
23342679 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 C-AGGGTATTTTGGTAATTTTACAAATTGAGGGTA
23342714 AAATAGTAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
52 1 0.01
53 49 0.64
54 26 0.34
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (53 bp):
CAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
Found at i:23342711 original size:27 final size:27
Alignment explanation
Indices: 23342465--23342737 Score: 153
Period size: 27 Copynumber: 10.2 Consensus size: 27
23342455 TTTCATCCTA
* * * * * *
23342465 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
23342492 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
23342519 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
23342548 CAAGGGTATTTT--TAACTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
23342573 C-AGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** ** * *
23342599 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
23342625 CCAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
23342651 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTAGTAATTTTATAAAT
*
23342679 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *** * *
23342706 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
23342733 CAAGG
1 CAAGG
23342738 TAAAATTATA
Statistics
Matches: 199, Mismatches: 39, Indels: 16
0.78 0.15 0.06
Matches are distributed among these distances:
24 10 0.05
25 2 0.01
26 39 0.20
27 128 0.64
28 10 0.05
29 10 0.05
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:23342749 original size:26 final size:27
Alignment explanation
Indices: 23342693--23342869 Score: 197
Period size: 26 Copynumber: 6.8 Consensus size: 27
23342683 GGTATTTTAG
* *
23342693 TAATTTTGTAAATCGAGGGTAAAA-TA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* **
23342719 GTAATTCTGTAAATC-AAGGTAAAATTA
1 -TAATTCTGTAAATCGAGGGTAAAACGA
* *
23342746 TAATTCTATAAA--GAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
23342771 TAATTCTGTAAATCGAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGA
23342798 TAATTCTGT-AATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
23342824 TAATTATGTAAATCG-GGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
23342850 TAATTCTATAAATCG-GGGTA
1 TAATTCTGTAAATCGAGGGTA
23342870 CTTTGGTAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
25 19 0.15
26 71 0.55
27 40 0.31
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:23342775 original size:78 final size:78
Alignment explanation
Indices: 23342692--23342869 Score: 227
Period size: 78 Copynumber: 2.3 Consensus size: 78
23342682 GGGTATTTTA
* * * ** *
23342692 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATC-AAGGTAAAATTATAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGT-AATCGAAGGTAAAACGATAATTATATA
23342756 AA-GAGGGTAAAACG
65 AACG-GGGTAAAACG
* *
23342770 GTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTAATCGAGGGTAAAACGATAATTATGTAA
1 GTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTAATCGAAGGTAAAACGATAATTATATAA
23342835 ATCGGGGTAAAACG
66 A-CGGGGTAAAACG
*
23342849 GTAATTCTATAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
23342870 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
77 4 0.05
78 58 0.66
79 25 0.28
80 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (78 bp):
GTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTAATCGAAGGTAAAACGATAATTATATAA
ACGGGGTAAAACG
Found at i:23342905 original size:27 final size:24
Alignment explanation
Indices: 23342875--23342938 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 24
23342865 GGGTACTTTG
*
23342875 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCG-AGGT-TTT-A
23342902 GTAATTTTACAAATCGAGGTTTTA
1 GTAATTTTACAAATCGAGGTTTTA
*
23342926 GTATTTTTACAAA
1 GTAATTTTACAAA
23342939 CTAAGGGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 13 0.37
25 3 0.09
26 4 0.11
27 15 0.43
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (24 bp):
GTAATTTTACAAATCGAGGTTTTA
Found at i:23342933 original size:24 final size:27
Alignment explanation
Indices: 23342875--23342960 Score: 92
Period size: 26 Copynumber: 3.3 Consensus size: 27
23342865 GGGTACTTTG
*
23342875 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
23342902 GTAATTTTACAAATCG-AGGT-TTT-A
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
23342926 GTATTTTTACAAA-CTAAGGGTATTT-G
1 GTAATTTTACAAATCGAA-GGTATTTCA
23342952 GTAATTTTA
1 GTAATTTTA
23342961 GTAAACTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.02
24 14 0.27
25 6 0.12
26 15 0.29
27 15 0.29
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:23345227 original size:31 final size:31
Alignment explanation
Indices: 23345192--23345266 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
23345182 ATGATTACTA
*
23345192 GGCCAAAGCCTTTTCATAAATTATATCACTG
1 GGCCAAAGCCTTTTCATAAATCATATCACTG
