Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 91 of 199
Found at i:25566893 original size:27 final size:27
Alignment explanation
Indices: 25566689--25566883 Score: 225
Period size: 27 Copynumber: 7.2 Consensus size: 27
25566679 AGAGGTAAAT
* * * *
25566689 AAATGACCAAAATACCCCCATAGAGTA
1 AAATGATCGAAATACCCCTATAGGGTA
* *
25566716 TAATGA-CTAAAATACCCCTATAGGGTA
1 AAATGATC-GAAATACCCCTATAGGGTA
*
25566743 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCTATAGGGTA
* * *
25566770 AAATGACCGAAATACCTCC-ATATGGTG
1 AAATGATCGAAATACC-CCTATAGGGTA
25566797 AAATGATCGAAATA-CCCTCATAGGGTA
1 AAATGATCGAAATACCCCT-ATAGGGTA
* * *
25566824 AAATAATCAAAATACCCCTATAGGGTT
1 AAATGATCGAAATACCCCTATAGGGTA
25566851 AAATGATCGAAATACCCCTATAGGGTA
1 AAATGATCGAAATACCCCTATAGGGTA
25566878 AAATGA
1 AAATGA
25566884 ATGTTATACC
Statistics
Matches: 144, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 133 0.92
28 7 0.05
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (27 bp):
AAATGATCGAAATACCCCTATAGGGTA
Found at i:25566909 original size:54 final size:52
Alignment explanation
Indices: 25566689--25566910 Score: 187
Period size: 54 Copynumber: 4.1 Consensus size: 52
25566679 AGAGGTAAAT
* * * * * * * *
25566689 AAATGACCAAAATACCCCCATAGAGTATAATGACTAAAATACCCCTATAGGGTA
1 AAATGATCGAAATACCCCTATAGGGTAAAATGAATGAAATA--CCTATAGGGTG
* ** *
25566743 AAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCTCCATATGGTG
1 AAATGATCGAAATACCCCTATAGGGTAAAATGAATGAAATACCT--ATAGGGTG
* *
25566797 AAATGATCGAAATA-CCCTCATAGGGTAAAAT-AATCAAAATACCCCTATAGGGTT
1 AAATGATCGAAATACCCCT-ATAGGGTAAAATGAAT-GAAATA--CCTATAGGGTG
** *
25566851 AAATGATCGAAATACCCCTATAGGGTAAAATGAATGTTATACCTTTAGGAGATG
1 AAATGATCGAAATACCCCTATAGGGTAAAATGAATGAAATACCTATAGG-G-TG
25566905 AAATGA
1 AAATGA
25566911 CTGTTATGGC
Statistics
Matches: 139, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
52 10 0.07
53 5 0.04
54 114 0.82
55 7 0.05
56 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (52 bp):
AAATGATCGAAATACCCCTATAGGGTAAAATGAATGAAATACCTATAGGGTG
Found at i:25567104 original size:26 final size:26
Alignment explanation
Indices: 25567075--25567128 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
25567065 TTGCCACATT
* *
25567075 TACTGTTACTAGCAGCTTCGCTGTGA
1 TACTATTACTAGCAGCTTCGCTGCGA
* * *
25567101 TACTATTACTGGCGGCTTTGCTGCGA
1 TACTATTACTAGCAGCTTCGCTGCGA
25567127 TA
1 TA
25567129 TTGGTGTGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (26 bp):
TACTATTACTAGCAGCTTCGCTGCGA
Found at i:25567316 original size:28 final size:28
Alignment explanation
Indices: 25567231--25567317 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
25567221 ATTGCACTGT
* * *
25567231 ACTGATACTGTATTGGGCTAAGGCCCAA
1 ACTGTTACAGTATTGGGCTAAGGCCCAC
* * *
25567259 ACTGTTACAGCATTGGGCTCAGGCCTAC
1 ACTGTTACAGTATTGGGCTAAGGCCCAC
*
25567287 ACTGTTACAGTATTGGGCTTAGGCCCAC
1 ACTGTTACAGTATTGGGCTAAGGCCCAC
25567315 ACT
1 ACT
25567318 ATATTGTTAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (28 bp):
ACTGTTACAGTATTGGGCTAAGGCCCAC
Found at i:25569168 original size:27 final size:26
Alignment explanation
Indices: 25569105--25569193 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
25569095 TAAGGGATTT
* * * *
25569105 TCCTTCAGAGTTCATCATACATACTA
1 TCCTTCAGTGTCCACCACACATACTA
*
25569131 TCTCTTTAGTGTCCACCACACATACTA
1 TC-CTTCAGTGTCCACCACACATACTA
*
25569158 TCACTTCAGTGTTCACCACACATACTA
1 TC-CTTCAGTGTCCACCACACATACTA
25569185 TTCCTTCAG
1 -TCCTTCAG
25569194 AGTTTGTCGG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.04
27 49 0.92
28 2 0.04
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (26 bp):
TCCTTCAGTGTCCACCACACATACTA
Found at i:25575722 original size:13 final size:13
Alignment explanation
Indices: 25575704--25575728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25575694 TTTTTGTGTT
25575704 TTTTTCTTTCATG
1 TTTTTCTTTCATG
25575717 TTTTTCTTTCAT
1 TTTTTCTTTCAT
25575729 AGCGAAATTC
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:0.08, C:0.16, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTTCTTTCATG
Found at i:25577141 original size:68 final size:68
Alignment explanation
Indices: 25577061--25577203 Score: 198
Period size: 68 Copynumber: 2.1 Consensus size: 68
25577051 AATATTATTT
* * * *
25577061 TAATATATTTAATATTAAATTAAATTTAATAATTATCTTGAT-AGTATTTTATTAATTTAATATT
1 TAAT-TATTTAATATTAAATTAAATCTAATAATTATCGTGATAAGTATTATACTAATTTAATATT
25577125 AAAG
65 AAAG
* *
25577129 TAATTATCTTAATATTAAATTTAATCTAATATTTATCGTGATAAGTATTATACTAATTTAATATT
1 TAATTAT-TTAATATTAAATTAAATCTAATAATTATCGTGATAAGTATTATACTAATTTAATATT
25577194 AAAG
65 AAAG
*
25577198 TGATTA
1 TAATTA
25577204 AGTTTAATCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
67 3 0.05
68 34 0.52
69 29 0.44
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (68 bp):
TAATTATTTAATATTAAATTAAATCTAATAATTATCGTGATAAGTATTATACTAATTTAATATTA
AAG
Found at i:25578739 original size:192 final size:194
Alignment explanation
Indices: 25578401--25578966 Score: 511
Period size: 194 Copynumber: 2.9 Consensus size: 194
25578391 TGTGGACTAG
* *
25578401 AAGATACATGTGACACAAGTTTAGCCTGCGCTGGTAACCTGATGTCGTTTTAAAGGTTTAACTCA
1 AAGATACATGTGACACAAGTTTAGCCTGCGCTGGAAACCTGATGTCGTTTTAAAGGTTTAACCCA
* * * * * * *
25578466 GACGAGTAACCTAACATGTATATATTTAGCTTGGACAAGCAATCAGATGTGTCGTTATAAAGATT
66 GAAGAGTAACCTAACATGTATATATTCAACTTAGACAAGCAATAAAATATGTCGTTATAAAGATT
* * *
25578531 TAGGCTAGACTGGTAACCTGACAC-AA-ATATATATTCAACTCAGACGAGCAA-TTGTTGTATTA
131 TAGCCTAGACTGGTAACCTGACACAAATATATATATTCAACTCAGACGAGCAAGTAG-TGTATCA
* * * * *
25578593 AAGATACATGTGACACTTA-TTTAGCCTG-GACTGGAAACTTGTTGTGGTTTTAAAGGTTTAGCC
1 AAGATACATGTGACAC-AAGTTTAGCCTGCG-CTGGAAACCTGATGTCGTTTTAAAGGTTTAACC
* * * * **
25578656 CGGATAG-GTAACTTGACATGTATATATTCAACTTAGACAAGTAATAAAATATGTTTTTATAAAG
64 CAGA-AGAGTAACCTAACATGTATATATTCAACTTAGACAAGCAATAAAATATGTCGTTATAAAG
* * * *
25578720 GTTTAGCCTGGATTGGTAACCTGACACAAATATATATATTCAACTCGGACGAGCAAGTAGTGTAT
128 ATTTAGCCTAGACTGGTAACCTGACACAAATATATATATTCAACTCAGACGAGCAAGTAGTGTAT
25578785 CA
193 CA
* * * * * * * * * ** *
25578787 AAGATATATGTAACTCAAGTTTAGCTTAG-ACTGGTAACCTAATGCCATTTTAAACCTTTAGCCC
1 AAGATACATGTGACACAAGTTTAGCCT-GCGCTGGAAACCTGATGTCGTTTTAAAGGTTTAACCC
* * ** * *** * * *
25578851 AGATGAGTAACCTGACATGTATATATTCGGCTTACACAAGCAATCGGATGTGCCATTATAAA-AG
65 AGAAGAGTAACCTAACATGTATATATTCAACTTAGACAAGCAATAAAATATGTCGTTATAAAGA-
* * ** *
25578915 TTAAG-CTTGTACTACTAACCTGACACAAATATATATATTCAGCTCAGACGAG
129 TTTAGCCTAG-ACTGGTAACCTGACACAAATATATATATTCAACTCAGACGAG
25578967 AAATTGTTGT
Statistics
Matches: 299, Mismatches: 64, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
191 1 0.00
192 124 0.41
193 9 0.03
