Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 137 of 173
Found at i:41573473 original size:40 final size:40
Alignment explanation
Indices: 41573415--41573494 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
41573405 CAAGCCACCG
41573415 GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
1 GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
* *
41573455 GACCCAAGCTATAGGATGTTATAACAATAAATCGGAACAT
1 GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
41573495 TCACAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (40 bp):
GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
Found at i:41576048 original size:13 final size:13
Alignment explanation
Indices: 41576030--41576054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41576020 ATAGTAACTC
41576030 TAAAAATATTTAA
1 TAAAAATATTTAA
41576043 TAAAAATATTTA
1 TAAAAATATTTA
41576055 CTGGCTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATATTTAA
Found at i:41578118 original size:21 final size:19
Alignment explanation
Indices: 41578094--41578132 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
41578084 ATATATTGAA
41578094 TTTTGAATTATTTTATTATAT
1 TTTTGAA-TATTTT-TTATAT
*
41578115 TTTTTAATATTTTTTATA
1 TTTTGAATATTTTTTATA
41578133 ATTATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTGAATATTTTTTATAT
Found at i:41578860 original size:7 final size:7
Alignment explanation
Indices: 41578848--41578872 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41578838 CCAAACTAAA
41578848 AAATTTT
1 AAATTTT
41578855 AAATTTT
1 AAATTTT
41578862 AAATTTT
1 AAATTTT
41578869 AAAT
1 AAAT
41578873 AATTAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:41583849 original size:3 final size:3
Alignment explanation
Indices: 41583841--41583887 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
41583831 GAAATAATTC
41583841 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
41583888 AGAATGGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:41585146 original size:31 final size:32
Alignment explanation
Indices: 41585083--41585150 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
41585073 AAAAAAAATC
* * * **
41585083 AATTGGACTCTTTTTCAAAAAGTTGACGGTCA
1 AATTTGACTCTTTTTCAAAAAATTAAAAGTCA
41585115 AATTTGACTCTTTTT-AAAAAATTAAAAGTCA
1 AATTTGACTCTTTTTCAAAAAATTAAAAGTCA
41585146 AATTT
1 AATTT
41585151 AGCTTCAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 17 0.55
32 14 0.45
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
AATTTGACTCTTTTTCAAAAAATTAAAAGTCA
Found at i:41586653 original size:12 final size:11
Alignment explanation
Indices: 41586621--41586651 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
41586611 ATTAAGTAAA
41586621 TAAATAAATAT
1 TAAATAAATAT
41586632 TAAATGAAATAT
1 TAAAT-AAATAT
41586644 TAAATAAA
1 TAAATAAA
41586652 ATTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:41591868 original size:22 final size:22
Alignment explanation
Indices: 41591843--41591884 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
41591833 ATTAAAAATT
*
41591843 AAATTGAATAAAATTATATTTA
1 AAATTGAATAAAATAATATTTA
* *
41591865 AAATTTAATAACATAATATT
1 AAATTGAATAAAATAATATT
41591885 GTCTCATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTGAATAAAATAATATTTA
Found at i:41599819 original size:21 final size:21
Alignment explanation
Indices: 41599795--41599839 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
41599785 ATTTGCTCAG
41599795 GCTGATGCTTGGCTACTGTAA
1 GCTGATGCTTGGCTACTGTAA
41599816 GCTGATGCTTGGCTACTGTAA
1 GCTGATGCTTGGCTACTGTAA
41599837 GCT
1 GCT
41599840 TTCGTTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (21 bp):
GCTGATGCTTGGCTACTGTAA
Found at i:41606225 original size:18 final size:18
Alignment explanation
Indices: 41606202--41606237 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
41606192 AGATAAAACG
41606202 CATCTTGATGGTTCAACC
1 CATCTTGATGGTTCAACC
41606220 CATCTTGATGGTTCAACC
1 CATCTTGATGGTTCAACC
41606238 AATGGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (18 bp):
CATCTTGATGGTTCAACC
Found at i:41607488 original size:42 final size:42
Alignment explanation
Indices: 41607429--41607511 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
41607419 CTGAACTTTA
41607429 CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAACG
1 CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAACG
* * *
41607471 CCGAGAGATACCAGTTGCTGGATTTTGTGGCTACATTCAAC
1 CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAAC
41607512 AATGACAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (42 bp):
CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAACG
Found at i:41627056 original size:77 final size:77
Alignment explanation
Indices: 41626929--41627141 Score: 356
Period size: 76 Copynumber: 2.8 Consensus size: 77
41626919 AACCGTTATC
* *
41626929 GGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTTAC
1 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCAC
41626994 ATTCAAGGATAT
66 ATTCAAGGATAT
* *
41627006 GGTGGAATCAGCACTTAACAACCACCAGTGATTCGGGGAATCAACACTTAGCAACCCC-TTTCAC
1 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCAC
41627070 ATTCAAGGATAT
66 ATTCAAGGATAT
** *
41627082 GGTGGAATCAGCACTTAGCAACCACCAAAGAGTCGGGGAATCAGCACTTAGCAACCCCTT
1 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTT
41627142 GGGGGAATCA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
76 70 0.56
77 56 0.44
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (77 bp):
GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCAC
ATTCAAGGATAT
Found at i:41627150 original size:27 final size:27
Alignment explanation
Indices: 41627116--41627193 Score: 156
Period size: 27 Copynumber: 2.9 Consensus size: 27
41627106 CCAAAGAGTC
41627116 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
41627143 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
41627170 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
41627194 CTTGTTATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.26, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:41628767 original size:46 final size:46
Alignment explanation
Indices: 41628689--41628873 Score: 334
Period size: 46 Copynumber: 4.0 Consensus size: 46
41628679 ACAATGCTAT
* * *
41628689 AACTTAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
41628735 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
41628781 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
41628827 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
41628873 A
1 A
41628874 TTTTGCCATG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 135 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:41632422 original size:25 final size:25
Alignment explanation
Indices: 41632388--41632459 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
41632378 AGTCCTCTCT
* *
41632388 CGAGCCATATAATGGGAAGCTTATC
1 CGAGCTATATAACGGGAAGCTTATC
41632413 CGAGCTATATAACGGGAAGCTTATC
1 CGAGCTATATAACGGGAAGCTTATC
41632438 C-AGGCTATATAACGGGAAGCTT
1 CGA-GCTATATAACGGGAAGCTT
41632460 GAGAGAGGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 43 0.98
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (25 bp):
CGAGCTATATAACGGGAAGCTTATC
Found at i:41632823 original size:21 final size:21
Alignment explanation
Indices: 41632797--41632838 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41632787 CAAACTTAAC
41632797 TCAATTTAATAAAATTCACAT
1 TCAATTTAATAAAATTCACAT
* **
41632818 TCAATTTCATCCAATTCACAT
1 TCAATTTAATAAAATTCACAT
41632839 ATTATGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTTAATAAAATTCACAT
Found at i:41633306 original size:68 final size:66
Alignment explanation
Indices: 41633206--41633339 Score: 232
Period size: 68 Copynumber: 2.0 Consensus size: 66
41633196 TTACGATATG
*
41633206 AGAAATATAAAAATTACTAAAAACTACGATCTGGGATAAGAGAATACTTACCAAATTAAGCTAAA
1 AGAAATATAAAAATTACTAAAAACTACAATCTGGGATAA-A-AATACTTACCAAATTAAGCTAAA
41633271 TAA
64 TAA
*
41633274 AGAAATATAAAAATTACTAAAAATTACAATCTGGGATAAAAATACTTACCAAATTAAGCTAAATA
1 AGAAATATAAAAATTACTAAAAACTACAATCTGGGATAAAAATACTTACCAAATTAAGCTAAATA
41633339 A
66 A
41633340 TCTTGCTTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 26 0.41
67 1 0.02
68 37 0.58
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.25
Consensus pattern (66 bp):
AGAAATATAAAAATTACTAAAAACTACAATCTGGGATAAAAATACTTACCAAATTAAGCTAAATA
A
Found at i:41642962 original size:88 final size:88
Alignment explanation
Indices: 41642847--41643138 Score: 300
Period size: 88 Copynumber: 3.3 Consensus size: 88
41642837 TTGTATATTC
* *** *
41642847 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTTGCTACCAATAT
1 GATCTACTTCA-CGCCAGTACATGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
41642912 AGGAAGACAGGACCCACTATCTTT
65 AGGAAGACAGGACCCACTATCTTT
* * * ** * * * * * * *
41642936 AATCTACTTCATGCCAGTACATGAAGACACGATCTGTTTTCTTCGA-CCTACTCCACCACCAGTA
1 GATCTACTTCACGCCAGTACATGAAGATAAAATATG-TATATTCGATCC-ACTTCGCTACCAATA
* * * ** *
41643000 TAGGGAGACAAGA-TCTGTTTCTTT
64 TAGGAAGACAGGACCCACTATCTTT
***
41643024 GATCTACTTCACGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
1 GATCTACTTCACGCCAGTACATGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
*
41643089 GGAAGACAGGACCTACTATCTTT
66 GGAAGACAGGACCCACTATCTTT
41643112 GATCTACTTCACGCCAGTACATGAAGA
1 GATCTACTTCACGCCAGTACATGAAGA
41643139 CACGATCTGT
Statistics
Matches: 151, Mismatches: 48, Indels: 9
0.73 0.23 0.04
Matches are distributed among these distances:
87 29 0.19
88 84 0.56
89 38 0.25
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (88 bp):
GATCTACTTCACGCCAGTACATGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
GGAAGACAGGACCCACTATCTTT
Found at i:41643009 original size:45 final size:45
Alignment explanation
Indices: 41642960--41643236 Score: 172
Period size: 44 Copynumber: 6.3 Consensus size: 45
41642950 CAGTACATGA
* *
41642960 AGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTATAGGG
1 AGACAAGATCTGTTTTCTTCGACCTACTTCACCACCAGTATAGGG
* * *
41643005 AGACAAGATCTG-TTTCTTTGATCTACTTCA-CGCCAGTAT-GGG
1 AGACAAGATCTGTTTTCTTCGACCTACTTCACCACCAGTATAGGG
* * * * * * * * *
41643047 AAGATAAAATATG-TATATTCGATCC-ACTTCGCTACCAATATAGGA
1 -AGACAAGATCTGTTTTCTTCGA-CCTACTTCACCACCAGTATAGGG
* * ** * * * * * * *
41643092 AGACAGGACCTACTATCTTTGATCTACTTCA-CGCCAGTACATGA
1 AGACAAGATCTGTTTTCTTCGACCTACTTCACCACCAGTATAGGG
* * *
41643136 AGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGTTTTCTTCGACCTACTTCACCACCAGTATAGGG
* * * * * *
41643181 AGACAAGATCTG-TTTCTTTGATCTGCTTCGCCACCAGCATGGGG
1 AGACAAGATCTGTTTTCTTCGACCTACTTCACCACCAGTATAGGG
*
41643225 AGGCAAGATCTG
1 AGACAAGATCTG
41643237 ATATCTTCCA
Statistics
Matches: 172, Mismatches: 53, Indels: 15
0.72 0.22 0.06
Matches are distributed among these distances:
42 3 0.02
43 28 0.16
44 97 0.56
45 44 0.26
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (45 bp):
AGACAAGATCTGTTTTCTTCGACCTACTTCACCACCAGTATAGGG