*
23345223 GGCCAAAGCCTTTTCATAAATCATTTCACTG
1 GGCCAAAGCCTTTTCATAAATCATATCACTG
*
23345254 GGCCGAAGCCTTT
1 GGCCAAAGCCTTT
23345267 ACTGTAAACG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (31 bp):
GGCCAAAGCCTTTTCATAAATCATATCACTG
Found at i:23345337 original size:42 final size:43
Alignment explanation
Indices: 23345290--23345383 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 43
23345280 TGGCCCATAG
* * * * *
23345290 GCCCATTTCAATATCACATGTAATGT-TAATGGATGTATGCAA
1 GCCCATTTCAAAATCACATGAAATATACAATGAATGTATGCAA
23345332 GCCCATTTCAAAATCACATGAAATATACCAATGAATGTATGCAA
1 GCCCATTTCAAAATCACATGAAATATA-CAATGAATGTATGCAA
23345376 GCCCATTT
1 GCCCATTT
23345384 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
42 23 0.51
44 22 0.49
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (43 bp):
GCCCATTTCAAAATCACATGAAATATACAATGAATGTATGCAA
Found at i:23345571 original size:26 final size:26
Alignment explanation
Indices: 23345528--23345625 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
23345518 CCTCTTTAAT
*
23345528 AACTGGGGTA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
23345553 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
23345579 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
23345605 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
23345626 GTACTTCCTC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 9 0.14
26 57 0.86
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:23345601 original size:52 final size:51
Alignment explanation
Indices: 23345528--23345625 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
23345518 CCTCTTTAAT
* *
23345528 AACTGGGGTAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATA
23345579 AACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTT
23345626 GTACTTCCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 9 0.20
52 35 0.80
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATA
Found at i:23346431 original size:27 final size:27
Alignment explanation
Indices: 23346401--23346478 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
23346391 GGGCATATTC
*
23346401 GTCATTTTACCACACAGGGGTATTACT
1 GTCATTTTACCACACAGGGGTATTACG
*
23346428 GTCACTTTACC-CTACAGGGGCT-TTACG
1 GTCATTTTACCAC-ACAGGGG-TATTACG
* *
23346455 GTCTTTTTACCTA-ATAGGGGTATT
1 GTCATTTTACC-ACACAGGGGTATT
23346479 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
26 2 0.05
27 38 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCACACAGGGGTATTACG
Found at i:23346539 original size:27 final size:27
Alignment explanation
Indices: 23346496--23346733 Score: 199
Period size: 27 Copynumber: 8.8 Consensus size: 27
23346486 TTTCATCCTA
* * * *
23346496 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* **
23346523 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * *
23346550 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-C
* * ** *
23346579 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * *
23346606 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
** *
23346633 TGAGGGTATTTCGGTAATTTAACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
*
23346660 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * *
23346687 TATGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
*
23346714 CAAGGGTATTT-TGTAATTTT
1 CAAGGGTATTTCGGTAATTTT
23346734 GTAAATCGAG
Statistics
Matches: 170, Mismatches: 39, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
26 8 0.05
27 134 0.79
28 13 0.08
29 15 0.09
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:23346667 original size:54 final size:54
Alignment explanation
Indices: 23346609--23346747 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
23346599 TGTAAATCAG
23346609 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTAACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTAACAAACCAA
* * *
23346663 GGGTATTTTGGTAATTTTACAAACT-ATGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTAACAAACCAA
** *
23346717 GGGTATTTT-GTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
23346748 AAAAAGTAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 17 0.22
54 59 0.78
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTAACAAACCAA
Found at i:23346720 original size:81 final size:81
Alignment explanation
Indices: 23346496--23346732 Score: 221
Period size: 81 Copynumber: 2.9 Consensus size: 81
23346486 TTTCATCCTA
* * * ** ** *
23346496 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* * * *
23346561 CTATAATTTTTAGAAAGT
65 CTGTAA-TTTAACAAAGC
* * ***
23346579 CAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTT-TGGTAA-TTT-TACAAACAAGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
*
23346642 TTCGGTAATTTAACAAA-C
63 TTCTGTAATTTAACAAAGC
*
23346660 CAAGGGTATTTTGGTAATTTTACAAACTATGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
23346725 -TGTAATTT