194 162 0.54
195 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (194 bp):
AAGATACATGTGACACAAGTTTAGCCTGCGCTGGAAACCTGATGTCGTTTTAAAGGTTTAACCCA
GAAGAGTAACCTAACATGTATATATTCAACTTAGACAAGCAATAAAATATGTCGTTATAAAGATT
TAGCCTAGACTGGTAACCTGACACAAATATATATATTCAACTCAGACGAGCAAGTAGTGTATCA
Found at i:25596379 original size:21 final size:21
Alignment explanation
Indices: 25596299--25596380 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 21
25596289 ACAAAACAGC
*
25596299 AGTTTCTCCCTTCCTTCTTGCT
1 AGTTTCTCCCTT-CTTTTTGCT
* *
25596321 GGTTTCTCCCTTGTTCTTT-CT
1 AGTTTCTCCCTTCTT-TTTGCT
* *
25596342 AGTTTGT-CCATCGTTTTTGCT
1 AGTTTCTCCCTTC-TTTTTGCT
*
25596363 AGTTTCTCCCCTCTTTTT
1 AGTTTCTCCCTTCTTTTT
25596381 TGCTTTGTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
20 6 0.13
21 24 0.51
22 17 0.36
ACGTcount: A:0.05, C:0.29, G:0.12, T:0.54
Consensus pattern (21 bp):
AGTTTCTCCCTTCTTTTTGCT
Found at i:25596383 original size:22 final size:22
Alignment explanation
Indices: 25596299--25596384 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 22
25596289 ACAAAACAGC
* *
25596299 AGTTTCTCCCTTCCTTCTTGCT
1 AGTTTCTCCCTTCTTTTTTGCT
* * *
25596321 GGTTTCTCCCTTGTTCTTT-CT
1 AGTTTCTCCCTTCTTTTTTGCT
* * *
25596342 AGTTTGT-CCATCGTTTTTGCT
1 AGTTTCTCCCTTCTTTTTTGCT
*
25596363 AGTTTCTCCCCTCTTTTTTGCT
1 AGTTTCTCCCTTCTTTTTTGCT
25596385 TTGTTCTTGG
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 7 0.15
21 15 0.31
22 26 0.54
ACGTcount: A:0.05, C:0.29, G:0.13, T:0.53
Consensus pattern (22 bp):
AGTTTCTCCCTTCTTTTTTGCT
Found at i:25598993 original size:29 final size:29
Alignment explanation
Indices: 25598929--25599144 Score: 369
Period size: 29 Copynumber: 7.3 Consensus size: 29
25598919 GGTTTTGACA
25598929 TAGTGTATTTTAAAAATAAAAAATATATATG
1 TAGTGTATTTTAAAAAT-AAAAA-ATATATG
*
25598960 CAGTGTATTTTAAAAATAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATG
25598989 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAAT-AAAAAATATATG
*
25599019 TAGTGCATTTTAAAAATAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATG
*
25599048 TAGTGTATTTTAAAAATAAAAACTATATG
1 TAGTGTATTTTAAAAATAAAAAATATATG
25599077 TAGTGTATTTTAAAAATAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATG
25599106 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAAT-AAAAAATATATG
25599136 TAGTGTATT
1 TAGTGTATT
25599145 CGGTTTATTC
Statistics
Matches: 177, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
29 107 0.60
30 54 0.31
31 16 0.09
ACGTcount: A:0.50, C:0.01, G:0.11, T:0.38
Consensus pattern (29 bp):
TAGTGTATTTTAAAAATAAAAAATATATG
Found at i:25599029 original size:59 final size:59
Alignment explanation
Indices: 25598929--25599144 Score: 389
Period size: 59 Copynumber: 3.7 Consensus size: 59
25598919 GGTTTTGACA
*
25598929 TAGTGTATTTTAAAAATAAAAAATATATATGCAGTGTATTTTAAAAATAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAA-ATATATGTAGTGTATTTTAAAAATAAAAAATATATG
*
25598989 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGCATTTTAAAAATAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATG
*
25599048 TAGTGTATTTTAAAAAT-AAAAACTATATGTAGTGTATTTTAAAAATAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATG
25599106 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATT
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATT
25599145 CGGTTTATTC
Statistics
Matches: 150, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
58 56 0.37
59 71 0.47
60 23 0.15
ACGTcount: A:0.50, C:0.01, G:0.11, T:0.38
Consensus pattern (59 bp):
TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATG
Found at i:25599063 original size:88 final size:88
Alignment explanation
Indices: 25598929--25599144 Score: 380
Period size: 88 Copynumber: 2.4 Consensus size: 88
25598919 GGTTTTGACA
*
25598929 TAGTGTATTTTAAAAATAAAAAATATATATGCAGTGTATTTTAAAAATAAAAAATATATGTAGTG
1 TAGTGTATTTTAAAAATAAAAAA-ATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTG
25598994 TATTTTAAAAATAAAAAAATATATG
65 TATTTTAAAAAT-AAAAAATATATG
* *
25599019 TAGTGCATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAACTATATGTAGTGT
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGT
25599083 ATTTTAAAAATAAAAAATATATG
66 ATTTTAAAAATAAAAAATATATG
25599106 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATT
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATT
25599145 CGGTTTATTC
Statistics
Matches: 121, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
87 28 0.23
88 72 0.60
89 5 0.04
90 16 0.13
ACGTcount: A:0.50, C:0.01, G:0.11, T:0.38
Consensus pattern (88 bp):
TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGT
ATTTTAAAAATAAAAAATATATG
Found at i:25599497 original size:39 final size:39
Alignment explanation
Indices: 25599454--25599534 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
25599444 ACTAAAGTGA
25599454 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
25599493 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
25599532 AAA
1 AAA
25599535 TCGATTGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (39 bp):
AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
Found at i:25603107 original size:21 final size:21
Alignment explanation
Indices: 25603083--25603135 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
25603073 CATTGTTTCT
*
25603083 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
25603104 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
25603125 AATCTCACCGC
1 AATCTCACCGC
25603136 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:25606146 original size:11 final size:11
Alignment explanation
Indices: 25606116--25606149 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25606106 GTCCTCAAGC
*
25606116 AAACAAAACAA
1 AAACAAAAGAA
*
25606127 AAACAAAAGTA
1 AAACAAAAGAA
25606138 AAACAAAAGAA
1 AAACAAAAGAA
25606149 A
1 A
25606150 CTAGAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.79, C:0.12, G:0.06, T:0.03
Consensus pattern (11 bp):
AAACAAAAGAA
Found at i:25617338 original size:22 final size:22
Alignment explanation
Indices: 25617313--25617358 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
25617303 GTTATAAACC
* *
25617313 ATAATCAGGATGGCATAGAGCT
1 ATAATCAGGATGGCACAAAGCT
**
25617335 ATAATTGGGATGGCACAAAGCT
1 ATAATCAGGATGGCACAAAGCT
25617357 AT
1 AT
25617359 TGGTAGCTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (22 bp):
ATAATCAGGATGGCACAAAGCT
Found at i:25621627 original size:22 final size:22
Alignment explanation
Indices: 25621602--25621647 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
25621592 GTTATAAACC
25621602 ATAATCAGGATGGCACAAAGCT
1 ATAATCAGGATGGCACAAAGCT
*
25621624 ATAATCGGGATGGCACAAAGCT