Found at i:41643062 original size:176 final size:177
Alignment explanation
Indices: 41642847--41643223 Score: 666
Period size: 176 Copynumber: 2.1 Consensus size: 177
41642837 TTGTATATTC
*
41642847 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTTGCTACCAATAT
1 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
*
41642912 AGGAAGACAGGACCCACTATCTTTAATCTACTTCATGCCAGTACATGAAGACACGATCTGTTTTC
66 AGGAAGACAGGACCCACTATCTTTAATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
41642977 TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
131 TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
*
41643024 GATCTACTTCA-CGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
1 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
* *
41643088 AGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
66 AGGAAGACAGGACCCACTATCTTTAATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
*
41643153 TTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTT
131 TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
* * *
41643200 GATCTGCTTCGCCACCAGCATGGG
1 GATCTACTTCACCACCAGTATGGG
41643224 GAGGCAAGAT
Statistics
Matches: 189, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
176 168 0.89
177 21 0.11
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (177 bp):
GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
AGGAAGACAGGACCCACTATCTTTAATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
Found at i:41643199 original size:88 final size:88
Alignment explanation
Indices: 41642931--41643209 Score: 328
Period size: 88 Copynumber: 3.2 Consensus size: 88
41642921 GGACCCACTA
* *
41642931 TCTTTAATCTACTTCATGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
41642996 AGTATAGGGAGACAAGATCTGTT
66 AGTATAGGGAGACAAGATCTGTT
*** * ** * * * * * *
41643019 TCTTTGATCTACTTCACGCCAGTATGGGAAGATAAAATATG-TATATTCGATCC-ACTTCGCTAC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGA-CCTACTCCACCAC
* * * * * *
41643082 CAATATAGGAAGACAGGACCTACTA
65 CAGTATAGGGAGACAAGATCT-GTT
41643107 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
*
41643172 AGTATGGGGAGACAAGATCTGTT
66 AGTATAGGGAGACAAGATCTGTT
*
41643195 TCTTTGATCTGCTTC
1 TCTTTGATCTACTTC
41643210 GCCACCAGCA
Statistics
Matches: 147, Mismatches: 40, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
87 31 0.21
88 86 0.59
89 30 0.20
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (88 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
AGTATAGGGAGACAAGATCTGTT
Found at i:41657573 original size:76 final size:75
Alignment explanation
Indices: 41657442--41657587 Score: 211
Period size: 76 Copynumber: 1.9 Consensus size: 75
41657432 ATCGGATTTG
* *
41657442 AAAAAGGGATCATGCCCAATAAGTTAGGACACAATATTTTCTTAATTCCTGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAATAAGTTAGGACACAATATCTTCTTAATTCCCGAGATCGTTTAAAAC
41657507 TTGAGAAAAA
66 TTGAGAAAAA
* * ** * *
41657517 AAAAAGGGGATCATGCCTAGTAAGTTAGGACATGATCTCTTCTTGATTCCCGAGATCGTTTAAAA
1 AAAAA-GGGATCATGCCCAATAAGTTAGGACACAATATCTTCTTAATTCCCGAGATCGTTTAAAA
41657582 CTTGAG
65 CTTGAG
41657588 TTTGAAAAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
75 5 0.08
76 57 0.92
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (75 bp):
AAAAAGGGATCATGCCCAATAAGTTAGGACACAATATCTTCTTAATTCCCGAGATCGTTTAAAAC
TTGAGAAAAA
Found at i:41657881 original size:13 final size:13
Alignment explanation
Indices: 41657863--41657899 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
41657853 GTAAATAAAT
41657863 AAATGAATAAAGA
1 AAATGAATAAAGA
41657876 AAATGAATAAAGA
1 AAATGAATAAAGA
41657889 AAATGAATAAA
1 AAATGAATAAA
41657900 AATATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (13 bp):
AAATGAATAAAGA
Found at i:41657938 original size:14 final size:14
Alignment explanation
Indices: 41657921--41657953 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
41657911 ATAAAAAAAG
41657921 ATATATAAGTATGT
1 ATATATAAGTATGT
*
41657935 ATATATATGTATGT
1 ATATATAAGTATGT
41657949 ATATA
1 ATATA
41657954 AATAAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (14 bp):
ATATATAAGTATGT
Found at i:41658351 original size:3 final size:3
Alignment explanation
Indices: 41658345--41658436 Score: 98
Period size: 3 Copynumber: 30.3 Consensus size: 3
41658335 TAATATTATC
* * *
41658345 AAT AAT AAT AGT AAT AAT AAA AAT ACT AAT AAT AAT GGAAGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --AA-T AAT AAT
* *
41658393 AAT ACT AAT AAT AAT AAT AAT AAT AAC AAT AAT AA- AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
41658437 TTTATTAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
2 4 0.05
3 66 0.88
4 2 0.03
5 2 0.03
6 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:41659799 original size:19 final size:19
Alignment explanation
Indices: 41659775--41659811 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
41659765 CTCTGTCGCC
41659775 GGATTAGGATTACGGAGTA
1 GGATTAGGATTACGGAGTA
41659794 GGATTAGGATTACGGAGT
1 GGATTAGGATTACGGAGT
41659812 GTTACAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.38, T:0.27
Consensus pattern (19 bp):
GGATTAGGATTACGGAGTA
Found at i:41674505 original size:105 final size:104
Alignment explanation
Indices: 41674154--41674523 Score: 577
Period size: 103 Copynumber: 3.6 Consensus size: 104
41674144 TAACCGTTAT
* * *
41674154 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41674219 AATCAGCACATAGCAACCCCCTTTTC-ATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCAATTTCAAAGATA
*** *
41674257 CAATGGATATCGCACTTAGCACCACCAATGAACCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41674322 AATCAGCACATAGCAA-CCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCA-ATTTCAAAGATA
**
41674360 TGGTAAATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41674425 AATCAGCACATAGCAACCCCCTTTTCAAATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTC-AATTTCAAAGATA
* * *
41674465 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACATAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
41674524 TTATATACAA
Statistics
Matches: 243, Mismatches: 18, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
101 4 0.02
102 4 0.02
103 161 0.66
104 4 0.02
105 68 0.28
106 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCAATTTCAAAGATA
Found at i:41674888 original size:31 final size:30
Alignment explanation
Indices: 41674857--41674914 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41674847 CCACTCAACT
41674857 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
41674887 TTTTGCATAATTACATTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
41674915 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:41676190 original size:27 final size:27
Alignment explanation
Indices: 41676160--41676232 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
41676150 TGTCTTGAAT
41676160 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
*
41676187 TTGTTATATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
41676219 TTGTTGGATATTGA
1 TTGTTAGATATTGA
41676233 AATGATTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
27 13 0.34
32 25 0.66
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.53
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:41676212 original size:32 final size:32
Alignment explanation
Indices: 41676173--41676233 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
41676163 TTAGATATTG
*
41676173 ATTATGTTTTAAGCTTGTTATATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
41676205 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
41676234 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:41677431 original size:18 final size:18
Alignment explanation
Indices: 41677410--41677454 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
41677400 ACAATTTAAA
41677410 ATATAAATTTAATAATAT
1 ATATAAATTTAATAATAT
*
41677428 ATATGTAAATTTATTAATAT
1 ATA--TAAATTTAATAATAT
*
41677448 ATGTAAA
1 ATATAAA
41677455 AACAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
ATATAAATTTAATAATAT
Found at i:41690914 original size:17 final size:17
Alignment explanation
Indices: 41690892--41690927 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
41690882 CGATTGCATG
41690892 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
41690909 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
41690926 TT
1 TT
41690928 CCCTTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:41691711 original size:23 final size:23
Alignment explanation
Indices: 41691667--41691762 Score: 133
Period size: 23 Copynumber: 4.2 Consensus size: 23
41691657 TTGTTTTGAT
41691667 ATTGTTCTTGATTTGT-T-CTGGAA
1 ATTGTT-TTGA-TTGTCTGCTGGAA
*
41691690 ATTGTTTTGATTGTCTGTTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
* *
41691713 ATTGTTATGATTGTCTACTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
41691736 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
41691759 ATTG
1 ATTG
41691763 AATTTGTTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
21 4 0.06
22 5 0.08
23 56 0.86
ACGTcount: A:0.20, C:0.07, G:0.24, T:0.49
Consensus pattern (23 bp):
ATTGTTTTGATTGTCTGCTGGAA
Found at i:41692991 original size:25 final size:25
Alignment explanation
Indices: 41692957--41693159 Score: 190
Period size: 25 Copynumber: 8.3 Consensus size: 25
41692947 TACATCAATA
*
41692957 ATTAAAATAAGGACTTTAATATTTC
1 ATTAAAATAAGGACTTTAATATTTT
* *
41692982 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
41693005 ATTAAAACAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
41693030 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
41693053 ATTAAATTAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
41693078 ATTAAAATAAGGAC--TAATCAATAT
1 ATTAAAATAAGGACTTTAAT-ATTTT
41693102 -TTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
41693126 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
41693153 AATAAAA
1 ATTAAAA
41693160 AAATTTAAAT
Statistics
Matches: 145, Mismatches: 19, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
23 53 0.37
24 10 0.07
25 56 0.39
26 9 0.06
27 17 0.12
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.36
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:41693005 original size:48 final size:48
Alignment explanation
Indices: 41692950--41693132 Score: 330
Period size: 48 Copynumber: 3.8 Consensus size: 48
41692940 AAATAATTAC
*
41692950 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
41692998 ATCAATAATTAAAACAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
41693046 ATCAATAATTAAATTAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
41693094 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
41693133 ATCAAGAAAT
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:41693167 original size:96 final size:95
Alignment explanation
Indices: 41692971--41693171 Score: 255
Period size: 96 Copynumber: 2.1 Consensus size: 95
41692961 AAATAAGGAC
41692971 TTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAAGGACTTTAATATTTTATTAAA
1 TTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAAGGACTTTAATATTTTATTAAA
* ** *
41693036 ATAAGGACTAATCAATAATTAAATTAAGGAC
66 ATAAGGAC-AATCAATAATTAAATAAAAAAA
* * *
41693067 TTTAATATTTTATTAAAATAAGGACTAATCAATATTTAAAATAAGGACTTTAATATTTTATTAAA
1 TTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAAGGACTTTAATATTTTATT-AA
* * *
41693132 AATCAA-GA-AATTTAATATTTTAATAAAAAAA
65 AAT-AAGGACAA-TCAATAATTAAATAAAAAAA
41693163 TTTAA-ATTT
1 TTTAATATTT
41693172 AAAATGTGGT
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
95 6 0.07
96 77 0.84
97 7 0.08
98 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (95 bp):
TTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAAGGACTTTAATATTTTATTAAA
ATAAGGACAATCAATAATTAAATAAAAAAA
Found at i:41696846 original size:92 final size:92
Alignment explanation
Indices: 41696739--41696947 Score: 280
Period size: 92 Copynumber: 2.3 Consensus size: 92
41696729 TTGATTTTAG
* * *
41696739 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAA-TT-ATATATCACTATTAAATT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTTAATAT-TAACTATTAAATT
* *
41696802 ATATTTAAT-ATTAATTATTTTAAATTGTA
64 ATATGTAATAATT-ATTATTTTAAATTATA
*
41696831 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAATTATTAAATTAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAACTATTAAATTAT
41696896 ATGTAATAATTATTATTTTAAATTATA
66 ATGTAATAATTATTATTTTAAATTATA
* * * *
41696923 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
41696948 GTTACAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
91 24 0.23
92 73 0.70
93 7 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:41696910 original size:24 final size:25
Alignment explanation
Indices: 41696875--41696922 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
41696865 TTATGAAATT
41696875 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
41696899 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
41696923 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:41697076 original size:66 final size:63
Alignment explanation
Indices: 41697001--41697331 Score: 247
Period size: 66 Copynumber: 5.4 Consensus size: 63
41696991 AAATATATTT
41697001 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
41697066 G
63 G
* * * * **
41697067 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
41697121 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
41697185 AG
62 AG
* * * * **
41697187 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
41697241 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
41697305 AG
62 AG
*
41697307 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
41697332 AAATTATATA
Statistics
Matches: 203, Mismatches: 29, Indels: 67
0.68 0.10 0.22
Matches are distributed among these distances:
53 10 0.05
54 26 0.13
55 10 0.05
56 8 0.04
57 6 0.03
58 2 0.01
59 20 0.10
60 16 0.08
61 20 0.10
62 2 0.01
63 6 0.03
64 8 0.04
65 14 0.07
66 45 0.22
67 10 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:41697101 original size:120 final size:120
Alignment explanation
Indices: 41696963--41697375 Score: 733
Period size: 120 Copynumber: 3.4 Consensus size: 120
41696953 AATTATTTTA
* * *
41696963 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
41697025 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
41697083 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
41697148 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
41697203 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
41697268 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
41697323 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
41697376 TAAATATGAT
Statistics
Matches: 285, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
119 6 0.02
120 277 0.97
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:41697123 original size:15 final size:15
Alignment explanation
Indices: 41697088--41697139 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
41697078 TTAAGAATTT
*
41697088 TATTAAATTAT-ATA
1 TATTTAATTATAATA
41697102 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
41697116 TATTTAATAATAAT-
1 TATTTAATTATAATA
41697130 TATGTTAATT
1 TAT-TTAATT
41697140 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:41697243 original size:15 final size:15
Alignment explanation
Indices: 41697208--41697259 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
41697198 TTAAGAATTT
*
41697208 TATTAAATTAT-ATA
1 TATTTAATTATAATA
41697222 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
41697236 TATTTAATAATAAT-
1 TATTTAATTATAATA
41697250 TATGTTAATT
1 TAT-TTAATT
41697260 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:41697474 original size:157 final size:157
Alignment explanation
Indices: 41697312--41697628 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
41697302 ATAAGAATAT
* * *
41697312 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTT
1 TAATTATTAAGAAGTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
41697377 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
41697442 TAATAATCTACCAAAACAAATTTCTGC
131 TAATAATCTACCAAAACAAATTTATGC
41697469 TAATTATTAAGAAGTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAAGTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
41697534 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
41697599 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATCTACCAAAACAAATTTATGC
41697626 TAA
1 TAA
41697629 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAAGTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATCTACCAAAACAAATTTATGC
Found at i:41697770 original size:16 final size:16
Alignment explanation
Indices: 41697749--41697813 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
41697739 TTGATTTGCT
*
41697749 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
41697765 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
41697781 ATTACACATCTAATCC
1 ATTACACCTCTAATCC
*
41697797 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
41697813 A
1 A
41697814 ATACTGCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:41700024 original size:11 final size:11
Alignment explanation
Indices: 41700008--41700034 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
41699998 TTAAGCCTTG
41700008 TTTTTTTTATA
1 TTTTTTTTATA
41700019 TTTTTTTTATA
1 TTTTTTTTATA
41700030 TTTTT
1 TTTTT
41700035 ATGAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTATA
Found at i:41700506 original size:16 final size:17
Alignment explanation
Indices: 41700485--41700516 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41700475 TTTTTGGACT
41700485 TTTATTA-ATTTTTTAG
1 TTTATTATATTTTTTAG
41700501 TTTATTATATTTTTTA
1 TTTATTATATTTTTTA
41700517 TTTGGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTATTATATTTTTTAG
Found at i:41700884 original size:94 final size:94
Alignment explanation
Indices: 41700750--41700980 Score: 291
Period size: 94 Copynumber: 2.5 Consensus size: 94
41700740 TTAGTGTCAC
* * * **
41700750 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTGTTGTAGTTTCCTTCCGACC
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGTTTCAATCCGACC
* * *
41700815 CACTACAACTTTAGGGGTATAGGATTTTT
66 CACTACAACTTAAGAGGTATAGGATTTAT
* * *
41700844 AGTTTCATCTTACTCTATTGCAACTTCAAGGAGATAAGATTTACTATGGTAGTTTCAATCCGACC
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGTTTCAATCCGACC
* * *
41700909 CACTGCAAGTTAAGAGGTATAGGGTTTAT
66 CACTACAACTTAAGAGGTATAGGATTTAT
* * * * *
41700938 AGCTTCATCTTGCTCCAATGCATCTTTAGGGAGATAAGATTTG
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTG
41700981 ATATTATAAC
Statistics
Matches: 115, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 115 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (94 bp):
AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGTTTCAATCCGACC
CACTACAACTTAAGAGGTATAGGATTTAT
Found at i:41701019 original size:50 final size:51
Alignment explanation
Indices: 41700950--41701120 Score: 132
Period size: 44 Copynumber: 3.6 Consensus size: 51
41700940 CTTCATCTTG
* * *
41700950 CTCCAATGCATCTTTAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
* * * *
41701001 -TCCATTGCAACTTCAGGGATAT-AG----GAT-TTATAGC-TTCATCTT-A
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGAT-TTGA
* * * *
41701044 CTCCACTACATCTTCAGAGAGATAAGATTTGATATTATAATTTTGA---GA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
* *
41701092 TTCCACTGCAACTTCAGGGACATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
41701121 CGCCATTCTA
Statistics
Matches: 91, Mismatches: 19, Indels: 23
0.68 0.14 0.17
Matches are distributed among these distances:
43 5 0.05
44 25 0.27
45 5 0.05
48 25 0.27
49 5 0.05
50 23 0.25
51 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (51 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
Found at i:41701024 original size:94 final size:92
Alignment explanation
Indices: 41700908--41701120 Score: 268
Period size: 94 Copynumber: 2.3 Consensus size: 92
41700898 TCAATCCGAC
* * * * * * *
41700908 CCACTGCAAGTTAAGAGG-TATAGGGTTTATAGCTTCATCTTGCTCCAATGCATCTTTAGGGAGA
1 CCACTGCAACTTCAG-GGATATAGGATTTATAGCTTCATCTTACTCCAATACATCTTCAGAGAGA
41700972 TAAGATTTGATATTATAACTTTGATTTGA-T
65 TAAGATTTGATATTATAACTTTGA---GATT
* *
41701002 CCATTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCACTACATCTTCAGAGAGAT
1 CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCAATACATCTTCAGAGAGAT
*
41701067 AAGATTTGATATTATAATTTTGAGATT
66 AAGATTTGATATTATAACTTTGAGATT
* *
41701094 CCACTGCAACTTCAGGGACATAAGATT
1 CCACTGCAACTTCAGGGATATAGGATT
41701121 CGCCATTCTA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
91 2 0.02
92 25 0.24
93 2 0.02
94 75 0.72
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (92 bp):
CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCAATACATCTTCAGAGAGAT
AAGATTTGATATTATAACTTTGAGATT
Found at i:41701376 original size:44 final size:44
Alignment explanation
Indices: 41701304--41701755 Score: 195
Period size: 44 Copynumber: 9.7 Consensus size: 44
41701294 AGATTCGCCA
* *
41701304 TTGTAGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
1 TTGTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
* *
41701348 TTGTAGCTTCAATCTG-CTCCATTGCAACTTCAGGGAG-ATAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCAGGG-GTATAGGA-T
* * *
41701393 CACAATTGTAACTTCAATTTGACCCGCTGCAACTTCAGGGGTATAGGAT
1 -----TTGTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
* * * *
41701442 TTGTAGCTTCAATCT-ACTCTACTGCAACTTCAGGGAAATAATATTTGCT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCAGGG--GT-ATA--GGAT
* * * * * *
41701491 ATGGTAGATTTAAT-TTATCCCACTGTAACTTCAAGGGTATAGGAT
1 -TTGTAGCTTCAATCTGA-CCCACTGCAACTTCAGGGGTATAGGAT
* * * *
41701536 TTATGGCTTCAATCTG-CTCCACTGCAACTTTAGGGAGT-TAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCAGGG-GTATAGGA-T
* * * * *
41701581 CGCTATGGTAGATTTAAT-TCGACCCACTGTAACTTTAGGGGTATATGAT