65 CTGTAATTT
23346733 TGTAAATCGA
Statistics
Matches: 124, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
79 2 0.02
80 14 0.11
81 48 0.39
82 7 0.06
83 47 0.38
84 4 0.03
85 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAACAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTC
TGTAATTTAACAAAGC
Found at i:23346757 original size:53 final size:54
Alignment explanation
Indices: 23346609--23346774 Score: 131
Period size: 54 Copynumber: 3.1 Consensus size: 54
23346599 TGTAAATCAG
* ***** *
23346609 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTAACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CGATGGGTAAAAAAGTAATTTTACAAACCAA
* *****
23346663 GGGTATTTTGGTAATTTTACAAACTATGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACGATGGGTAAAAAAGTAATTTTACAAACCAA
** ** *
23346717 GGGTATTTT-GTAATTTTGTAAATCGA-GGGTAAAAAAGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTACAAA-CGATGGGTAAAAAAGTAATTTTACAAACCAA
23346770 GGGTA
1 GGGTA
23346775 AAACAGTAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
53 36 0.38
54 59 0.62
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACGATGGGTAAAAAAGTAATTTTACAAACCAA
Found at i:23346759 original size:27 final size:27
Alignment explanation
Indices: 23346726--23346909 Score: 192
Period size: 27 Copynumber: 6.8 Consensus size: 27
23346716 AGGGTATTTT
*
23346726 GTAATTTTGTAAATCGAGGGTAAAAAA
1 GTAATTCTGTAAATCGAGGGTAAAAAA
* * *
23346753 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAAAA
* **
23346780 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAAAA
*
23346807 GTAATTCTGTAAATTGAGGGTAAAACAA
1 GTAATTCTGTAAATCGAGGGTAAAA-AA
* *
23346835 -TAATTCTGTAAGTCGAGGGT-AAAAC
1 GTAATTCTGTAAATCGAGGGTAAAAAA
* * **
23346860 GATAATTATGTAAATCGGGGGTAAAATG
1 G-TAATTCTGTAAATCGAGGGTAAAAAA
* *
23346888 GTAATTCTATAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
23346910 CTTTGGTAAT
Statistics
Matches: 133, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.01
26 3 0.02
27 125 0.94
28 4 0.03
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAAAA
Found at i:23346839 original size:81 final size:81
Alignment explanation
Indices: 23346726--23346909 Score: 237
Period size: 81 Copynumber: 2.3 Consensus size: 81
23346716 AGGGTATTTT
* * *
23346726 GTAATTTTGTAAATCGAGGGTAAAAAAGTAATTTTGTAAATCAAGGGTAAAAC-AGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAAAAGTAATTCTGTAAATCAAGGGTAAAACGA-TAATTATAT
23346790 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* * * *
23346807 GTAATTCTGTAAATTGAGGGTAAAACAA-TAATTCTGTAAGTCGAGGGTAAAACGATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAA-AAGTAATTCTGTAAATCAAGGGTAAAACGATAATTATAT
* *
23346871 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAACG
* *
23346888 GTAATTCTATAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
23346910 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
81 86 0.97
82 3 0.03
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAAAAGTAATTCTGTAAATCAAGGGTAAAACGATAATTATATA
AATCGAGGGTAAAACG
Found at i:23346920 original size:54 final size:54
Alignment explanation
Indices: 23346726--23346909 Score: 224
Period size: 54 Copynumber: 3.4 Consensus size: 54
23346716 AGGGTATTTT
* * ** * *
23346726 GTAATTTTGTAAATCGAGGGTAAAAAAGTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACA
* *
23346780 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACA
* * * * * **
23346834 ATAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACA
*
23346888 GTAATTCTATAAATCGGGGGTA
1 GTAATTCTATAAATCGAGGGTA
23346910 CTTTGGTAAT
Statistics
Matches: 110, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 110 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACA
Found at i:23346936 original size:27 final size:27
Alignment explanation
Indices: 23346915--23347004 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
23346905 GGGTACTTTG
*
23346915 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
23346942 GTAATTTTACAAATCG-AGGAAATTTCA
1 GTAATTTTACAAATCGAAGG-TATTTCA
* * **
23346969 GTATTTTTACAAA-CTAAGGGTATTTTG
1 GTAATTTTACAAATCGAA-GGTATTTCA
23346996 GTAATTTTA
1 GTAATTTTA
23347005 GTAAACTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.08
27 46 0.88
28 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:23348742 original size:21 final size:21
Alignment explanation
Indices: 23348717--23348756 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23348707 TTGAATTGGC
*
23348717 CACACGGGCGTGTACCCCTTT
1 CACACGGGCATGTACCCCTTT
* *
23348738 CACACTGGCATGTGCCCCT
1 CACACGGGCATGTACCCCT
23348757 ATGTCAAGTG
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:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (21 bp):
CACACGGGCATGTACCCCTTT
Found at i:23354138 original size:33 final size:32
Alignment explanation
Indices: 23354091--23354152 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