1 ATAATCAGGATGGCACAAAGCT
25621646 AT
1 AT
25621648 CGGTAACTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (22 bp):
ATAATCAGGATGGCACAAAGCT
Found at i:25621815 original size:22 final size:22
Alignment explanation
Indices: 25621785--25621841 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
25621775 CGATTGGGAT
25621785 AAAGCCATAATCAAGATGGCAC
1 AAAGCCATAATCAAGATGGCAC
* * * * *
25621807 AGAGCCATATTTAGGTTGGCAC
1 AAAGCCATAATCAAGATGGCAC
25621829 AAAGCCATAATCA
1 AAAGCCATAATCA
25621842 GATTACGCGG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (22 bp):
AAAGCCATAATCAAGATGGCAC
Found at i:25627299 original size:10 final size:12
Alignment explanation
Indices: 25627276--25627307 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
25627266 TATGAACTTA
25627276 CTGTTTCATTAC
1 CTGTTTCATTAC
25627288 CT-TTTC-TTAC
1 CTGTTTCATTAC
25627298 CTGTTTCATT
1 CTGTTTCATT
25627308 TGCATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.33
11 8 0.44
12 4 0.22
ACGTcount: A:0.12, C:0.25, G:0.06, T:0.56
Consensus pattern (12 bp):
CTGTTTCATTAC
Found at i:25628155 original size:137 final size:138
Alignment explanation
Indices: 25627908--25628162 Score: 302
Period size: 137 Copynumber: 1.9 Consensus size: 138
25627898 AACCATAAAA
* * *
25627908 TGGGTCTGCTCACACAAGCTAGCGATTGGAATGTAAACTATATGATGCTACTCACACAAGCTAAC
1 TGGGTCTGCTCACACAAGCTAGCGATTAGAATGTAAACTACACGATGCTACTCACACAAGCTAAC
* ** *
25627973 GAGTATCCATAACAAATGTTGGAACTCAGCCACCAGTAAGACATTCAGGACCAACAATCGAAACA
66 GAGTATCCATAAAAAATGTCAGAACTCAGCCACCAGTAAGACATTCAAGACCAACAATCGAAACA
25628038 TAGTAACC
131 TAGTAACC
** * *
25628046 TGGGTCTGCTCACACAAGCTGATG-G-TTAGAATGTAAGTTACACGAT-CTGCTCACACAAGCTG
1 TGGGTCTGCTCACACAAGCT-A-GCGATTAGAATGTAAACTACACGATGCTACTCACACAAGCTA
* * * * * *
25628108 ATGAGTATTCGTAAAAAATGTCAGACCTCAGCCATCGGT-AGAACATTCAAGACCA
64 ACGAGTATCCATAAAAAATGTCAGAACTCAGCCACCAGTAAG-ACATTCAAGACCA
25628163 GCACCCGAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
136 2 0.02
137 56 0.58
138 36 0.37
139 2 0.02
140 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (138 bp):
TGGGTCTGCTCACACAAGCTAGCGATTAGAATGTAAACTACACGATGCTACTCACACAAGCTAAC
GAGTATCCATAAAAAATGTCAGAACTCAGCCACCAGTAAGACATTCAAGACCAACAATCGAAACA
TAGTAACC
Found at i:25631819 original size:10 final size:10
Alignment explanation
Indices: 25631803--25631841 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
25631793 AAGAAATTGG
25631803 CTTTGTTTCA
1 CTTTGTTTCA
* *
25631813 TTTTGTTTTTA
1 CTTTG-TTTCA
25631824 CTTTGTTTCA
1 CTTTGTTTCA
25631834 CTTTGTTT
1 CTTTGTTT
25631842 TTACTTTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.08, C:0.13, G:0.10, T:0.69
Consensus pattern (10 bp):
CTTTGTTTCA
Found at i:25631829 original size:21 final size:21
Alignment explanation
Indices: 25631803--25631848 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
25631793 AAGAAATTGG
*
25631803 CTTTGTTTCATTTTGTTTTTA
1 CTTTGTTTCACTTTGTTTTTA
25631824 CTTTGTTTCACTTTGTTTTTA
1 CTTTGTTTCACTTTGTTTTTA
25631845 CTTT
1 CTTT
25631849 TGTGATTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.13, G:0.09, T:0.70
Consensus pattern (21 bp):
CTTTGTTTCACTTTGTTTTTA
Found at i:25631830 original size:11 final size:11
Alignment explanation
Indices: 25631814--25631848 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
25631804 TTTGTTTCAT
25631814 TTTGTTTTTAC
1 TTTGTTTTTAC
*
25631825 TTTG-TTTCAC
1 TTTGTTTTTAC
25631835 TTTGTTTTTAC
1 TTTGTTTTTAC
25631846 TTT
1 TTT
25631849 TGTGATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.71
Consensus pattern (11 bp):
TTTGTTTTTAC
Found at i:25631899 original size:10 final size:10
Alignment explanation
Indices: 25631886--25631922 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
25631876 AAAATTAGCT
25631886 TAATTAACTA
1 TAATTAACTA
25631896 TAATTAACTA
1 TAATTAACTA
* *
25631906 AAATTAATTA
1 TAATTAACTA
25631916 TAATTAA
1 TAATTAA
25631923 AAAATTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATTAACTA
Found at i:25633066 original size:16 final size:16
Alignment explanation
Indices: 25633042--25633076 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25633032 GGTTGGAGGG
*
25633042 AATGAAATAGGGTTGT
1 AATGAAATAGAGTTGT
*
25633058 AATGGAATAGAGTTGT
1 AATGAAATAGAGTTGT
25633074 AAT
1 AAT
25633077 CAGTAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (16 bp):
AATGAAATAGAGTTGT
Found at i:25633145 original size:44 final size:46
Alignment explanation
Indices: 25633058--25633146 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 46
25633048 ATAGGGTTGT
* *
25633058 AATGGAATAGAGTTGTAATCAGTAATTCATTTGTTTGATTGAATGG
1 AATGGAATAGAGCTATAATCAGTAATTCATTTGTTTGATTGAATGG
* *
25633104 AATGGAATAGAGCTATAAT-AG-CATTC-TTGTGTTTGGTTGAATG
1 AATGGAATAGAGCTATAATCAGTAATTCATT-TGTTTGATTGAATG
25633147 AAATAAAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 17 0.45
45 2 0.05
46 17 0.45
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGCTATAATCAGTAATTCATTTGTTTGATTGAATGG
Found at i:25633312 original size:56 final size:59
Alignment explanation
Indices: 25633252--25633415 Score: 176
Period size: 63 Copynumber: 2.7 Consensus size: 59
25633242 AATAGGATTT
*
25633252 TTATTAAATATAATTTAATAAATAAT-A-A-ATAATTTA-ATCATACTTTAATATAATTA
1 TTATTAAATATAATTTAATAAATAATAATATATAATTTAGAACATAC-TTAATATAATTA
* *
25633308 TTATTAAATATAATTTGATAAAGATAATAATATATAATTTAGTAACATTCTTAATATAATTA
1 TTATTAAATATAATTTAAT-AA-ATAATAATATATAATTTAG-AACATACTTAATATAATTA
*
25633370 TTATTAAAATATGAA-TTAATAAAAATCATAATATATAATATTAGAA
1 TTATT-AAATAT-AATTTAAT--AAATAATAATATATAAT-TTAGAA
25633416 AAATAATATA
Statistics
Matches: 92, Mismatches: 5, Indels: 15
0.82 0.04 0.13
Matches are distributed among these distances:
56 18 0.20
57 2 0.02
58 5 0.05
59 1 0.01
60 1 0.01
61 8 0.09
62 17 0.18
63 31 0.34
64 9 0.10
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (59 bp):
TTATTAAATATAATTTAATAAATAATAATATATAATTTAGAACATACTTAATATAATTA
Found at i:25633522 original size:15 final size:16
Alignment explanation
Indices: 25633502--25633537 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25633492 TAATTTAATT
25633502 ATCTT-CTATAAATGA
1 ATCTTCCTATAAATGA
*
25633517 ATCTTCCTATAAATTA
1 ATCTTCCTATAAATGA
25633533 ATCTT
1 ATCTT
25633538 AATTTTGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (16 bp):
ATCTTCCTATAAATGA
Found at i:25634521 original size:146 final size:146
Alignment explanation
Indices: 25634351--25634644 Score: 588
Period size: 146 Copynumber: 2.0 Consensus size: 146
25634341 GTTTCACTTA
25634351 ACTATCAAATTAGGATATTTTTTTACTTCAAAACTCATTACCATGAATGAACATTGAAAACCAAA
1 ACTATCAAATTAGGATATTTTTTTACTTCAAAACTCATTACCATGAATGAACATTGAAAACCAAA