1 ---T-T-GTAGCTTCAATCT-GACCCACTGCAACTTCAGGGGTATAGGAT
* * * *
41701630 TTTTAGCTTCAATCTG-CTCCACTACAACTTCAAGGAG-ATAAGATTCCT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTC-AGGGGTATAGGA----T
* * * *
41701678 TATAGTAGATTCAATCCGACCTACTGCAACTTCAGGGATATAGGAT
1 T-T-GTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
* **
41701724 TTGTAGCTTTAATCT-ACTTTACTGCAACTTCA
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCA
41701756 AAGAGATAAA
Statistics
Matches: 304, Mismatches: 61, Indels: 86
0.67 0.14 0.19
Matches are distributed among these distances:
43 7 0.02
44 136 0.45
45 15 0.05
46 4 0.01
47 6 0.02
48 4 0.01
49 14 0.05
50 114 0.38
51 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
Found at i:41701409 original size:94 final size:94
Alignment explanation
Indices: 41701243--41701907 Score: 703
Period size: 94 Copynumber: 7.1 Consensus size: 94
41701233 CCGACCCACT
* * * * * * *
41701243 GGGTATAGAATTTGTTGCTTC-ATCTTGCTCCATTGTAACTTCAGGAAGATAAGATTCGCCATTG
1 GGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGG
*
41701307 TAGATTCAATCTGACCCACTACAACTTCAG
65 TAGATTCAATCTGACCCACTGCAACTTCAG
* * * *
41701337 GGGTATAGGATTTGTAGCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCACAATTGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* *
41701402 A-ACTTCAATTTGACCCGCTGCAACTTCAG
66 AGA-TTCAATCTGACCCACTGCAACTTCAG
* * * * *
41701431 GGGTATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGAAATAATATTTGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* * * *
41701496 AGATTTAAT-TTATCCCACTGTAACTTCAA
66 AGATTCAATCTGA-CCCACTGCAACTTCAG
* * * *
41701525 GGGTATAGGATTTATGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGTTAAGATTCGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* * *
41701590 AGATTTAAT-TCGACCCACTGTAACTTTAG
66 AGATTCAATCT-GACCCACTGCAACTTCAG
* * * * *
41701619 GGGTATATGATTTTTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTC-CTTATAG
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC-TATGG
* *
41701683 TAGATTCAATCCGACCTACTGCAACTTCAG
65 TAGATTCAATCTGACCCACTGCAACTTCAG
* * * ** ** * *
41701713 GGATATAGGATTTGTAGCTTTAATCTACTTTACTGCAACTTCAAAGAGATAAAATTCACTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* * * *
41701778 AGATTTAATCTGATCTACTGCAACTT-AA
66 AGATTCAATCTGACCCACTGCAACTTCAG
* * ** * * *
41701806 AGGTATAGGATTTGTAGCTTAAAATCTGCTCCACTATAACTTTAGGAAGATAAGATTTGCTATGG
1 GGGTATAGGATTTGTAGCTT-CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGG
* *
41701871 TAGATTCAATCTGACCTACTACAACTTCAG
65 TAGATTCAATCTGACCCACTGCAACTTCAG
41701901 GGGTATA
1 GGGTATA
41701908 AGAATTATGG
Statistics
Matches: 478, Mismatches: 83, Indels: 19
0.82 0.14 0.03
Matches are distributed among these distances:
93 23 0.05
94 442 0.92
95 13 0.03
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (94 bp):
GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
AGATTCAATCTGACCCACTGCAACTTCAG
Found at i:41701564 original size:188 final size:186
Alignment explanation
Indices: 41701093--41701907 Score: 688
Period size: 188 Copynumber: 4.4 Consensus size: 186
41701083 ATTTTGAGAT
* * * * ** * * * *
41701093 TCCACTGCAACTTCAGGGACATAAGATTCGCCATTCTAGTTTCATTCCAACCCACTACAACTTCA
1 TCCACTACAACTTCA-GGAAATAAGATTTGCTATGGTAGATTCAATCCGACCCACTGCAACTTCA
** * * ** * * * *
41701158 AATGTATAGGACTTGCAGCTTC-ATCTTGCTCCACTATAACTTTAGGGAGATAATATTCACCATT
65 AGGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTCACTATG
* * * * *
41701222 GTAGTTTTAA--T--CCGAC--CCAC-T--GGGTATAGAATTTGTTGCTTC-ATCTTGC
129 GTAGATTTAATTTGACCCACTGCAACTTAGGGGTATAGGATTTGTAGCTTCAATC-TGC
* ** * * * * *
41701271 TCCATTGTAACTTCAGGAAGATAAGATTCGCCATTGTAGATTCAATCTGACCCACTACAACTTCA
1 TCCACTACAACTTCAGGAA-ATAAGATTTGCTATGGTAGATTCAATCCGACCCACTGCAACTTCA
* * * *
41701336 GGGGTATAGGATTTGTAGCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCACAATTG
65 AGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTATGG
* * *
41701401 TA-ACTTCAATTTGACCCGCTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTAC
130 TAGA-TTTAATTTGACCCACTGCAACTT-AGGGGTATAGGATTTGTAGCTTCAATCTGC
* * * * ** *
41701459 TCTACTGCAACTTCAGGGAAATAATATTTGCTATGGTAGATTTAAT-TTATCCCACTGTAACTTC
1 TCCACTACAACTTCA-GGAAATAAGATTTGCTATGGTAGATTCAATCCGA-CCCACTGCAACTTC
* * * * *
41701523 AAGGGTATAGGATTTATGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGTTAAGATTCGCTATG
64 AAGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTATG
* * * *
41701588 GTAGATTTAATTCGACCCACTGTAACTTTAGGGGTATATGATTTTTAGCTTCAATCTGC
129 GTAGATTTAATTTGACCCACTGCAAC-TTAGGGGTATAGGATTTGTAGCTTCAATCTGC
* * * *
41701647 TCCACTACAACTTCAAGGAGATAAGA-TTCCTTATAGTAGATTCAATCCGACCTACTGCAACTTC
1 TCCACTACAACTTC-AGGAAATAAGATTTGC-TATGGTAGATTCAATCCGACCCACTGCAACTTC
* * ** ** *
41701711 -AGGGATATAGGATTTGTAGCTTTAATCTACTTTACTGCAACTTCAAAGAGATAAAATTCACTAT
64 AAGGG-TATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAT
* * * ** *
41701775 GGTAGATTTAATCTGATCTACTGCAACTTAAAGGTATAGGATTTGTAGCTTAAAATCTGC
128 GGTAGATTTAATTTGACCCACTGCAACTTAGGGGTATAGGATTTGTAGCTT-CAATCTGC
* * * * *
41701835 TCCACTATAACTTTAGGAAGATAAGATTTGCTATGGTAGATTCAATCTGACCTACTACAACTTCA
1 TCCACTACAACTTCAGGAA-ATAAGATTTGCTATGGTAGATTCAATCCGACCCACTGCAACTTCA
*
41701900 GGGGTATA
65 AGGGTATA
41701908 AGAATTATGG
Statistics
Matches: 516, Mismatches: 95, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
177 3 0.01
178 109 0.21
179 3 0.01
180 1 0.00
182 3 0.01
184 3 0.01
185 1 0.00
187 33 0.06
188 342 0.66
189 18 0.03
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (186 bp):
TCCACTACAACTTCAGGAAATAAGATTTGCTATGGTAGATTCAATCCGACCCACTGCAACTTCAA
GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTATGGT
AGATTTAATTTGACCCACTGCAACTTAGGGGTATAGGATTTGTAGCTTCAATCTGC
Found at i:41701644 original size:282 final size:281
Alignment explanation
Indices: 41701243--41701907 Score: 845
Period size: 282 Copynumber: 2.4 Consensus size: 281
41701233 CCGACCCACT
* * * * * *
41701243 GGGTATAGAATTTGTTGCTTC-ATCTTGCTCCATTGTAACTTCAGGAAGATAAGATTCGCCATTG
1 GGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGG
* *
41701307 TAGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCATTG
65 TAGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTA
* * ** * *
41701372 CAACTTCAGGGAGATAAGATTCAC-AATTGTA-ACTTCAATTTGACCCGCTGCAACTTCAGGGGT
130 CAACTTCAAGGAGATAAGATTC-CTAATAGTAGA-TTCAATCCGACCCACTGCAACTTCAGGGAT
** * **
41701435 ATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGAAATAATATTTGCTATGGTAGAT
193 ATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCACTATGGTAGAT
* *
41701500 TTAAT-TTATCCCACTGTAACTTCAA
258 TTAATCTGAT-CCACTGCAACTT-AA
* * * * *
41701525 GGGTATAGGATTTATGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGTTAAGATTCGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGT
* ** * * *
41701590 AGATTTAAT-TCGACCCACTGTAACTTTAGGGGTATATGATTTTTAGCTTCAATCTGCTCCACTA
66 AGATTCAATCT-GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTA
* *
41701654 CAACTTCAAGGAGATAAGATTCCTTATAGTAGATTCAATCCGACCTACTGCAACTTCAGGGATAT
130 CAACTTCAAGGAGATAAGATTCCTAATAGTAGATTCAATCCGACCCACTGCAACTTCAGGGATAT
* * *
41701719 AGGATTTGTAGCTTTAATCTACTTTACTGCAACTTCAAAGAGATAAAATTCACTATGGTAGATTT
195 AGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCACTATGGTAGATTT
*
41701784 AATCTGATCTACTGCAACTTAA
260 AATCTGATCCACTGCAACTTAA
* * * *
41701806 AGGTATAGGATTTGTAGCTTAAAATCTGCTCCACTATAACTTTAGGAAGATAAGATTTGCTATGG
1 GGGTATAGGATTTGTAGCTT-CAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGG
*
41701871 TAGATTCAATCTGACCTACTACAACTTCAGGGGTATA
65 TAGATTCAATCTGACCCACTACAACTTCAGGGGTATA
41701908 AGAATTATGG
Statistics
Matches: 325, Mismatches: 51, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
281 21 0.06
282 296 0.91
283 8 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (281 bp):
GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGT
AGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTAC
AACTTCAAGGAGATAAGATTCCTAATAGTAGATTCAATCCGACCCACTGCAACTTCAGGGATATA
GGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCACTATGGTAGATTTA
ATCTGATCCACTGCAACTTAA
Found at i:41709108 original size:9 final size:9
Alignment explanation
Indices: 41709096--41709120 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
41709086 TTTTAAGCCT
41709096 TTTTTTTTA
1 TTTTTTTTA
41709105 TTTTTTTTA
1 TTTTTTTTA
41709114 TTTTTTT
1 TTTTTTT
41709121 ATGAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:41710295 original size:18 final size:19
Alignment explanation
Indices: 41710269--41710310 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
41710259 TATCTATTTA
* * *
41710269 TCATAATTA-TGATTAATT
1 TCATTATTATTGAGTAATG
41710287 TCATTATTATTGAGTAATG
1 TCATTATTATTGAGTAATG
41710306 TCATT
1 TCATT
41710311 GTATAGCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (19 bp):
TCATTATTATTGAGTAATG
Found at i:41713804 original size:17 final size:16
Alignment explanation
Indices: 41713777--41713808 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
41713767 ATTTACTTAG
41713777 TTTGTTATATATTTGT
1 TTTGTTATATATTTGT
41713793 TTTGTATATATATTTG
1 TTTGT-TATATATTTG
41713809 ATTGTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (16 bp):
TTTGTTATATATTTGT
Found at i:41717194 original size:18 final size:18
Alignment explanation
Indices: 41717150--41717196 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
41717140 CAATAATTCC
41717150 AAAAAAT-AAAATTGGAA
1 AAAAAATAAAAATTGGAA
*
41717167 AAAAGTATAAAAATT-GAA
1 AAAA-AATAAAAATTGGAA
41717185 ATAAAAATAAAA
1 A-AAAAATAAAA
41717197 TATATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.16
18 12 0.48
19 9 0.36
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (18 bp):
AAAAAATAAAAATTGGAA
Found at i:41719114 original size:31 final size:29
Alignment explanation
Indices: 41719044--41719123 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
41719034 ATTTGTCACT
* * **
41719044 TTTTTAAAGTTTAGTGACTGAGTTGTAAC
1 TTTTCAAAGTTCAGTGACTGAAATGTAAC
*
41719073 TTTTCAAAGTTCAGTGACTGAAATGTTAC
1 TTTTCAAAGTTCAGTGACTGAAATGTAAC
*
41719102 TTTAATCAAAGTTGAGTGACTG
1 TTT--TCAAAGTTCAGTGACTG
41719124 GTAGAACAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 27 0.63
31 16 0.37
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (29 bp):
TTTTCAAAGTTCAGTGACTGAAATGTAAC
Found at i:41725298 original size:25 final size:26
Alignment explanation
Indices: 41725242--41725309 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
41725232 GGTCACCGAT
*
41725242 TTCAGCTCTTATGAGCTTCCCGATAC
1 TTCAGCTCATATGAGCTTCCCGATAC
*
41725268 TT-AGCTCGTATGAGCTTCCC-ATTA-
1 TTCAGCTCATATGAGCTTCCCGA-TAC
*
41725292 TTCAGCTCACATGAGCTT
1 TTCAGCTCATATGAGCTT
41725310 TTTGTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.08
25 32 0.86
26 2 0.05
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (26 bp):
TTCAGCTCATATGAGCTTCCCGATAC
Found at i:41726041 original size:25 final size:25
Alignment explanation