23354081 CGCTGCAATC
* *
23354091 TGGTGGCTTCGCCACATATATATATATCTGTTT
1 TGGTGGCCTAGCCACA-ATATATATATCTGTTT
* *
23354124 TGGTGGCCTAGCCACAATATCTGTATCTG
1 TGGTGGCCTAGCCACAATATATATATCTG
23354153 GTGACTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TGGTGGCCTAGCCACAATATATATATCTGTTT
Found at i:23359616 original size:29 final size:28
Alignment explanation
Indices: 23359578--23359680 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
23359568 GTGACGAGAT
* *
23359578 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
23359607 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
23359636 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
23359665 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
23359681 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:23367733 original size:29 final size:28
Alignment explanation
Indices: 23367695--23367797 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
23367685 GTGACGAGAT
* *
23367695 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
23367724 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
23367753 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
23367782 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
23367798 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:23374533 original size:40 final size:40
Alignment explanation
Indices: 23374477--23374663 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
23374467 GGTTATTCGA
*
23374477 ACTATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTG
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
* * *
23374517 ACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG
1 ACTATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TG
* * *
23374558 -CTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCG
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
23374597 ACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
* * *
23374637 ACCATATCCGGGCTAAGACCTGAAGGC
1 ACTATATCCGGGCTAAGTCCCGAAGGC
23374664 CTTGTGCGAG
Statistics
Matches: 129, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 125 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
Found at i:23382211 original size:40 final size:40
Alignment explanation
Indices: 23382115--23382356 Score: 323
Period size: 40 Copynumber: 6.1 Consensus size: 40
23382105 CGGGCTTTAA
** *
23382115 CCGGATATAGCCACTCGCTCAAATGCCTT-GGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
23382154 CC-GATATAGTAGTTCGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
23382193 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
23382233 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23382273 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
23382313 CCTGA-ATTAGTCACTAGAACAAATGCCTTC-GGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
23382352 CCGGA
1 CCGGA
23382357 ATTATCATCG
Statistics
Matches: 186, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 20 0.11
39 28 0.15
40 138 0.74
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23387329 original size:42 final size:42
Alignment explanation
Indices: 23387246--23387330 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
23387236 CCATAGTATC
* * * **
23387246 ATAATTCATTTTATCACAGAGCTTACCACATTTTCCTCATTT
1 ATAATTCATTTCATCACAAAACTTACCACATTTTCAGCATTT
*
23387288 ATAATTCATTTCATCACAAAACTTACCTCA-TTTCAAGCATTT
1 ATAATTCATTTCATCACAAAACTTACCACATTTTC-AGCATTT
23387330 A
1 A
23387331 ATAAACATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 4 0.11
42 32 0.89
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.40
Consensus pattern (42 bp):
ATAATTCATTTCATCACAAAACTTACCACATTTTCAGCATTT
Found at i:23392458 original size:23 final size:23
Alignment explanation
Indices: 23392430--23392477 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
23392420 GAAAATTATC
23392430 CTTTTCAGCCATTTCAAGGCAAT
1 CTTTTCAGCCATTTCAAGGCAAT
23392453 CTTTTCAGCCATTTCAAGGCAAT
1 CTTTTCAGCCATTTCAAGGCAAT
23392476 CT
1 CT
23392478 CAAATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (23 bp):
CTTTTCAGCCATTTCAAGGCAAT
Found at i:23393831 original size:25 final size:25
Alignment explanation
Indices: 23393797--23393849 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
23393787 AAATTTGCGT
*
23393797 CCAAAATAAAATCTTTCGCATTCAA
1 CCAAAATAAAATCTTTCACATTCAA
*
23393822 CCAAAATAAAATCTTTTACATTCAA
1 CCAAAATAAAATCTTTCACATTCAA
23393847 CCA
1 CCA
23393850 TAAAGTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (25 bp):
CCAAAATAAAATCTTTCACATTCAA
Found at i:23395127 original size:42 final size:42
Alignment explanation
Indices: 23395044--23395128 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
23395034 CCATAGTATC
* * * **
23395044 ATAATTCATTTTATCACAGAGCTTACCACATTTTCCTCATTT
1 ATAATTCATTTCATCACAAAACTTACCACATTTTCAGCATTT