25634416 TAATCATAACCTAAACTGAACTAAACAACTATTTTATTACTTTCTTTTAACAAAAAAAATTATAA
66 TAATCATAACCTAAACTGAACTAAACAACTATTTTATTACTTTCTTTTAACAAAAAAAATTATAA
25634481 TTCAATTAAGATAAAG
131 TTCAATTAAGATAAAG
25634497 ACTATCAAATTAGGATATTTTTTTACTTCAAAACTCATTACCATGAATGAACATTGAAAACCAAA
1 ACTATCAAATTAGGATATTTTTTTACTTCAAAACTCATTACCATGAATGAACATTGAAAACCAAA
25634562 TAATCATAACCTAAACTGAACTAAACAACTATTTTATTACTTTCTTTTAACAAAAAAAATTATAA
66 TAATCATAACCTAAACTGAACTAAACAACTATTTTATTACTTTCTTTTAACAAAAAAAATTATAA
25634627 TTCAATTAAGATAAAG
131 TTCAATTAAGATAAAG
25634643 AC
1 AC
25634645 AAGGTCTTGG
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 148 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (146 bp):
ACTATCAAATTAGGATATTTTTTTACTTCAAAACTCATTACCATGAATGAACATTGAAAACCAAA
TAATCATAACCTAAACTGAACTAAACAACTATTTTATTACTTTCTTTTAACAAAAAAAATTATAA
TTCAATTAAGATAAAG
Found at i:25641362 original size:12 final size:12
Alignment explanation
Indices: 25641323--25641354 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
25641313 TATATATATA
25641323 TATTATTTTACT
1 TATTATTTTACT
*
25641335 TAATATTTTACT
1 TATTATTTTACT
25641347 TATTATTT
1 TATTATTT
25641355 GTATTATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTATTTTACT
Found at i:25642369 original size:21 final size:22
Alignment explanation
Indices: 25642345--25642387 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
25642335 CGTGAACCAG
* *
25642345 AATCATTTTTTAATAA-AATCA
1 AATCATTTATTAAAAATAATCA
*
25642366 AATCGTTTATTAAAAATAATCA
1 AATCATTTATTAAAAATAATCA
25642388 TTTTACGAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (22 bp):
AATCATTTATTAAAAATAATCA
Found at i:25647571 original size:31 final size:31
Alignment explanation
Indices: 25647505--25647575 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
25647495 AATAATCCAG
* **
25647505 TGACTTAAATAAAAACTTTTAAATAGCTCGG
1 TGACTTAAATAAAAACTTTCAAATAGCTCAA
* *
25647536 TGACTTAAATGAAAACTTTCAAATAGTTCAA
1 TGACTTAAATAAAAACTTTCAAATAGCTCAA
25647567 TGAC-TAAAT
1 TGACTTAAAT
25647576 TATAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 5 0.14
31 30 0.86
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGCTCAA
Found at i:25652326 original size:12 final size:12
Alignment explanation
Indices: 25652300--25652338 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25652290 TGCTTCTTCT
* *
25652300 TTACTTACTTTC
1 TTACTTGCTTAC
*
25652312 TTACTTGTTTAC
1 TTACTTGCTTAC
25652324 TTACTTGCTTAC
1 TTACTTGCTTAC
25652336 TTA
1 TTA
25652339 AATAATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.05, T:0.56
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:25654620 original size:30 final size:29
Alignment explanation
Indices: 25654570--25654627 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
25654560 GGTAGGCTTG
* *
25654570 CACTCTGCTTTCTGTCTTCAACAGGCTCA
1 CACTCTGCTTACTATCTTCAACAGGCTCA
25654599 CACTCTAGCTTACTATCTTCAACAGGCTC
1 CACTCT-GCTTACTATCTTCAACAGGCTC
25654628 GCACCTTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (29 bp):
CACTCTGCTTACTATCTTCAACAGGCTCA
Found at i:25658365 original size:49 final size:50
Alignment explanation
Indices: 25658303--25658481 Score: 195
Period size: 50 Copynumber: 3.6 Consensus size: 50
25658293 TCATTCGATA
* * * *
25658303 CACGTAGTAGCCTTCACATAGTACTATACACGTGATC-AGTTTTACAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGCTTTACAACT
*
25658352 CACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGCTTTACGACT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGCTTTACAACT
* ** ***
25658402 CACGTAGTAGCCTTCAC-TCAGTACTACATACGTGCTCAAGCTTCTTAGTTCT
1 CACGTAGTAGCCTTCACAT-AGTACTACACACGTGAACAAGC-T-TTACAACT
*
25658454 CA--TAGTAGCCTTCACTTAGTACTACACA
1 CACGTAGTAGCCTTCACATAGTACTACACA
25658482 TATAACTATA
Statistics
Matches: 113, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
49 36 0.32
50 68 0.60
51 2 0.02
52 7 0.06
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGCTTTACAACT
Found at i:25658418 original size:50 final size:50
Alignment explanation
Indices: 25658303--25658638 Score: 228
Period size: 51 Copynumber: 6.7 Consensus size: 50
25658293 TCATTCGATA
* * * *
25658303 CACGTAGTAGCCTTCACATAGTACTATACACGTGATC-AGTTTTACAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGCTTTACGACT
*
25658352 CACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGCTTTACGACT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGCTTTACGACT
* * *
25658402 CACGTAGTAGCCTTCAC-TCAGTACTACATACGTGCTCAAGCTTCTTA-GTTCT
1 CACGTAGTAGCCTTCACAT-AGTACTACACACGTGATCAAGC-T-TTACG-ACT
* ** * **
25658454 CA--TAGTAGCCTTCACTTAGTACTACACATAT-AACTATAG-TTTACCGAGA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-A-AGCTTTA-CGACT
* * * * * *
25658503 CACGTGGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTCT-TG-GT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGCTT-TACGACT
* * * * *
25658553 GCACATAGTAGCCTTCACTTAGTACCACACATGTGACCATTA-C-TTATCGA-T
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATCA--AGCTTTA-CGACT
*
25658604 ACACATAGTAGCCTTCACATAGTACTACACACGTG
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTG
25658639 TTCATCGATA
Statistics
Matches: 224, Mismatches: 42, Indels: 40
0.73 0.14 0.13
Matches are distributed among these distances:
48 3 0.01
49 41 0.18
50 74 0.33
51 93 0.42
52 12 0.05
53 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGCTTTACGACT
Found at i:25658583 original size:102 final size:101
Alignment explanation
Indices: 25658402--25658638 Score: 305
Period size: 102 Copynumber: 2.3 Consensus size: 101
25658392 CTTTACGACT
* * * *
25658402 CACGTAGTAGCCTTCACTCAGTACTACATACGTGCTCAAGCTTCTTAGTTCTCATAGTAGCCTTC
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAGCTTCTTAGTGCACATAGTAGCCTTC
* * *
25658467 ACTTAGTACTACACATATAACTA-TAGTTTACCGAGA
66 ACTTAGTACCACACATATAACCATTA-CTTACCGAGA
* * *
25658503 CACGTGGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTCTTGGTGCACATAGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGCTC-AAGCTTCTTAGTGCACATAGTAGCCTT
* * * *
25658568 CACTTAGTACCACACATGTGACCATTACTTATCGATA
65 CACTTAGTACCACACATATAACCATTACTTACCGAGA
* *
25658605 CACATAGTAGCCTTCACATAGTACTACACACGTG
1 CACGTAGTAGCCTTCACACAGTACTACACACGTG
25658639 TTCATCGATA
Statistics
Matches: 116, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
101 33 0.28
102 81 0.70
103 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (101 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAGCTTCTTAGTGCACATAGTAGCCTTC
ACTTAGTACCACACATATAACCATTACTTACCGAGA
Found at i:25658634 original size:26 final size:26
Alignment explanation
Indices: 25658554--25658634 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
25658544 CTTCTTGGTG