Indices: 41725979--41726029 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
41725969 AATGAAAGAA
41725979 AGTAAAATGTGGTTTGAATATGCAT
1 AGTAAAATGTGGTTTGAATATGCAT
41726004 AGTAAAATGTGGTTTGAATATGCAT
1 AGTAAAATGTGGTTTGAATATGCAT
41726029 A
1 A
41726030 TGTGAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (25 bp):
AGTAAAATGTGGTTTGAATATGCAT
Found at i:41728076 original size:24 final size:24
Alignment explanation
Indices: 41728031--41728092 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
41728021 TCCGAGTTGT
41728031 ATAACAGGAAGCTCATAAGAGCC-
1 ATAACAGGAAGCTCATAAGAGCCA
**
41728054 ATAACTAGGAAGCTCATGCGAGCCA
1 ATAAC-AGGAAGCTCATAAGAGCCA
* *
41728079 ATAACGGGTAGCTC
1 ATAACAGGAAGCTC
41728093 CGAAGAGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.15
24 23 0.70
25 5 0.15
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (24 bp):
ATAACAGGAAGCTCATAAGAGCCA
Found at i:41728199 original size:26 final size:26
Alignment explanation
Indices: 41728168--41728263 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 26
41728158 GGTAGATTCG
*
41728168 AAGAGCCATTAATCGGGAAGGTTACA
1 AAGAGCCATTAATCGGGAAGGTCACA
* *
41728194 AAGAGCCTTTAATTGGGAAGGTCACA
1 AAGAGCCATTAATCGGGAAGGTCACA
* * * *
41728220 AAAAGCCTTTAATCGAGAAGCTCACA
1 AAGAGCCATTAATCGGGAAGGTCACA
41728246 AAGAGCCA-TATATCGGGA
1 AAGAGCCATTA-ATCGGGA
41728264 CGCTTATAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 2 0.03
26 57 0.97
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGAGCCATTAATCGGGAAGGTCACA
Found at i:41732236 original size:312 final size:311
Alignment explanation
Indices: 41731641--41732239 Score: 1015
Period size: 312 Copynumber: 1.9 Consensus size: 311
41731631 TTTTTTAAGG
*
41731641 CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGGT
1 CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGAT
41731706 GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
66 GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
* * *
41731771 CATGGATGACTGATAACACACTGAGGCATTATCTCTTGTATATTCATTATACTAGAAAGTGTTTT
131 CATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGAAACTGTTTT
*
41731836 CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGATTTGTGAGCAATTGTTCCTTG
196 CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCCTTG
* *
41731901 CTTTTTTAAAAAATAGTTGTGTTCATAATTTTCATTGTTATTATACATGCA
261 CATTTATAAAAAATAGTTGTGTTCATAATTTTCATTGTTATTATACATGCA
* *
41731952 CATTGAGGGATAGACGAGGTAGTGCTGTAGCTAAGACAAATGTTATTGGATTCATGTGCATATGA
1 CATTGAGGGATAGACGAGATAG-GCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGA
* * *
41732017 TTTGTTGAAGTTTTCTGTGTTAATGTAGTTGATAT-TCTGGGTAATAGCTACTTATTGGCTAGGT
65 TGTGTTGAAGTTGTCTGTGTTAATGTAGTTGAT-TGTCTGGGTAATAGCTACTTATTGGCAAGGT
41732081 AACATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGGAAACT-T
129 AACATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTA-GAAACTGT
*
41732145 TTTCTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTTC
193 TTTCTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCC
*
41732210 TTGCATTTATGAAAAATCAG-TGTGTTCATA
258 TTGCATTTATAAAAAAT-AGTTGTGTTCATA
41732240 TTATTATACA
Statistics
Matches: 270, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
311 21 0.08
312 241 0.89
313 8 0.03
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.39
Consensus pattern (311 bp):
CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGAT
GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
CATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGAAACTGTTTT
CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCCTTG
CATTTATAAAAAATAGTTGTGTTCATAATTTTCATTGTTATTATACATGCA
Found at i:41745722 original size:19 final size:19
Alignment explanation
Indices: 41745663--41745723 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
41745653 AAAAAATAGA
*
41745663 AAAAAATAT-AAATATCATT
1 AAAAATTATAAAAT-TCATT
*
41745682 AAAATATTATTAAAATT-TTT
1 AAAA-ATTA-TAAAATTCATT
41745702 AAAAATTATAAAATTCATT
1 AAAAATTATAAAATTCATT
41745721 AAA
1 AAA
41745724 TAGTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 7 0.20
19 13 0.37
20 9 0.26
21 2 0.06
22 4 0.11
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTATAAAATTCATT
Found at i:41749325 original size:55 final size:56
Alignment explanation
Indices: 41749257--41749379 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 56
41749247 TGATTTTCGA
* * *
41749257 CACTAAGTGTGCGAATTTAATTGTGAAGCACTAAGT-TGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATAAAG
* * * **
41749312 CACTAAGTGTGCGAGTTTAATGGTAAAGCACTAAGTGTGTGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATAAAG
41749368 CACTAAGTGTGC
1 CACTAAGTGTGC
41749380 AAACTTATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
55 33 0.56
56 26 0.44
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (56 bp):
CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATAAAG
Found at i:41749337 original size:28 final size:28
Alignment explanation
Indices: 41749257--41749379 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
41749247 TGATTTTCGA
* *
41749257 CACTAAGTGTGCGAATTTAATTGTGAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
41749285 CACTAAGT-TGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
41749312 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * **
41749340 CACTAAGTGTGTGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
41749368 CACTAAGTGTGC
1 CACTAAGTGTGC
41749380 AAACTTATTA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 25 0.30
28 59 0.70
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:41750135 original size:23 final size:24
Alignment explanation
Indices: 41750105--41750729 Score: 261
Period size: 23 Copynumber: 26.8 Consensus size: 24
41750095 TTTTTATGCT
41750105 TAAATGCTGCCCAATTTGTGGT-AA
1 TAAATGCTGCCCAATTT-TGGTGAA
* *
41750129 T-TATGCTGCCTAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
*
41750152 TAAATGCTGCCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
41750175 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * * *
41750198 TAAGTACTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
**
41750221 TGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
*
41750245 TAAATGCTGTCCAATTTT-GT--A
1 TAAATGCTGCCCAATTTTGGTGAA
* *
41750266 TACACATGCTGTCAAATTTTGGTGAA
1 TA-A-ATGCTGCCCAATTTTGGTGAA
* *
41750292 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
41750315 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
41750338 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
**
41750361 TGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* **
41750385 TAAATGCTGTCCAATTTT--ACATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
41750408 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
41750431 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
**
41750454 TGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
41750478 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* ** * *
41750501 TACATGCTATCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
41750524 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
** *
41750547 TGTATGCTACCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
41750571 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
41750594 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * * *
41750617 TAAGTGCTGTCCAA-ATTAGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* *
41750640 TATATGCTGCCTAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
41750664 TAAATGTTGTCCAATTTT-GT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
41750687 TACATGCTGTCAAATTTTGGTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
*
41750711 TAAATGCTGTCCAATTTTG
1 TAAATGCTGCCCAATTTTG
41750730 TATATATATA
Statistics
Matches: 448, Mismatches: 113, Indels: 80
0.70 0.18 0.12
Matches are distributed among these distances:
21 3 0.01
22 21 0.05
23 262 0.58
24 153 0.34
25 6 0.01
26 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (24 bp):
TAAATGCTGCCCAATTTTGGTGAA
Found at i:41750241 original size:93 final size:92
Alignment explanation
Indices: 41750123--41750305 Score: 278
Period size: 93 Copynumber: 2.0 Consensus size: 92
41750113 GCCCAATTTG
* *
41750123 TGGTAATTATGCTGCCTAATTTTGGTGAATAAATGCTGCCCAATTTTGCATATACATGCTGTCAA
1 TGGTAATTATGCTGCCCAATTTTGGTGAATAAATGCTGCCCAATTTTGCATACACATGCTGTCAA
* *
41750188 ATTTT-GTGTATAAGTACTGTCCAAAT
66 ATTTTGGTGAATAAATACTGTCCAAAT
* *
41750214 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATACACATGCTGTC
1 TGGTA-AT-TATGCTGCCCAATTTTGGTGAATAAATGCTGCCCAATTTTGCATACACATGCTGTC
*
41750279 AAATTTTGGTGAATAAATGCTGTCCAA
64 AAATTTTGGTGAATAAATACTGTCCAA
41750306 TTTTGCATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 5 0.06
92 2 0.02
93 59 0.72
94 16 0.20
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (92 bp):
TGGTAATTATGCTGCCCAATTTTGGTGAATAAATGCTGCCCAATTTTGCATACACATGCTGTCAA
ATTTTGGTGAATAAATACTGTCCAAAT
Found at i:41750346 original size:93 final size:93
Alignment explanation
Indices: 41750224--41750738 Score: 805
Period size: 93 Copynumber: 5.5 Consensus size: 93
41750214 TGGTATATGT
* * * * * * * * * *
41750224 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATACACATGCTGTCAAATTTTGGT
1 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGT
41750289 GAATAAATGCTGTCCAATTTTGCATATAC
65 GAATAAATGCTGTCCAATTTTGCATATAC
*
41750318 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTG
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
*
41750383 AATAAATGCTGTCCAATTTTACATATAC
66 AATAAATGCTGTCCAATTTTGCATATAC
*
41750411 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTG
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
41750476 AATAAATGCTGTCCAATTTTGCATATAC
66 AATAAATGCTGTCCAATTTTGCATATAC
* * *
41750504 ATGCTATCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTACCCAATTTTGGTG
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
41750569 AATAAATGCTGTCCAATTTTGCATATAC
66 AATAAATGCTGTCCAATTTTGCATATAC
* *
41750597 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTAGTATATATATGCTGCCTAATTTTGGTG
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
* *
41750662 AATAAATGTTGTCCAATTTTGTATATAC
66 AATAAATGCTGTCCAATTTTGCATATAC
* * *
41750690 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATAT
1 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATAT
41750739 ATATATGCTG
Statistics
Matches: 395, Mismatches: 25, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
93 352 0.89
94 43 0.11
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (93 bp):
ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTG
AATAAATGCTGTCCAATTTTGCATATAC
Found at i:41750348 original size:140 final size:140
Alignment explanation
Indices: 41750105--41750735 Score: 820
Period size: 140 Copynumber: 4.5 Consensus size: 140
41750095 TTTTTATGCT
* * * * *
41750105 TAAATGCTGCCCAATTTGTGGTA-AT-TATGCTGCCTAATTTTGGTGAATAAATGCTGCCCAATT
1 TAAATGCTGTCCAATTT-T-GTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATT
* *
41750168 TTGCATATACATGCTGTCAAATTTTGTGTATAAGTACTGTCCAAATTGGTATATGTATGCTGCCC
64 TTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCC
41750233 AATTTTGGTGAA
129 AATTTTGGTGAA
*
41750245 TAAATGCTGTCCAATTTTGTATACACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
*
41750310 GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAA
66 GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
41750375 TTTTGGTGAA
131 TTTTGGTGAA
** * * * *
41750385 TAAATGCTGTCCAATTTTACATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTG
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
* ** * * * * * * * * ** *
41750449 GTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTATCAA
66 GCATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCA
*
41750514 ATTTT-GTGTA
130 ATTTTGGTGAA
* * * ** ** *
41750524 TAAGTGCTGTCCAAATTGGTATATGTATGCTACCCAATTTTGGTGAATAAATGCTGTCCAATTTT
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
* *
41750589 GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTAGTATATATATGCTGCCTAA
66 GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
41750654 TTTTGGTGAA
131 TTTTGGTGAA
* *
41750664 TAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAATTTT
1 TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
*
41750729 GTATATA
66 GCATATA
41750736 TATATATATG
Statistics
Matches: 416, Mismatches: 70, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
138 3 0.01
139 111 0.27
140 302 0.73
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (140 bp):
TAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTT
GCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
TTTTGGTGAA
Found at i:41751830 original size:20 final size:19
Alignment explanation
Indices: 41751804--41751854 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
41751794 TTGGAGCAGG
* *
41751804 AATATCGATACCTTAGGAA
1 AATATCGATACCATAAGAA
41751823 ATATATCGATACCATAAGAA
1 A-ATATCGATACCATAAGAA
41751843 AAGTATCGATAC
1 AA-TATCGATAC
41751855 TAGATTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (19 bp):
AATATCGATACCATAAGAA
Found at i:41752101 original size:22 final size:23
Alignment explanation
Indices: 41752074--41752116 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
41752064 AAATTGCTCA
* *
41752074 ACTTTACTTTTTAT-TCAAAAAC
1 ACTTTAATTGTTATATCAAAAAC
41752096 ACTTTAATTGTTATATCAAAA
1 ACTTTAATTGTTATATCAAAA
41752117 CATATGATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (23 bp):
ACTTTAATTGTTATATCAAAAAC
Found at i:41754924 original size:5 final size:5
Alignment explanation
Indices: 41754911--41754962 Score: 68
Period size: 5 Copynumber: 10.4 Consensus size: 5
41754901 TCCCCTGGCC
* * * *
41754911 CTATG CTCTG CTCTG CTATG CTATG CTATG CTATG CTATG CCATG CCATG
1 CTATG CTATG CTATG CTATG CTATG CTATG CTATG CTATG CTATG CTATG
41754961 CT
1 CT
41754963 TTTTTGTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.37
Consensus pattern (5 bp):
CTATG
Found at i:41755384 original size:17 final size:18
Alignment explanation
Indices: 41755345--41755386 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
41755335 TTTAATCATT
* *
41755345 TAAAAATAATAGACATTA
1 TAAAATTAATAGAAATTA
41755363 T-AAATTAATA-AAATTA
1 TAAAATTAATAGAAATTA
41755379 TAAAATTA
1 TAAAATTA
41755387 TATTTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAAATTAATAGAAATTA
Found at i:41755415 original size:22 final size:22
Alignment explanation
Indices: 41755376--41755418 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
41755366 ATTAATAAAA
** *
41755376 TTATAAAATTATATTTTAATTC
1 TTATAAAAAAATAATTTAATTC
41755398 TTATAAAAAAATAATTTAATT
1 TTATAAAAAAATAATTTAATT
41755419 TTACAAGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATAAAAAAATAATTTAATTC
Found at i:41758869 original size:32 final size:32
Alignment explanation
Indices: 41758763--41758869 Score: 105
Period size: 32 Copynumber: 3.4 Consensus size: 32
41758753 CAGAGTTTTG
*
41758763 CCACAAAGGCTTTTCTTTTCATATAGTACTTA
1 CCACAAAGGCTTTCCTTTTCATATAGTACTTA
* ** * *
41758795 CCATAAAGGCTTT-CTTGCCCA-A-AGT-TTTG
1 CCACAAAGGCTTTCCTT-TTCATATAGTACTTA
**
41758824 CCACAAAATCTTTCCTTTTCATATAGTACTTA
1 CCACAAAGGCTTTCCTTTTCATATAGTACTTA
41758856 CCACAAAGGCTTTC
1 CCACAAAGGCTTTC
41758870 TTGTCCAAAT
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
29 14 0.25
30 7 0.12
31 7 0.12
32 28 0.50
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.36
Consensus pattern (32 bp):
CCACAAAGGCTTTCCTTTTCATATAGTACTTA
Found at i:41758900 original size:61 final size:61
Alignment explanation
Indices: 41758641--41758893 Score: 260
Period size: 61 Copynumber: 4.2 Consensus size: 61
41758631 TAAGAGGTTC
* * * * * * *
41758641 GCCATAAAGGCGTTCCTTTT-A-ATAGAAATTGCCACGAAGGCTTTTCTTGCCCAAAGTTTT
1 GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGC-TTTCTTGTCCAAAGTTTT
* * ** * * * * *
41758701 GCCACAGAGGCATTCCTTAACAT-TCAATGCTCACCACAAAGGCTTTCCTGTCCAGAGTTTT
1 GCCACAAAGGCTTTCCTTTTCATAT-AGTACTTACCACAAAGGCTTTCTTGTCCAAAGTTTT
* * *
41758762 GCCACAAAGGCTTTTCTTTTCATATAGTACTTACCATAAAGGCTTTCTTGCCCAAAGTTTT
1 GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCTTGTCCAAAGTTTT
** *
41758823 GCCACAAAATCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCTTGTCCAAATTTTT
1 GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCTTGTCCAAAGTTTT
*
41758884 TCCACAAAGG
1 GCCACAAAGG
41758894 GGTTCCTCTC
Statistics
Matches: 153, Mismatches: 36, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
60 15 0.10
61 126 0.82
62 12 0.08
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (61 bp):
GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCTTGTCCAAAGTTTT
Found at i:41762361 original size:25 final size:25
Alignment explanation
Indices: 41762312--41762361 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
41762302 TTTTCTATTA
*
41762312 ATTTTTATAAATTTTTATACTCTTT
1 ATTTTTATAAATTTTTATACACTTT
41762337 ATTTTTA-AATATTATTTA-ACACTTT
1 ATTTTTATAA-ATT-TTTATACACTTT
41762362 TATTAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.09
25 16 0.73
26 4 0.18
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTATAAATTTTTATACACTTT
Found at i:41764181 original size:12 final size:12
Alignment explanation
Indices: 41764145--41764182 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
41764135 TGCAAATGAA
41764145 TCATTTCTCATTT
1 TCATTTCT-ATTT
41764158 TCATTTAC-ATTT
1 TCATTT-CTATTT
41764170 TCATTTCTATTT
1 TCATTTCTATTT
41764182 T
1 T
41764183 GAGAAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 15 0.65
13 6 0.26
14 1 0.04
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTTCTATTT
Found at i:41766268 original size:12 final size:13
Alignment explanation
Indices: 41766248--41766276 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
41766238 TTAATTATTA
41766248 AATTAAAAATAAT
1 AATTAAAAATAAT
41766261 AATT-AAAATAAT
1 AATTAAAAATAAT
41766273 AATT
1 AATT
41766277 CAAAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:41768257 original size:31 final size:31
Alignment explanation
Indices: 41768186--41768257 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
41768176 ATTTGAGAAG
* *
41768186 CCTTTATTTGAGTACTTTCAAAAAATTTTGG
1 CCTTTATTTGAGCACTTTCAAAAAATTTTGA
* *
41768217 CC-TTATTTGAGCACTTTTATAAAGA-TTTGA
1 CCTTTATTTGAGCACTTTCA-AAAAATTTTGA
41768247 CCTTTATTTGA
1 CCTTTATTTGA
41768258 CCATTTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 21 0.60
31 14 0.40
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (31 bp):
CCTTTATTTGAGCACTTTCAAAAAATTTTGA
Found at i:41768274 original size:29 final size:30
Alignment explanation
Indices: 41768217--41768342 Score: 96
Period size: 29 Copynumber: 4.2 Consensus size: 30
41768207 AAAATTTTGG
* * *
41768217 CCTTATTTGAGCACTTTTATAAAGATTTGAC
1 CCTTATTTGACCACTTTT-GAAAGGTTTGAC
* *
41768248 CTTTATTTGACCA-TTTTGAAAGGTTTG-G
1 CCTTATTTGACCACTTTTGAAAGGTTTGAC
* *** * *
41768276 CATTCATTTTTGCACTTTTGTAAAGGTTAGGC
1 CCTT-ATTTGACCACTTTTG-AAAGGTTTGAC
*
41768308 CCTTATATGACCA-TTTTGAAAGGTTTGAC
1 CCTTATTTGACCACTTTTGAAAGGTTTGAC
41768337 CCTTAT
1 CCTTAT
41768343 GTGAGCAACC
Statistics
Matches: 73, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
28 3 0.04
29 29 0.40
30 14 0.19
31 24 0.33
32 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (30 bp):
CCTTATTTGACCACTTTTGAAAGGTTTGAC
Found at i:41775263 original size:23 final size:23
Alignment explanation
Indices: 41775233--41775277 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
41775223 GATCCATAAA
*
41775233 GAAACAGGCTCAACCCGAAGATT
1 GAAACAGGCTCAACCCAAAGATT
41775256 GAAACAGGCTCAACCCAAAGAT
1 GAAACAGGCTCAACCCAAAGAT
41775278 GCTTAAACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.27, G:0.20, T:0.11
Consensus pattern (23 bp):
GAAACAGGCTCAACCCAAAGATT
Found at i:41787658 original size:13 final size:13
Alignment explanation
Indices: 41787640--41787666 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41787630 CTTAGATCCA
41787640 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
41787653 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
41787666 T
1 T
41787667 GCCTACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTGTTT
Found at i:41792482 original size:3 final size:3
Alignment explanation
Indices: 41792474--41792515 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
41792464 TGTGAGAAGT
41792474 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
41792516 TTGGTAATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:41799192 original size:20 final size:20
Alignment explanation
Indices: 41799167--41799205 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
41799157 TGCAATTTGG
41799167 TATCGATAC-CAATTAAAAAT
1 TATCGATACTC-ATTAAAAAT
41799187 TATCGATACTCATTAAAAA
1 TATCGATACTCATTAAAAA
41799206 AAATATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
TATCGATACTCATTAAAAAT
Found at i:41804847 original size:72 final size:72
Alignment explanation
Indices: 41804725--41804860 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
41804715 GTTTGAAAAC
* *
41804725 TTAAAAACTAAATTTTTGAAAACTTAAACAAATTACATACCTTTGAGAAACTTTTTTGGAGAAAT
1 TTAAAAACTAAATTTTTGAAAACTTAAACAAATTACATAACTTTGAGAAACTTGTTTGGAGAAAT
41804790 TGGAAAT
66 TGGAAAT
**** * *
41804797 TTAAAAACTAAATTTTTGAAAACTTAAATGTCTTGAGA-AACTTTGGGAAACTTGTTTGGAGAAA
1 TTAAAAACTAAATTTTTGAAAACTTAAACAAATT-ACATAACTTTGAGAAACTTGTTTGGAGAAA
41804861 CAACTCAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 53 0.96
73 2 0.04
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.35
Consensus pattern (72 bp):
TTAAAAACTAAATTTTTGAAAACTTAAACAAATTACATAACTTTGAGAAACTTGTTTGGAGAAAT
TGGAAAT
Found at i:41805126 original size:67 final size:67
Alignment explanation
Indices: 41805046--41805265 Score: 361
Period size: 67 Copynumber: 3.3 Consensus size: 67
41805036 TCACTTGTCT
* * * *
41805046 TTTCTTGCAGGGAATATTTCCTATTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