*
23395086 ATAATTCATTTCATCACAAAACTTACCTCA-TTTCAAGCATTT
1 ATAATTCATTTCATCACAAAACTTACCACATTTTC-AGCATTT
23395128 A
1 A
23395129 ATAAACATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 4 0.11
42 32 0.89
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.40
Consensus pattern (42 bp):
ATAATTCATTTCATCACAAAACTTACCACATTTTCAGCATTT
Found at i:23397777 original size:48 final size:48
Alignment explanation
Indices: 23397719--23398113 Score: 673
Period size: 48 Copynumber: 8.2 Consensus size: 48
23397709 ATATACACAC
* *
23397719 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23397767 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23397815 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23397863 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23397911 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23397959 ATCTCATATATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
23398007 ATCTCATAAATATTTCACACTTGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
23398055 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23398103 ATCTCATATAT
1 ATCTCATATAT
23398114 CAATTTCAGC
Statistics
Matches: 333, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 333 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:23402405 original size:49 final size:49
Alignment explanation
Indices: 23402352--23402461 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 49
23402342 TGTCCTAGAT
* *
23402352 AGGTCTTACACTGACTTTCATATATCGAG-GCTGATGCCATGTCCCAAAC
1 AGGTCTTACACTGACTCTCATATATCG-GTGCTGATGCCATGTACCAAAC
* * * * *
23402401 AGGTCTTACACTGGCTCTCATCTATCGGTGTTGATGCCATGTACTAGAC
1 AGGTCTTACACTGACTCTCATATATCGGTGCTGATGCCATGTACCAAAC
23402450 AGGTCTTACACT
1 AGGTCTTACACT
23402462 AACACGCAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 1 0.02
49 52 0.98
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (49 bp):
AGGTCTTACACTGACTCTCATATATCGGTGCTGATGCCATGTACCAAAC
Found at i:23404480 original size:39 final size:40
Alignment explanation
Indices: 23404426--23404579 Score: 222
Period size: 39 Copynumber: 3.9 Consensus size: 40
23404416 TGTGTATGAA
*
23404426 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
23404465 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* *
23404504 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * * *
23404544 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGG
23404580 TGTTTGAACA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 64 0.61
40 41 0.39
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (40 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:23404565 original size:79 final size:79
Alignment explanation
Indices: 23404426--23404579 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 79
23404416 TGTGTATGAA
* * *
23404426 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
23404491 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * *
23404504 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTA
*
23404569 TGTCCCGAAGG
65 AGTCCCGAAGG
23404580 TGTTTGAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
78 25 0.38
79 33 0.50
80 8 0.12
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:23412399 original size:39 final size:40
Alignment explanation
Indices: 23412345--23412498 Score: 222
Period size: 39 Copynumber: 3.9 Consensus size: 40
23412335 TGTGTATGAA
*
23412345 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
23412384 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* *
23412423 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * * *
23412463 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGG
23412499 TGTTTGAACA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 64 0.61
40 41 0.39
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (40 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:23412484 original size:79 final size:79
Alignment explanation
Indices: 23412345--23412498 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 79
23412335 TGTGTATGAA
* * *
23412345 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
23412410 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * *
23412423 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTA
*
23412488 TGTCCCGAAGG
65 AGTCCCGAAGG
23412499 TGTTTGAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
78 25 0.38
79 33 0.50
80 8 0.12
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:23421186 original size:70 final size:71
Alignment explanation
Indices: 23421103--23421265 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
23421093 CGATTTGTCT
23421103 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
23421167 CTTTCA
66 CTTTCA
*
23421173 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
23421238 CTTTCA
66 CTTTCA
23421244 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