*
25658554 CACATAGTAGCCTTCACTTAGTACCA
1 CACATAGTAGCCTTCACTTAGTACTA
25658580 CACAT-GT-GACCATT-ACTTA-T-CGATA
1 CACATAGTAG-CC-TTCACTTAGTAC--TA
*
25658605 CACATAGTAGCCTTCACATAGTACTA
1 CACATAGTAGCCTTCACTTAGTACTA
25658631 CACA
1 CACA
25658635 CGTGTTCATC
Statistics
Matches: 44, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 17 0.39
26 21 0.48
27 2 0.05
28 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.27
Consensus pattern (26 bp):
CACATAGTAGCCTTCACTTAGTACTA
Found at i:25670241 original size:17 final size:18
Alignment explanation
Indices: 25670216--25670252 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
25670206 AATTTTCTAT
25670216 TCTATTCAAT-TT-AATC
1 TCTATTCAATATTCAATC
25670232 TCTATCTCAATATTCAATC
1 TCTAT-TCAATATTCAATC
25670251 TC
1 TC
25670253 AACCAAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 2 0.11
19 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
TCTATTCAATATTCAATC
Found at i:25672514 original size:44 final size:43
Alignment explanation
Indices: 25672466--25672561 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
25672456 CACTAAAGTA
* * * *
25672466 CATCATCATATAAAATCGAAGTAGGTAAATTGTCACACACAGTG
1 CATCATCA-AGAAAATCAAAGTAGGGAAATTGACACACACAGTG
* * *
25672510 CATCATCAGGCAAATCAAAGTAGGGAAATTGACACACATAGTG
1 CATCATCAAGAAAATCAAAGTAGGGAAATTGACACACACAGTG
25672553 CATCATCAA
1 CATCATCAA
25672562 ACAAACGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 36 0.82
44 8 0.18
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (43 bp):
CATCATCAAGAAAATCAAAGTAGGGAAATTGACACACACAGTG
Found at i:25672574 original size:43 final size:43
Alignment explanation
Indices: 25672478--25672580 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
25672468 TCATCATATA
* * **
25672478 AAATCGAAGTAGGTAAATTGTCACACACAGTGCATCATCAGGC
1 AAATCGAAGTAGGGAAATTGACACACACAGTGCATCATCAAAC
* *
25672521 AAATCAAAGTAGGGAAATTGACACACATAGTGCATCATCAAAC
1 AAATCGAAGTAGGGAAATTGACACACACAGTGCATCATCAAAC
25672564 AAA-CGGAAGTAGGGAAA
1 AAATC-GAAGTAGGGAAA
25672581 CTGGTACATG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (43 bp):
AAATCGAAGTAGGGAAATTGACACACACAGTGCATCATCAAAC
Found at i:25683457 original size:44 final size:44
Alignment explanation
Indices: 25683402--25683489 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
25683392 AACATGATCA
25683402 TCACAAGTGAATACATCCATAAACGGATTCAGGATCTTGTAACG
1 TCACAAGTGAATACATCCATAAACGGATTCAGGATCTTGTAACG
* * *
25683446 TCACGAGTGAATACATCCATAAATGGATTTAGGATCTTGTAACG
1 TCACAAGTGAATACATCCATAAACGGATTCAGGATCTTGTAACG
25683490 CCCTGATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (44 bp):
TCACAAGTGAATACATCCATAAACGGATTCAGGATCTTGTAACG
Found at i:25689303 original size:55 final size:55
Alignment explanation
Indices: 25689213--25689348 Score: 226
Period size: 55 Copynumber: 2.5 Consensus size: 55
25689203 ACATAAAAAG
*
25689213 ATATATGAGTATG--TATATATATGTCTATTAAAATCATAAAGTATAAAAAGTAT
1 ATATATGAGTATGTATATATATATGTTTATTAAAATCATAAAGTATAAAAAGTAT
25689266 ATATATGAGTATGTATATATATATGTTTATTAAAATCATAAAGTATAAAAAGTAT
1 ATATATGAGTATGTATATATATATGTTTATTAAAATCATAAAGTATAAAAAGTAT
*
25689321 ATATATGAGTATGTAT-TA-ATGTGTTTAT
1 ATATATGAGTATGTATATATATATGTTTAT
25689349 GAAGATGAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
53 22 0.28
54 2 0.03
55 55 0.70
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.41
Consensus pattern (55 bp):
ATATATGAGTATGTATATATATATGTTTATTAAAATCATAAAGTATAAAAAGTAT
Found at i:25689418 original size:20 final size:20
Alignment explanation
Indices: 25689381--25689418 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25689371 ATATATATAG
*
25689381 ATATGTAAACAAATTATAAA
1 ATATGTAAACAAAATATAAA
25689401 ATATGTATAA-AAAATATA
1 ATATGTA-AACAAAATATA
25689419 TGAGTACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (20 bp):
ATATGTAAACAAAATATAAA
Found at i:25689696 original size:18 final size:18
Alignment explanation
Indices: 25689675--25689714 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25689665 TAAACAATAG
* *
25689675 TAATAACAGTATTAAACA
1 TAATAACAGTAGTAAAAA
*
25689693 TAATAATAGTAGTAAAAA
1 TAATAACAGTAGTAAAAA
25689711 TAAT
1 TAAT
25689715 GATAACATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (18 bp):
TAATAACAGTAGTAAAAA
Found at i:25690558 original size:23 final size:23
Alignment explanation
Indices: 25690523--25691100 Score: 500
Period size: 23 Copynumber: 25.9 Consensus size: 23
25690513 TAGGGTTTTT
*
25690523 AGGGTTTATGGTTTTTAA-TTAA
1 AGGGTTTAGGGTTTTTAAGTTAA
** *
25690545 ATTTGTTTCGGGTTTTTAAGTT-A
1 A-GGGTTTAGGGTTTTTAAGTTAA
* *
25690568 AGGGTTTAGGGTTTTTAATTTTA
1 AGGGTTTAGGGTTTTTAAGTTAA
*
25690591 AGGGTTTAAGGTTTTTAA-TTAA
1 AGGGTTTAGGGTTTTTAAGTTAA
**
25690613 ATTAGTTTAGGGTTTTTAAGTTAA
1 A-GGGTTTAGGGTTTTTAAGTTAA
* * *
25690637 A-GGCTTAGGGTTTTTAATTTTA
1 AGGGTTTAGGGTTTTTAAGTTAA
*
25690659 AGGGCTTAGGGTTTTTAAGTT-A
1 AGGGTTTAGGGTTTTTAAGTTAA
* * ** * *
25690681 ATGGTTTTGGGTTTCAAATTTTA
1 AGGGTTTAGGGTTTTTAAGTTAA
*
25690704 AGGATTTAGGG-TTTTAA-TTAA
1 AGGGTTTAGGGTTTTTAAGTTAA
**
25690725 ATTAGTTTAGGGTTTTTAAGTT-A
1 A-GGGTTTAGGGTTTTTAAGTTAA
*
25690748 AGGG-TTAGGGTTTTTAAGTTTA
1 AGGGTTTAGGGTTTTTAAGTTAA
*
25690770 AGGGTTTAAGGTTTTTAA-TTAA
1 AGGGTTTAGGGTTTTTAAGTTAA
**
25690792 ATTAGTTTAGGGTTTTTAAGTT-A
1 A-GGGTTTAGGGTTTTTAAGTTAA
* * * *
25690815 AGGG-TTAAGGTTTAT-GGTT-T
1 AGGGTTTAGGGTTTTTAAGTTAA
** *
25690835 AGGGTTTAGGGTTTTTATTTTTA
1 AGGGTTTAGGGTTTTTAAGTTAA
*
25690858 AGGGTTTTGGGTTTTTAA-TTAA
1 AGGGTTTAGGGTTTTTAAGTTAA
**
25690880 ATTAGTTTAGGGTTTTTAAGTT-A
1 A-GGGTTTAGGGTTTTTAAGTTAA
* * *
25690903 AGGGTTTAAGGTTTTTAATTTTA
1 AGGGTTTAGGGTTTTTAAGTTAA
* *
25690926 AGGGTTTAGGATTTTTAA-TTTA
1 AGGGTTTAGGGTTTTTAAGTTAA
25690948 AGGG-TTAGGGTTTTTAAGTT-A
1 AGGGTTTAGGGTTTTTAAGTTAA
*
25690969 AGGG-TTAAGGTTTTTAAGTT-A
1 AGGGTTTAGGGTTTTTAAGTTAA
* *
25690990 AGGGTTTAGGGTTTTTAATTTTA
1 AGGGTTTAGGGTTTTTAAGTTAA
*
25691013 AGAGTTTAGGGTTTTTAA-TTAA
1 AGGGTTTAGGGTTTTTAAGTTAA
**
25691035 ATTAGTTTAGGGTTTTTAAGTT-A
1 A-GGGTTTAGGGTTTTTAAGTTAA
* *
25691058 AGGGTTTAGGGTTTTTAATTTTA
1 AGGGTTTAGGGTTTTTAAGTTAA
25691081 AGGGTTTAGGGTTTTTAAGT
1 AGGGTTTAGGGTTTTTAAGT
25691101 AATAACTCAA
Statistics
Matches: 456, Mismatches: 74, Indels: 51
0.78 0.13 0.09
Matches are distributed among these distances:
20 7 0.02
21 75 0.16
22 144 0.32
23 215 0.47
24 15 0.03
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (23 bp):
AGGGTTTAGGGTTTTTAAGTTAA
Found at i:25690575 original size:45 final size:44
Alignment explanation
Indices: 25690523--25691100 Score: 514
Period size: 45 Copynumber: 13.0 Consensus size: 44
25690513 TAGGGTTTTT
* ** *
25690523 AGGGTTTATGGTTTTTAA-TTAAATTTGTTTCGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAAGTTA
* *
25690568 AGGGTTTAGGGTTTTTAATTTTAAGGGTTTAAGGTTTTTAA-TTAA
1 AGGGTTTAGGGTTTTTAA-GTTAAGGGTTTAGGGTTTTTAAGTT-A
** * * *
25690613 ATTAGTTTAGGGTTTTTAAGTTAAAGGCTTAGGGTTTTTAATTTTA
1 A-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-GTTA
* * * ** *
25690659 AGGGCTTAGGGTTTTTAAGTTAATGGTTTTGGGTTTCAAATTTTA
1 AGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-GTTA
* **
25690704 AGGATTTAGGG-TTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAAGTTA
*
25690748 AGGG-TTAGGGTTTTTAAGTTTAAGGGTTTAAGGTTTTTAA-TTAA
1 AGGGTTTAGGGTTTTTAAG-TTAAGGGTTTAGGGTTTTTAAGTT-A
** * * * *
25690792 ATTAGTTTAGGGTTTTTAAGTTAAGGG-TTAAGGTTTAT-GGTTT
1 A-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTA
** *
25690835 AGGGTTTAGGGTTTTTATTTTTAAGGGTTTTGGGTTTTTAA-TTAA
1 AGGGTTTAGGGTTTTTA-AGTTAAGGGTTTAGGGTTTTTAAGTT-A
** * *
25690880 ATTAGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAATTTTA
1 A-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-GTTA
* *
25690926 AGGGTTTAGGATTTTTAATTTAAGGG-TTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTA
* *
25690969 AGGG-TTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTA
1 AGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-GTTA
* **
25691013 AGAGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAAGTTA
*
25691058 AGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTTAAGT
1 AGGGTTTAGGGTTTTTAA-GTTAAGGGTTTAGGGTTTTTAAGT
25691101 AATAACTCAA
Statistics
Matches: 436, Mismatches: 68, Indels: 58
0.78 0.12 0.10
Matches are distributed among these distances:
42 32 0.07
43 38 0.09
44 80 0.18
45 210 0.48
46 68 0.16
47 8 0.02
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (44 bp):
AGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTA
Found at i:25690735 original size:67 final size:67
Alignment explanation
Indices: 25690664--25691026 Score: 239
Period size: 67 Copynumber: 5.4 Consensus size: 67
25690654 TTTTAAGGGC
* *
25690664 TTAGGGTTTTTAAGTTAATGGTTTTGGGTTTCAAATTTTAAGGATTT-AGGGTTTTAATTAAATT
1 TTAGGGTTTTTAAGTTAA-GGTTTAGGGTTTCAAAGTTTAAGGATTTAAGGGTTTTAATTAAATT
25690728 AGT
65 AGT
* ** * *
25690731 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAAGGGTTTAAGGTTTTTAATTAAATTA
1 TTAGGGTTTTTAAGTTAAGGTTTAGGGTTTCAAAGTTTAAGGATTTAAGGGTTTTAATTAAATTA
25690796 GT
66 GT
* * ** * * *
25690798 TTAGGGTTTTTAAGTTAAGGGTTAAGGTTT-ATGGTTT-AGGGTTT-AGGGTTTTTATT--TTTA
1 TTAGGGTTTTTAAGTTAAGGTTTAGGGTTTCAAAGTTTAAGGATTTAAGGGTTTTAATTAAATT-
25690858 AGGGT
65 A--GT
* * ** * * *
25690863 TTTGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAG-TTAAGGGTTTAAGGTTTTTAATTTTA
1 TTAGGGTTTTTAAGTT-AA--GGTTTAGGGTTTCAAAGTTTAAGGATTTAAGGGTTTTAA-TTAA
**
25690926 A-GGGT
62 ATTAGT
* * * ** * * *
25690931 TTAGGATTTTTAATTTAAGGGTTAGGGTTTTTAAG-TTAAGG-GTTAAGGTTTTTAAGTT-AA-G
1 TTAGGGTTTTTAAGTTAAGGTTTAGGGTTTCAAAGTTTAAGGATTTAAGGGTTTTAA-TTAAATT
*
25690992 GGT
65 AGT
*
25690995 TTAGGGTTTTTAATTTTAAGAGTTTAGGGTTT
1 TTAGGGTTTTTAA-GTTAAG-GTTTAGGGTTT
25691027 TTAATTAAAT
Statistics
Matches: 246, Mismatches: 34, Indels: 33
0.79 0.11 0.11
Matches are distributed among these distances:
62 2 0.01
63 1 0.00
64 30 0.12
65 44 0.18
66 57 0.23
67 77 0.31
68 23 0.09
69 10 0.04
70 2 0.01
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (67 bp):
TTAGGGTTTTTAAGTTAAGGTTTAGGGTTTCAAAGTTTAAGGATTTAAGGGTTTTAATTAAATTA
GT
Found at i:25690889 original size:155 final size:155
Alignment explanation
Indices: 25690571--25691098 Score: 715
Period size: 155 Copynumber: 3.4 Consensus size: 155
25690561 TAAGTTAAGG
* * ** *
25690571 GTTTAGGGTTTTTAATTTTAAGGGTTTAAGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT
1 GTTTAGGGTTTTTAA-GTTAAGGGTTTAAGGTTTTTAATTTTAA-GGGTTTAAGGTTTTTAA-TT
* * * * **
25690635 AAAGGCTTAGGGTTTTTAATTTTAAGGGCTTAGGGTTTTTAAGTTAATGGTTTTGGGTTTCAAAT
63 AAAGGCTTAGGGTTTTTAA-GTTAAGGG-TTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAT
*
25690700 TTTAAGGATTTAGGG-TTTTAATTAAATTA
126 TTTAAGGGTTTAGGGTTTTTAATTAAATTA
* *
25690729 GTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTTAAGGGTTTAAGGTTTTTAATTAAA
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAATTTTAAGGGTTTAAGGTTTTTAATTAAA
* * * * * *
25690793 TTAGTTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTAT-GGTTTAGGGTTTAGGGTTTTTATTTTT
66 --GGCTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTT
*
25690857 AAGGGTTTTGGGTTTTTAATTAAATTA
129 AAGGGTTTAGGGTTTTTAATTAAATTA
*
25690884 GTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAATTTTAAGGGTTT-AGGATTTTTAATTTA
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAATTTTAAGGGTTTAAGG-TTTTTAATTAA
*
25690948 AGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTA
65 AGGCTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTA
*
25691013 AGAGTTTAGGGTTTTTAATTAAATTA
130 AGGGTTTAGGGTTTTTAATTAAATTA
* *
25691039 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTTAA
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAATTTTAAGGGTTTAAGGTTTTTAA
25691099 GTAATAACTC
Statistics
Matches: 329, Mismatches: 33, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
154 62 0.19
155 158 0.48
156 69 0.21
157 25 0.08
158 15 0.05
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (155 bp):
GTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAATTTTAAGGGTTTAAGGTTTTTAATTAAA
GGCTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAA
GGGTTTAGGGTTTTTAATTAAATTA
Found at i:25692268 original size:7 final size:7
Alignment explanation
Indices: 25692258--25692283 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25692248 TTATATACAT
25692258 AATACTA
1 AATACTA
25692265 AATACTA
1 AATACTA
25692272 AATACTA
1 AATACTA
25692279 AATAC
1 AATAC
25692284 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:25692490 original size:20 final size:20
Alignment explanation
Indices: 25692453--25692490 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25692443 TTTATTTTTA
*
25692453 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
25692473 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
25692491 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:25693494 original size:14 final size:12
Alignment explanation
Indices: 25693434--25693490 Score: 68
Period size: 11 Copynumber: 5.0 Consensus size: 12
25693424 GGAGTTAAGA
25693434 GAAATTTG-GAAG
1 GAAATTTGAG-AG
25693446 G-AATTTGAGAG
1 GAAATTTGAGAG
*
25693457 CAAA-TTGAGAG
1 GAAATTTGAGAG
25693468 GAAATTT-AGAG
1 GAAATTTGAGAG
25693479 GAAATTTGAGAG
1 GAAATTTGAGAG
25693491 AGGATTAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 29 0.74
12 10 0.26
ACGTcount: A:0.42, C:0.02, G:0.32, T:0.25
Consensus pattern (12 bp):