41805111 CA
66 CA
*
41805113 TTTCTTGTAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
41805178 CA
66 CA
* *
41805180 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTT-CTATTCCCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCT-TTCCTGTTCACA
41805244 TCA
65 TCA
41805247 TTTCTTGCAGGGAATCTCT
1 TTTCTTGCAGGGAATCTCT
41805266 TTTGGAAAAT
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
67 142 0.99
68 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
CA
Found at i:41805266 original size:32 final size:35
Alignment explanation
Indices: 41805046--41805266 Score: 241
Period size: 35 Copynumber: 6.6 Consensus size: 35
41805036 TCACTTGTCT
* * *
41805046 TTTCTTGCAGGGAATAT-TTCCTATTCACGCATTA
1 TTTCTTGCAGGGAATCTCTTCCTGTTCACGCATCA
*
41805080 TTCTGTTGCAGGGAATCT-TTCCTGTTCA--CATCA
1 TT-TCTTGCAGGGAATCTCTTCCTGTTCACGCATCA
* *
41805113 TTTCTTGTAGGGAATCTC-TCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTTCCTGTTCACGCATCA
*
41805147 TTTTGTTGCAGGGAATCT-TTCCTGTTCA--CATCA
1 -TTTCTTGCAGGGAATCTCTTCCTGTTCACGCATCA
*
41805180 TTTCTTGCAGGGAATCTC-TCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTTCCTGTTCACGCATCA
* *
41805214 TTTTGTTGCAGGGAATCTCTT-CTATTC-C-CATCA
1 -TTTCTTGCAGGGAATCTCTTCCTGTTCACGCATCA
41805247 TTTCTTGCAGGGAATCTCTT
1 TTTCTTGCAGGGAATCTCTT
41805267 TTGGAAAATA
Statistics
Matches: 160, Mismatches: 16, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
32 66 0.41
33 14 0.09
34 11 0.07
35 68 0.43
36 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (35 bp):
TTTCTTGCAGGGAATCTCTTCCTGTTCACGCATCA
Found at i:41805915 original size:35 final size:35
Alignment explanation
Indices: 41805868--41805971 Score: 151
Period size: 35 Copynumber: 3.1 Consensus size: 35
41805858 GTTCACATCA
41805868 TTTCTTGCAGGGAATCTCTCCTGTTCATGCATTAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCATGCATTAT
* * *
41805903 TTTGTTGCAGGGAATCTCTTCTGTTCA--CA-TAA
1 TTTCTTGCAGGGAATCTCTCCTGTTCATGCATTAT
*
41805935 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCATGCATTAT
41805970 TT
1 TT
41805972 CTTTTTGGAC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 27 0.46
33 2 0.03
34 1 0.02
35 29 0.49
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.44
Consensus pattern (35 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCATGCATTAT
Found at i:41805948 original size:32 final size:32
Alignment explanation
Indices: 41805854--41805961 Score: 153
Period size: 32 Copynumber: 3.3 Consensus size: 32
41805844 AGGCAATGTT
*
41805854 TCCTGTTCACATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATAATTTCTTGCAGGGAATCTC
* *
41805886 TCCTGTTCATGCATTATTTTGTTGCAGGGAATCTC
1 TCCTGTTCA--CA-TAATTTCTTGCAGGGAATCTC
*
41805921 TTCTGTTCACATAATTTCTTGCAGGGAATCTC
1 TCCTGTTCACATAATTTCTTGCAGGGAATCTC
41805953 TCCTGTTCA
1 TCCTGTTCA
41805962 TGTATTATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
32 36 0.55
33 2 0.03
34 2 0.03
35 26 0.39
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.41
Consensus pattern (32 bp):
TCCTGTTCACATAATTTCTTGCAGGGAATCTC
Found at i:41808806 original size:20 final size:23
Alignment explanation
Indices: 41808771--41808815 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
41808761 GAGCAAATCG
41808771 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
41808793 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
41808814 TT
1 TT
41808816 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:41809367 original size:17 final size:17
Alignment explanation
Indices: 41809345--41809399 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
41809335 TTTGGCCAAG
41809345 TATCGATATTTTTGGAA
1 TATCGATATTTTTGGAA
*** **
41809362 TATCGATACCCTTCAAA
1 TATCGATATTTTTGGAA
*
41809379 TATTGATATTTTTGGAA
1 TATCGATATTTTTGGAA
41809396 TATC
1 TATC
41809400 AAAGGAACTG
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (17 bp):
TATCGATATTTTTGGAA
Found at i:41814165 original size:50 final size:48
Alignment explanation
Indices: 41814078--41814177 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 48
41814068 ATTTTTCAAG
* *
41814078 TCATTTTCATTTTCATTATGGAGAAAATTTCATTCATTTCCAAATGATT
1 TCATTTTCATTTTCATTATGGAGAAAACTTCAATCATTTCCAAATG-TT
* *
41814127 TCATTTTCCATTTTCATTTTGGAGAAAACCTT-AATCATTTGCAAATGTT
1 TCATTTT-CATTTTCATTATGGAGAAAA-CTTCAATCATTTCCAAATGTT
41814176 TC
1 TC
41814178 TTATTTCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
49 11 0.24
50 32 0.71
51 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (48 bp):
TCATTTTCATTTTCATTATGGAGAAAACTTCAATCATTTCCAAATGTT
Found at i:41820742 original size:50 final size:50
Alignment explanation
Indices: 41820627--41820875 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
41820617 GATAATAACA
* * ** * *
41820627 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
41820678 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
41820728 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
41820778 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
41820833 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
41820876 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 94 0.55
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:41820813 original size:100 final size:104
Alignment explanation
Indices: 41820626--41820875 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
41820616 TGATAATAAC
** * *
41820626 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
41820691 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
41820728 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
41820792 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
41820833 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
41820876 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:41820991 original size:13 final size:13
Alignment explanation
Indices: 41820970--41821001 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
41820960 GCTTGGATCA
*
41820970 TCATCAAATAAAT
1 TCATAAAATAAAT
41820983 TCATAAAATAAAT
1 TCATAAAATAAAT
41820996 TCATAA
1 TCATAA
41821002 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:41823064 original size:25 final size:25
Alignment explanation
Indices: 41823030--41823079 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
41823020 TAGATTAGAT
*
41823030 TACTCATTTCTGAGGCGTTGTTGTC
1 TACTCATTTCTGAGGCATTGTTGTC
*
41823055 TACTCGTTTCTGAGGCATTGTTGTC
1 TACTCATTTCTGAGGCATTGTTGTC
41823080 AACACCCCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.44
Consensus pattern (25 bp):
TACTCATTTCTGAGGCATTGTTGTC
Found at i:41828628 original size:21 final size:21
Alignment explanation
Indices: 41828604--41828661 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
41828594 TGATGCTGGG
41828604 AGGATGTCATTTGATGCACCA
1 AGGATGTCATTTGATGCACCA
* *
41828625 AGGATGTCTTTTGATGCAGCA
1 AGGATGTCATTTGATGCACCA
* *
41828646 AGAATGTCATGTGATG
1 AGGATGTCATTTGATG
41828662 ATCCCAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (21 bp):
AGGATGTCATTTGATGCACCA
Found at i:41831911 original size:17 final size:17
Alignment explanation
Indices: 41831886--41831924 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
41831876 ACAAGAAATT
*
41831886 ATAAAAAAATAAGAATA
1 ATAATAAAATAAGAATA
*
41831903 ATAATAAAATAATAATA
1 ATAATAAAATAAGAATA
41831920 A-AATA
1 ATAATA
41831925 GGACTCATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAATAAAATAAGAATA
Found at i:41831913 original size:11 final size:11
Alignment explanation
Indices: 41831893--41831924 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
41831883 ATTATAAAAA
41831893 AATAAGAATAAT
1 AATAA-AATAAT
41831905 AATAAAATAAT
1 AATAAAATAAT
41831916 AATAAAATA
1 AATAAAATA
41831925 GGACTCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:41833692 original size:33 final size:34
Alignment explanation
Indices: 41833644--41833732 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 34
41833634 ATATTCGAAT
*
41833644 AATTATAATTAAAATAAAATAAATAT-AAAATATA
1 AATTAGAA-TAAAATAAAATAAATATCAAAATATA
* * *
41833678 AA-TAGATTGAAAATAAAAT-AATATCTAAATTTA
1 AATTAGAAT-AAAATAAAATAAATATCAAAATATA
*
41833711 AATTAGAATAAACTAAAATAAA
1 AATTAGAATAAAATAAAATAAA
41833733 GCTTAAAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
32 6 0.13
33 30 0.67
34 9 0.20
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (34 bp):
AATTAGAATAAAATAAAATAAATATCAAAATATA
Found at i:41834693 original size:61 final size:61
Alignment explanation
Indices: 41834587--41834707 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 61
41834577 TAACACATGT
* ** *
41834587 TTATACGATGTGGGTTCACCTTTATGATGGTGCGAACCAACATCGTGCGGTCTCATAGAAA
1 TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAAA
** * ** * *
41834648 TTATACGATGTGGGTTTGCCTATATGATGGAATGAACGTATATCGTGTAGTCTCATAGAA
1 TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAA
41834708 GGGTACGCGA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (61 bp):
TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAAA
Found at i:41837895 original size:21 final size:21
Alignment explanation
Indices: 41837856--41837895 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
41837846 GATAACTTAT
*
41837856 AATAATTACATTGTCAATTAG
1 AATAATTAAATTGTCAATTAG
41837877 AATAATTAAATCTGT-AATT
1 AATAATTAAAT-TGTCAATT
41837896 GTTTAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
AATAATTAAATTGTCAATTAG
Found at i:41842963 original size:44 final size:43
Alignment explanation
Indices: 41842850--41842971 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
41842840 TCCGATATGT
*
41842850 GATTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
* * * *
41842893 GATTTCCTGTAAGACCACATCTGGGACGTTTGCATCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
* *
41842936 GATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCAT
41842972 AGTATATGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 43 0.63
44 25 0.37
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
Found at i:41850735 original size:43 final size:42
Alignment explanation
Indices: 41850673--41850879 Score: 199
Period size: 43 Copynumber: 4.9 Consensus size: 42
41850663 TCCGATATGT
* *
41850673 GATTTCGTGTAAGATCACGTCTGGGATGTTTGCATCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTT-A
* *
41850716 GATTTTGTGTAAGACCACGTTTGGGATGTTGGCATCGATTTTA
1 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGA-TTTA
* ** *
41850759 GATTTACGTGTAAGACCA-TTCTGGGACATTGGCATCG-TATA
1 GATTT-CGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTA
**
41850800 TGATTTCGTGTAAGACCTTGTCTGGGATAG-TGGCAT-GATAGTT-
1 -GATTTCGTGTAAGACCACGTCTGGGAT-GTTGGCATCGAT--TTA
* * *
41850843 GATTACATGTAAGACCACGTCTGGGACGTTGGCATCG
1 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCG
41850880 TACGAGCTTT
Statistics
Matches: 134, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
41 16 0.12
42 47 0.35
43 56 0.42
44 15 0.11
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTA
Found at i:41850826 original size:85 final size:84
Alignment explanation
Indices: 41850680--41850881 Score: 205
Period size: 85 Copynumber: 2.4 Consensus size: 84
41850670 TGTGATTTCG
* ** * * * *
41850680 TGTAAGATCACGTCTGGGATGTTTGCATCG-ATTTGAGATTTTGTGTAAGACCACGTTTGGGAT-
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATAT--GATTTCGTGTAAGACCACGTCTGGGATA
* *
41850743 GTTGGCATCGAT-TTTAGATTTACG
64 G-TGGCAT-GATAGTT-GA-TTACA
* **
41850767 TGTAAGACCA-TTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCTTGTCTGGGATAGT
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCACGTCTGGGATAGT
41850831 GGCATGATAGTTGATTACA
66 GGCATGATAGTTGATTACA
*
41850850 TGTAAGACCACGTCTGGGACGTTGGCATCGTA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTA
41850882 CGAGCTTTTT
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
83 14 0.14
84 24 0.25
85 31 0.32
86 16 0.16
87 12 0.12
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (84 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCACGTCTGGGATAGT
GGCATGATAGTTGATTACA
Found at i:41853095 original size:30 final size:30
Alignment explanation
Indices: 41853059--41853140 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
41853049 AAGAGTTATC
*
41853059 ACTCACACAAGCTGGCATTATAAAAGGGTT
1 ACTCACACAAGCTGACATTATAAAAGGGTT
* *
41853089 ACTCACACAAGTTGACATTATAACAGGGTT
1 ACTCACACAAGCTGACATTATAAAAGGGTT
*
41853119 GCTCACACAAGCTGACATTATA
1 ACTCACACAAGCTGACATTATA
41853141 TTGAGGTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (30 bp):
ACTCACACAAGCTGACATTATAAAAGGGTT
Found at i:41857940 original size:40 final size:38
Alignment explanation
Indices: 41857872--41858104 Score: 171
Period size: 40 Copynumber: 5.9 Consensus size: 38
41857862 CCAAAGGGGT
* *
41857872 ACCGTAGTAGAAATAGGGGCACGA-ATGTGCACTTTGGAGC
1 ACCGAAGTACAAATAGGGGCAC-ATATGTGCA-TTTGG-GC
* *
41857912 ACCGAAGTACAAATAGGGGCACATATGTGCATTCAGGGGT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT--TGGGC
** * * *
41857952 ACTAAAGTACAAACAAGGGCACGTATGTGCATTTAGGGC
1 ACCGAAGTACAAATAGGGGCACATATGTGCATTT-GGGC
* * *
41857991 TGCCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGT
1 -ACCGAAGTACAAATAGGGGCACATATGTGCATT--TGGGC
* * ** * * *
41858032 ACTGAAGTACAAACAGGGGCATGTATGCGCATTCAGGGTT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT-TGGG-C
**
41858072 ATGGAAGTACAAATAGGGGCACATATGTGCATT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT
41858105 CATACAATAA
Statistics
Matches: 153, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
39 10 0.07
40 138 0.90
41 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (38 bp):
ACCGAAGTACAAATAGGGGCACATATGTGCATTTGGGC
Found at i:41857999 original size:80 final size:80
Alignment explanation
Indices: 41857888--41858106 Score: 307
Period size: 80 Copynumber: 2.7 Consensus size: 80
41857878 GTAGAAATAG
* *
41857888 GGGCACGAATGTGCACTTT-GGAGC-ACCGAAGTACAAATAGGGGCACATATGTGCATTCAGGGG
1 GGGCACGTATGTGCA-TTTAGG-GCTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGG
41857951 TACTAAAGTACAAACAA
64 TACTAAAGTACAAACAA
*
41857968 GGGCACGTATGTGCATTTAGGGCTGCCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTA
1 GGGCACGTATGTGCATTTAGGGCTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTA
* *
41858033 CTGAAGTACAAACAG
66 CTAAAGTACAAACAA
* * * * **
41858048 GGGCATGTATGCGCATTCAGGGTTATGGAAGTACAAATAGGGGCACATATGTGCATTCA
1 GGGCACGTATGTGCATTTAGGGCTACCGAAGTACAAATAGGGGCACATATGTGCATTCA
41858107 TACAATAATT
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
79 5 0.04
80 120 0.96
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (80 bp):
GGGCACGTATGTGCATTTAGGGCTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTA
CTAAAGTACAAACAA
Found at i:41858105 original size:40 final size:39
Alignment explanation
Indices: 41857915--41858106 Score: 233
Period size: 40 Copynumber: 4.8 Consensus size: 39
41857905 TTGGAGCACC
41857915 GAAGTACAAATAGGGGCACATATGTGCATTCAGGGGTACT
1 GAAGTACAAATAGGGGCACATATGTGCATTCA-GGGTACT
* * * * * * *
41857955 AAAGTACAAACAAGGGCACGTATGTGCATTTAGGGCTGCC
1 GAAGTACAAATAGGGGCACATATGTGCATTCAGGG-TACT
41857995 GAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTACT
1 GAAGTACAAATAGGGGCACATATGTGCATTC-AGGGTACT
* ** *
41858035 GAAGTACAAACAGGGGCATGTATGCGCATTCAGGGTTA-T
1 GAAGTACAAATAGGGGCACATATGTGCATTCAGGG-TACT
41858074 GGAAGTACAAATAGGGGCACATATGTGCATTCA
1 -GAAGTACAAATAGGGGCACATATGTGCATTCA
41858107 TACAATAATT
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 8 0.06
40 114 0.90
41 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (39 bp):
GAAGTACAAATAGGGGCACATATGTGCATTCAGGGTACT
Found at i:41869079 original size:30 final size:31
Alignment explanation
Indices: 41869019--41869079 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
41869009 GGGTTGGGAG
*
41869019 GGGAGAGGAGTAAAAGTTTTGGGGCGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGGGGCAAAAGT
41869050 GGGA-AGGAGTAAAAGTTTTGAGGG-AAAAGT
1 GGGAGAGGAGTAAAAGTTTTG-GGGCAAAAGT
41869080 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.36, C:0.02, G:0.43, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGGGGCAAAAGT
Found at i:41871071 original size:40 final size:40
Alignment explanation
Indices: 41871027--41871211 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
41871017 ACCAAAAAAA
* *
41871027 AAACAGGGGCAGGCATGTGCATTCAGGGGTACTGTAA-TAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACTG-AAGTAC
* ** *
41871067 AAACAGGGGTACAAATGTGCACTCAGGGGTA-TCGAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACT-GAAGTAC
*
41871107 AAACAGGGGCACGTATATGCATTCAGGGGTACCT-AAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTA-CTGAAGTAC
* * * * *
41871147 AAACAAGGGCACGGATGCGCACTCAAGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACTGAAGTAC
* *
41871187 AAACAAGGGCATGTATGTGCATTCA
1 AAACAGGGGCACGTATGTGCATTCA
41871212 TACGATAATT
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 5 0.04
40 114 0.95
42 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (40 bp):
AAACAGGGGCACGTATGTGCATTCAGGGGTACTGAAGTAC
Found at i:41871169 original size:80 final size:80
Alignment explanation
Indices: 41871027--41871211 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 80
41871017 ACCAAAAAAA
* * * * * *
41871027 AAACAGGGGCAGGCATGTGCATTCAGGGGTACTGTAATACAAACAGGGGTACAAATGTGCACTCA
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACTCTAATACAAACAAGGGCACAAATGCGCACTCA
*
41871092 GGGGTA-TCGAAGTAC
66 AGGGTACT-GAAGTAC
* **
41871107 AAACAGGGGCACGTATATGCATTCAGGGGTAC-CTAAGTACAAACAAGGGCACGGATGCGCACTC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACTCTAA-TACAAACAAGGGCACAAATGCGCACTC
41871171 AAGGGTACTGAAGTAC
65 AAGGGTACTGAAGTAC
* *
41871187 AAACAAGGGCATGTATGTGCATTCA
1 AAACAGGGGCACGTATGTGCATTCA
41871212 TACGATAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 3 0.03
80 86 0.96
81 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (80 bp):
AAACAGGGGCACGTATGTGCATTCAGGGGTACTCTAATACAAACAAGGGCACAAATGCGCACTCA
AGGGTACTGAAGTAC
Found at i:41879577 original size:14 final size:14
Alignment explanation
Indices: 41879544--41879579 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
41879534 CAAGAAACTT
41879544 GTTTTC-AAACTAA
1 GTTTTCAAAACTAA
41879557 G-TTTCAAAACTAA
1 GTTTTCAAAACTAA
41879570 GTTTTCAAAA
1 GTTTTCAAAA
41879580 AACCCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 9 0.43
14 8 0.38
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (14 bp):
GTTTTCAAAACTAA
Found at i:41880478 original size:24 final size:25
Alignment explanation
Indices: 41880446--41880494 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
41880436 TTGGTCATAA
*
41880446 AGAGATTTGAGGAG-GGATATTTGG
1 AGAGATTTGAGGAGAGAATATTTGG
* *
41880470 AGAGGTTTGATGAGAGAATATTTGG
1 AGAGATTTGAGGAGAGAATATTTGG
41880495 TTTTGGGGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.39, T:0.31
Consensus pattern (25 bp):
AGAGATTTGAGGAGAGAATATTTGG
Found at i:41881149 original size:27 final size:27
Alignment explanation
Indices: 41881098--41881314 Score: 211
Period size: 27 Copynumber: 8.1 Consensus size: 27
41881088 TTACACTATT
* * * *
41881098 ATGACCAAAATACCTCCATACGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
41881125 ATTACCGAAATATCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * *
41881152 ATGATCGAAATACCCCTATA-AGAAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
41881178 ATGACCAAAATACCCCTACAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
41881205 ATGACTGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
** * *
41881232 ATGATTGAAATACCCCCACAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
41881259 ATGACCGAAGTACCCCCATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
41881286 ATGATCGAAACACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
41881313 AT
1 AT
41881315 TACTGTTATA
Statistics
Matches: 155, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 21 0.14
27 134 0.86
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.18
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:41881256 original size:107 final size:108
Alignment explanation
Indices: 41881105--41881319 Score: 252
Period size: 107 Copynumber: 2.0 Consensus size: 108
41881095 ATTATGACCA
* * * * * * *
41881105 AAATACCTCCATACGGTAGAATTACCGAAATATCCCTATAGGGTAAAATGATCGAAATACCCCTA
1 AAATACCCCCATACGGTAGAATGACCGAAATACCCCCACAGGGTAAAATGACCGAAATACCCCCA
* *
41881170 TAA-GAAAAATGACCAAAATACCCCTACAGGGTAAAATGACTG
66 TAAGGAAAAATGACCAAAACACCCCCACAGGGTAAAATGACTG
* ** * *
41881212 AAATACCCCCATAGGGTAGAATGATTGAAATACCCCCACAGGGTAGAATGACCGAAGTACCCCCA
1 AAATACCCCCATACGGTAGAATGACCGAAATACCCCCACAGGGTAAAATGACCGAAATACCCCCA
* * * * *
41881277 TAAGGTAAAATGATCGAAACACCCCCATAGGGTAAAATTACTG
66 TAAGGAAAAATGACCAAAACACCCCCACAGGGTAAAATGACTG
41881320 TTATATCCCT
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
107 56 0.64
108 32 0.36
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (108 bp):
AAATACCCCCATACGGTAGAATGACCGAAATACCCCCACAGGGTAAAATGACCGAAATACCCCCA
TAAGGAAAAATGACCAAAACACCCCCACAGGGTAAAATGACTG
Found at i:41886753 original size:27 final size:26
Alignment explanation
Indices: 41886722--41886776 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
41886712 CTATTATGAA
41886722 CATATAGGAAAATGGAAGCCTTTGTGG
1 CATATAGG-AAATGGAAGCCTTTGTGG
**
41886749 CATATCTGAAATGGAAGCCTTTGTGG
1 CATATAGGAAATGGAAGCCTTTGTGG
41886775 CA
1 CA
41886777 AATTTTGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (26 bp):
CATATAGGAAATGGAAGCCTTTGTGG
Found at i:41888971 original size:22 final size:22
Alignment explanation
Indices: 41888939--41888994 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
41888929 TACTGGTCAC
*
41888939 TATGCTACAACACGGAGGGTTG
1 TATGCTGCAACACGGAGGGTTG
*
41888961 TATGCTGCAACATGGAGGGTTG
1 TATGCTGCAACACGGAGGGTTG
* *
41888983 GATGCCGCAACA
1 TATGCTGCAACA
41888995 TAGGGAGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (22 bp):
TATGCTGCAACACGGAGGGTTG
Done.