23421266 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:23421303 original size:71 final size:70
Alignment explanation
Indices: 23421103--23421299 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
23421093 CGATTTGTCT
* * * *
23421103 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
23421167 CTTTCA
65 CTTTCA
* * * *
23421173 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
23421238 CTTTCA
65 CTTTCA
* *
23421244 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
23421300 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:23428629 original size:71 final size:71
Alignment explanation
Indices: 23428545--23428708 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
23428535 CGATTTGTCT
23428545 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
23428610 CTTTCA
66 CTTTCA
* *
23428616 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
23428681 CTTTCA
66 CTTTCA
23428687 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
23428709 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:23428746 original size:71 final size:70
Alignment explanation
Indices: 23428545--23428742 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
23428535 CGATTTGTCT
* * * * *
23428545 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
23428610 CTTTCA
65 CTTTCA
* * * *
23428616 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
23428681 CTTTCA
65 CTTTCA
* *
23428687 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
23428743 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:23430200 original size:6 final size:6
Alignment explanation
Indices: 23430191--23430357 Score: 92
Period size: 6 Copynumber: 27.0 Consensus size: 6
23430181 AATTAGGTAA
* * *
23430191 CAGAAT CAGAAT CAGTAT TAGGTAAT -AGAAT CAGAAT CAGAAC CAGAAT
1 CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT
* * *
23430240 CAGAAT TAGGTAA- CAGAAT CAGAAT CAGTAT CAGGTAA- CAAAAT CAGAAT
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
* * * * * * *
23430290 CAGAAC CAGAAT CAAAAT TAGGTAA- CATAAT TAGAAT CAGTAT TAGGTAA-
1 CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CA-G-AAT
23430340 CAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT
23430358 GTGAATGCAA
Statistics
Matches: 121, Mismatches: 25, Indels: 30
0.69 0.14 0.17
Matches are distributed among these distances:
5 11 0.09
6 92 0.76
7 10 0.08
8 8 0.07
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
CAGAAT
Found at i:23430200 original size:25 final size:25
Alignment explanation
Indices: 23430172--23430357 Score: 118
Period size: 25 Copynumber: 7.5 Consensus size: 25
23430162 AATCTGGTGA
*
23430172 CAGAATTAGAATTAGGTAACAGAAT
1 CAGAATCAGAATTAGGTAACAGAAT
* *
23430197 CAGAATCAGTATTAGGTAATAGAAT
1 CAGAATCAGAATTAGGTAACAGAAT
**
23430222 CAGAATCAGAACCA-G-AATCAGAAT
1 CAGAATCAGAATTAGGTAA-CAGAAT
* * *
23430246 TAGGTAA-CAGAATCA-G-AATCAGTAT
1 CA-G-AATCAGAATTAGGTAA-CAGAAT
* * *
23430271 CAGGTAA-CAAAATCA-G-AATCAGAAC
1 CA-G-AATCAGAATTAGGTAA-CAGAAT
* *
23430296 CAGAATCAAAATTAGGTAACATAAT
1 CAGAATCAGAATTAGGTAACAGAAT
* *
23430321 TAGAATCAGTATTAGGTAACAGAAT
1 CAGAATCAGAATTAGGTAACAGAAT
23430346 CAGAATCAGAAT
1 CAGAATCAGAAT
23430358 GTGAATGCAA
Statistics
Matches: 132, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
23 4 0.03
24 15 0.11
25 109 0.83
26 4 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (25 bp):
CAGAATCAGAATTAGGTAACAGAAT
Found at i:23430238 original size:37 final size:37
Alignment explanation
Indices: 23430191--23430267 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
23430181 AATTAGGTAA
* * *
23430191 CAGAATCAGAATCAGTATTAGGTAATAGAATCAGAAT
1 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
23430228 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
23430265 CAG
1 CAG
23430268 TATCAGGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (37 bp):
CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
Found at i:23430246 original size:62 final size:62
Alignment explanation
Indices: 23430172--23430356 Score: 307
Period size: 62 Copynumber: 3.0 Consensus size: 62
23430162 AATCTGGTGA
* *
23430172 CAGAATTAGAATTAGGTAACAGAATCAGAATCAGTATTAGGTAATAGAATCAGAATCAGAAC
1 CAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATTAGGTAACAGAATCAGAATCAGAAC
* *
23430234 CAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAAC
1 CAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATTAGGTAACAGAATCAGAATCAGAAC
* * *
23430296 CAGAATCAAAATTAGGTAACATAATTAGAATCAGTATTAGGTAACAGAATCAGAATCAGAA
1 CAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATTAGGTAACAGAATCAGAATCAGAA
23430357 TGTGAATGCA
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 114 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (62 bp):
CAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATTAGGTAACAGAATCAGAATCAGAAC