GAAATTTGAGAG
Found at i:25696798 original size:24 final size:24
Alignment explanation
Indices: 25696749--25696797 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
25696739 AATTAATTAC
*
25696749 AATAGATAATTAAAATGATTATAA
1 AATAAATAATTAAAATGATTATAA
25696773 AATAAATAA-TAAAAT-ATTTATAA
1 AATAAATAATTAAAATGA-TTATAA
25696796 AA
1 AA
25696798 AATATTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 14 0.61
24 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
AATAAATAATTAAAATGATTATAA
Found at i:25697192 original size:25 final size:23
Alignment explanation
Indices: 25697159--25697204 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
25697149 GACATTATAA
25697159 TATAATAAATAATTAAAAATATATC
1 TATAATAAATAA-T-AAAATATATC
*
25697184 TATATTAAATAATAAAATATA
1 TATAATAAATAATAAAATATA
25697205 AATTACAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 1 0.05
25 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TATAATAAATAATAAAATATATC
Found at i:25697560 original size:21 final size:21
Alignment explanation
Indices: 25697524--25697565 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25697514 ACAGGATAGG
* * *
25697524 TGACGTGGCTAGTTAATTAGC
1 TGACGTGGCCAATTAACTAGC
25697545 TGACGTGGCCAATTAACTAGC
1 TGACGTGGCCAATTAACTAGC
25697566 CACATTGGAT
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:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (21 bp):
TGACGTGGCCAATTAACTAGC
Found at i:25710508 original size:4 final size:4
Alignment explanation
Indices: 25710493--25710756 Score: 357
Period size: 4 Copynumber: 66.0 Consensus size: 4
25710483 CTAACATTTT
* * * * *
25710493 CATA CCTA CATA CATA CATA CCTA CATA CATA AATA CATA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
25710541 CATG CATA CATA CATA CATA CATA CATA CATG CATA CAAA CATG TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
25710589 CATG CATA CATA CATA CATA CATA CATA CATA CATA CATG CATA CAAA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
25710637 CATG CATA CATG CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
25710685 CATA CATA CATG CATA CATA CATG CATA CATG CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
25710733 CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA
25710757 TTTACTAAAG
Statistics
Matches: 226, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 226 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:25721441 original size:28 final size:28
Alignment explanation
Indices: 25721391--25721463 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
25721381 TATATAATTT
* *
25721391 TTTAAAAATTT-AAAATATGTTAGAATA
1 TTTAAAAATTTAAAAATATATTAGAAAA
25721418 TTTAAAAATTATAAAAAT-TATTAGAAAA
1 TTTAAAAATT-TAAAAATATATTAGAAAA
*
25721446 TTCAAAATATTGTAAAAA
1 TTTAAAA-ATT-TAAAAA
25721464 AATTATAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.26
28 15 0.38
29 14 0.36
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.37
Consensus pattern (28 bp):
TTTAAAAATTTAAAAATATATTAGAAAA
Found at i:25721445 original size:20 final size:20
Alignment explanation
Indices: 25721422--25721482 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
25721412 AGAATATTTA
25721422 AAAATTATAAAAATTATTAG
1 AAAATTATAAAAATTATTAG
* * * *
25721442 AAAATTCA-AAATATTGTAAA
1 AAAATT-ATAAAAATTATTAG
25721462 AAAATTAT--AAATTATTAG
1 AAAATTATAAAAATTATTAG
25721480 AAA
1 AAA
25721483 TTGTAATTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
18 9 0.29
19 1 0.03
20 20 0.65
21 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATTATAAAAATTATTAG
Found at i:25724780 original size:18 final size:18
Alignment explanation
Indices: 25724759--25724799 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
25724749 AGTTTATATA
25724759 ATTTTTATAT-ACATTTAT
1 ATTTTT-TATGACATTTAT
*
25724777 ATTTTTTATGATATTTAT
1 ATTTTTTATGACATTTAT
25724795 ATTTT
1 ATTTT
25724800 CATGTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTTTATGACATTTAT
Found at i:25730051 original size:13 final size:13
Alignment explanation
Indices: 25730035--25730059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25730025 AAAAGATGTG
25730035 AAAAAATGAAAAT
1 AAAAAATGAAAAT
25730048 AAAAAATGAAAA
1 AAAAAATGAAAA
25730060 ATGGAAAAAG
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:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAAAATGAAAAT
Found at i:25731567 original size:100 final size:100
Alignment explanation
Indices: 25731440--25732323 Score: 1331
Period size: 100 Copynumber: 8.8 Consensus size: 100
25731430 CTTTGGCATT
* *
25731440 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
25731505 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * * *
25731540 GCAATTAAAAATATTGAAGCCATAACGGCAGATCTTACTTCCCTAGCGGTGCAGTAGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
25731605 GAAGTCACAACGGCGGATCTGGTTTCCCTGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* *
25731640 GCAATTAAAAAGATTGAAGCCACAAAGGCTGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
25731705 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* *
25731740 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCAGTACAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* ** **
25731805 GAAGTCACAAAGATGGATCTGGTTTCCCCGACAAT
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * *
25731840 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGATACAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
25731905 GAAGTCACAACGGCGGATCTGGTTTCCCTGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * *
25731940 GCAATTAAAAATATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
** * **
25732005 GAAGTCACAACGGCATATTTGGTTTCCCTAACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* *
25732040 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAGTGGAGCAAATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
25732105 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGT
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
*
25732140 GCAATTAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
** * **
25732205 GAAGTCACAACGGTAGATCTGGTTTCCCTGACAAT
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * * * * * * *
25732240 GCAATT-AAAAGATTGAAGCCACAACGGCGGATCTTACCTCCTTAGCAGCGCAGTTGAACAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
25732304 GAAG-CTACGACGGCGGATCT
66 GAAGTC-ACAACGGCGGATCT
25732324 TATTTCCTCG
Statistics
Matches: 713, Mismatches: 70, Indels: 3
0.91 0.09 0.00
Matches are distributed among these distances:
98 1 0.00
99 64 0.09
100 648 0.91
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (100 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