Found at i:23430294 original size:37 final size:37
Alignment explanation
Indices: 23430253--23430329 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
23430243 AATTAGGTAA
* **
23430253 CAGAATCAGAATCAGTATCAGGTAACAAAATCAGAAT
1 CAGAACCAGAATCAAAATCAGGTAACAAAATCAGAAT
* * *
23430290 CAGAACCAGAATCAAAATTAGGTAACATAATTAGAAT
1 CAGAACCAGAATCAAAATCAGGTAACAAAATCAGAAT
23430327 CAG
1 CAG
23430330 TATTAGGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (37 bp):
CAGAACCAGAATCAAAATCAGGTAACAAAATCAGAAT
Found at i:23430346 original size:19 final size:19
Alignment explanation
Indices: 23430197--23430351 Score: 93
Period size: 19 Copynumber: 7.6 Consensus size: 19
23430187 GTAACAGAAT
*
23430197 CAGAATCAGTATTAGGTAA
1 CAGAATCAGAATTAGGTAA
* *
23430216 TAGAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTAA
23430233 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATTAGGTAA
23430253 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAG-A--A-T-T-AGGTAA
* *
23430278 CAAAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTAA
*
23430295 CCAGAATCAAAATTAGGTAA
1 -CAGAATCAGAATTAGGTAA
*
23430315 CATAATTAGAATCAGTATTAGGTAA
1 C------AGAATCAGAATTAGGTAA
23430340 CAGAATCAGAAT
1 CAGAATCAGAAT
23430352 CAGAATGTGA
Statistics
Matches: 105, Mismatches: 13, Indels: 36
0.68 0.08 0.23
Matches are distributed among these distances:
17 4 0.04
18 25 0.24
19 34 0.32
20 5 0.05
21 1 0.01
22 2 0.02
23 1 0.01
24 2 0.02
25 31 0.30
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:23430524 original size:27 final size:26
Alignment explanation
Indices: 23430476--23430535 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
23430466 GCGAGACTGC
*
23430476 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
23430503 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
23430529 CAGATAT
1 CAGATAT
23430536 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23430622 original size:27 final size:26
Alignment explanation
Indices: 23430574--23430633 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
23430564 GCGAGGCTGC
*
23430574 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
23430601 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
23430627 CAAATAT
1 CAGATAT
23430634 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23430634 original size:98 final size:98
Alignment explanation
Indices: 23430461--23430675 Score: 403
Period size: 98 Copynumber: 2.2 Consensus size: 98
23430451 ACCACAGAAT
*
23430461 TTGCAGCGAGACTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
*
23430526 GAACAGATATATATATGTGGCGAAGCCACCAGA
66 GAACAAATATATATATGTGGCGAAGCCACCAGA
*
23430559 TTGTAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
23430624 GAACAAATATATATATGTGGCGAAGCCACCAGA
66 GAACAAATATATATATGTGGCGAAGCCACCAGA
23430657 TTGCAGCGAGGCTGCCAGA
1 TTGCAGCGAGGCTGCCAGA
23430676 ATGCTTCCTC
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 113 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (98 bp):
TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
GAACAAATATATATATGTGGCGAAGCCACCAGA
Found at i:23430951 original size:27 final size:27
Alignment explanation
Indices: 23430901--23431258 Score: 455
Period size: 27 Copynumber: 13.3 Consensus size: 27
23430891 GGGGTAAAAT
* * * * *
23430901 GGTAATTTTACCCCAAAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23430928 GGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23430955 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23430982 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23431009 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23431036 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23431063 GATATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23431090 GGTAATCCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
23431117 ACTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23431144 AGTAATTTTACCCTACAGGTGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23431171 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23431198 GATATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23431225 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
23431252 GGTAATT
1 GGTAATT
23431259 TTGTAAATCG
Statistics
Matches: 290, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 290 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:23431272 original size:27 final size:26
Alignment explanation
Indices: 23431239--23431664 Score: 350
Period size: 27 Copynumber: 15.8 Consensus size: 26
23431229 TTTCTACCCT
**
23431239 ACAAGGGTATTTTGGTAATTTTGTAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* ****
23431265 ATCGAGGGTAAAACGGTAATTCTGTA-AA
1 A-CAAGGGTATTTTGGTAATT-T-TACAA
* * *
23431293 TCAATGGTACTTTGGTAATTTTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* * *** *
23431319 GTCGAGGGTATTTCAATAATTTTACAGG
1 -ACAAGGGTATTTTGGTAATTTTACA-A
* * ** *
23431347 TCGAGGGTATTTCAGTAATTTCACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
*
23431373 ATCATGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
23431400 ACTAGGGGTATTTTGATAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
23431427 ACCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
23431454 ACTAGGGGCATTTTGGTAATTTTATAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
23431481 ACCAAGGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* **
23431508 ACCAGGGGTATTTTGGTAATTTTGTAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
23431535 ACCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
23431562 ACCAGGGGTATTTTGGTGATTTTATAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
23431589 ACCAATGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* **
23431616 ACCAGGGGTATTTTGGTAATTTTGTAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
23431643 ACCAAGGGTATTTTGGTAATTT
1 A-CAAGGGTATTTTGGTAATTT
23431665 GGTAAACTAA
Statistics
Matches: 328, Mismatches: 61, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
25 2 0.01
26 6 0.02
27 314 0.96
28 5 0.02
29 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:23431639 original size:108 final size:108
Alignment explanation
Indices: 23431378--23431664 Score: 493
Period size: 108 Copynumber: 2.7 Consensus size: 108
23431368 CACAAATCAT
* * * **
23431378 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
*
23431443 TAATTTTACAAACTAGGGGCATTTTGGTAATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGCATTTTGGTAATTTTATAAACCAA
23431486 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
* *
23431551 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGCATTTTGGTAATTTTATAAACCAA
*
23431594 TGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
23431659 TAATTT
66 TAATTT
23431665 GGTAAACTAA
Statistics
Matches: 170, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 170 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (108 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
TAATTTTACAAACCAGGGGCATTTTGGTAATTTTATAAACCAA
Found at i:23431671 original size:27 final size:27
Alignment explanation
Indices: 23431298--23431664 Score: 419
Period size: 27 Copynumber: 13.6 Consensus size: 27
23431288 GTAAATCAAT
* ** *
23431298 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAACCAAG
*** *** *
23431325 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAACCAAG
** * * *
23431352 GGTATTTCAGTAATTTCACAAATCATG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
23431379 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
*
23431406 GGTATTTTGATAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
23431433 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
23431460 GGCATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
23431487 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
**
23431514 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
*
23431541 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
* * *
23431568 GGTATTTTGGTGATTTTATAAACCAAT
1 GGTATTTTGGTAATTTTACAAACCAAG
* *
23431595 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAAG
**
23431622 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAAG
23431649 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
23431665 GGTAAACTAA
Statistics
Matches: 289, Mismatches: 51, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 289 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAAG
Found at i:23433817 original size:34 final size:34
Alignment explanation
Indices: 23433772--23433841 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
23433762 CAATGTCAAA
23433772 TATGCGGTAGGGCCTTAGCCCATCACTGTATCAG
1 TATGCGGTAGGGCCTTAGCCCATCACTGTATCAG
* *
23433806 TATGCGTTAGGGCCTTAGCCCATCACTGTATTAG
1 TATGCGGTAGGGCCTTAGCCCATCACTGTATCAG
23433840 TA
1 TA
23433842 ATAGTCATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.30
Consensus pattern (34 bp):
TATGCGGTAGGGCCTTAGCCCATCACTGTATCAG
Found at i:23434420 original size:20 final size:20
Alignment explanation
Indices: 23434397--23434436 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23434387 GTCACACATG
23434397 GCCTACCTGGCCATCACACA
1 GCCTACCTGGCCATCACACA
* *
23434417 GCCTGCTTGGCCATCACACA
1 GCCTACCTGGCCATCACACA
23434437 ACTGTGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.17, T:0.17
Consensus pattern (20 bp):
GCCTACCTGGCCATCACACA
Found at i:23435980 original size:9 final size:9
Alignment explanation
Indices: 23435966--23436006 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
23435956 TAAGTATAAA
*
23435966 AATTAACTG
1 AATTAACCG
*
23435975 AATTAACTG
1 AATTAACCG
23435984 AATTAACCG
1 AATTAACCG
23435993 AATTAACCG
1 AATTAACCG
23436002 AATTA
1 AATTA
23436007 CCAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Done.