Found at i:25733891 original size:18 final size:18
Alignment explanation
Indices: 25733870--25733910 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
25733860 AGTTTATATA
25733870 ATTTTTATAT-ACATTTAT
1 ATTTTT-TATGACATTTAT
*
25733888 ATTTTTTATGATATTTAT
1 ATTTTTTATGACATTTAT
25733906 ATTTT
1 ATTTT
25733911 CATGTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTTTATGACATTTAT
Found at i:25735441 original size:24 final size:23
Alignment explanation
Indices: 25735414--25735489 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
25735404 AGATATTTAT
*
25735414 ATTATTTATTTATATAATATATAA
1 ATTAATTATTTATATAATAT-TAA
** *
25735438 ATTAATTATAAAGTATATTATTAA
1 ATTAATTATTTA-TATAATATTAA
*
25735462 ATTAATTATATTATA-AATATTAT
1 ATTAATTAT-TTATATAATATTAA
25735485 ATTAA
1 ATTAA
25735490 GAAATAAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 11 0.26
24 23 0.55
25 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
ATTAATTATTTATATAATATTAA
Found at i:25735457 original size:12 final size:11
Alignment explanation
Indices: 25735428--25735471 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
25735418 TTTATTTATA
25735428 TAATATATAAAT
1 TAAT-TATAAAT
*
25735440 TAATTATAAAG
1 TAATTATAAAT
25735451 TATATTATTAAAT
1 TA-ATTA-TAAAT
25735464 TAATTATA
1 TAATTATA
25735472 TTATAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 10 0.36
12 12 0.43
13 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:25735483 original size:14 final size:17
Alignment explanation
Indices: 25735451--25735488 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
25735441 AATTATAAAG
25735451 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
25735468 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
25735482 TATATTA
1 TATATTA
25735489 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:25736413 original size:3 final size:3
Alignment explanation
Indices: 25736405--25736436 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25736395 GTGAGGTAAG
25736405 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
25736437 GTGGGAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:25738440 original size:34 final size:34
Alignment explanation
Indices: 25738401--25738468 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
25738391 TTGAATTAAT
25738401 TTACCACTTTATATAGGTACACATTCATATGGAA
1 TTACCACTTTATATAGGTACACATTCATATGGAA
25738435 TTACCACTTTATATAGGTACACATTCATATGGAA
1 TTACCACTTTATATAGGTACACATTCATATGGAA
25738469 ATGGTTATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (34 bp):
TTACCACTTTATATAGGTACACATTCATATGGAA
Found at i:25739406 original size:6 final size:7
Alignment explanation
Indices: 25739390--25739419 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
25739380 TTAGTAAAAC
25739390 TTTTAAT
1 TTTTAAT
25739397 TTTTAAT
1 TTTTAAT
25739404 TTTTAAT
1 TTTTAAT
*
25739411 TTTTCAT
1 TTTTAAT
25739418 TT
1 TT
25739420 AACAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:25739734 original size:19 final size:19
Alignment explanation
Indices: 25739712--25739752 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25739702 ATACCACCAT
25739712 TATTTA-TTTATATATTTTC
1 TATTTAGTTTAT-TATTTTC
*
25739731 TATTTAGTTTATTTTTTTC
1 TATTTAGTTTATTATTTTC
25739750 TAT
1 TAT
25739753 ATTTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTTAGTTTATTATTTTC
Found at i:25740928 original size:23 final size:23
Alignment explanation
Indices: 25740902--25740946 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
25740892 GGCATAGAAA
*
25740902 TAATA-CATACAAATAAATAAAAC
1 TAATATCATA-AAAAAAATAAAAC
25740925 TAATATTCATAAAAAAAATAAA
1 TAATA-TCATAAAAAAAATAAA
25740947 CAATGTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 10 0.53
25 4 0.21
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (23 bp):
TAATATCATAAAAAAAATAAAAC
Found at i:25741298 original size:18 final size:18
Alignment explanation
Indices: 25741277--25741312 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25741267 AAAAAAAAGG
25741277 AAAAAAAGAAAAATAAAT
1 AAAAAAAGAAAAATAAAT
* *
25741295 AAAAAAATAATAATAAAT
1 AAAAAAAGAAAAATAAAT
25741313 TACGAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAAAAAGAAAAATAAAT
Found at i:25743219 original size:22 final size:20
Alignment explanation
Indices: 25743193--25743237 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
25743183 TGTAAATTAA
*
25743193 TATTTTTAATTTAGTCTCACAT
1 TATTTTTAA--TAATCTCACAT
*
25743215 TATTTTTGATAATCTCACAT
1 TATTTTTAATAATCTCACAT
25743235 TAT
1 TAT
25743238 GAGTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
22 8 0.38
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.53
Consensus pattern (20 bp):
TATTTTTAATAATCTCACAT
Found at i:25746867 original size:40 final size:39
Alignment explanation
Indices: 25746793--25746869 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
25746783 AAACTGTTCA
* *
25746793 TCCACGTCAGCAAATCGCGTCCTAGAGGGAGCGATTTGTG
1 TCCACGTAAGCAAATCGCG-CCTACAGGGAGCGATTTGTG
*
25746833 TCCACGTAAGCAAATCGCG-CTGACATGGACGCGATTT
1 TCCACGTAAGCAAATCGCGCCT-ACAGGGA-GCGATTT
25746870 CCTAGCGCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.06
39 5 0.16
40 25 0.78
ACGTcount: A:0.25, C:0.26, G:0.27, T:0.22
Consensus pattern (39 bp):
TCCACGTAAGCAAATCGCGCCTACAGGGAGCGATTTGTG
Found at i:25747049 original size:19 final size:19
Alignment explanation
Indices: 25747025--25747066 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
25747015 TATGAAACAC
25747025 TAAAAATTCCTACAATTCA
1 TAAAAATTCCTACAATTCA
*
25747044 TAAAAATTCCTACCATTCA
1 TAAAAATTCCTACAATTCA
25747063 TAAA
1 TAAA
25747067 TATAATTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAATTCCTACAATTCA
Found at i:25748274 original size:78 final size:78
Alignment explanation
Indices: 25748181--25748369 Score: 306
Period size: 78 Copynumber: 2.4 Consensus size: 78
25748171 TGTTTTAAGT
* *
25748181 ATGTAAGATTCGAAACTAATAATAACACATATGAGTACAATTTATTTAAATAATTTATCAAAACA
1 ATGTAAGATTCGAAACTAATAATAACACATATGAATACAATTTACTTAAATAATTTATCAAAACA
*
25748246 CTTAAATAATAAA
66 CTAAAATAATAAA
* * *
25748259 ATGTAAGATTTGAAACTAATAATAGCACATATGAATACAATTTACTTAAGTAATTTATCAAAACA
1 ATGTAAGATTCGAAACTAATAATAACACATATGAATACAATTTACTTAAATAATTTATCAAAACA
*
25748324 CTAAAATAATGAA
66 CTAAAATAATAAA
*
25748337 ATGTAAGATTCGAAACTAATAATAACACGTATG
1 ATGTAAGATTCGAAACTAATAATAACACATATG
25748370 CAATGTATAT
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 101 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.31
Consensus pattern (78 bp):
ATGTAAGATTCGAAACTAATAATAACACATATGAATACAATTTACTTAAATAATTTATCAAAACA
CTAAAATAATAAA
Found at i:25748972 original size:15 final size:15
Alignment explanation
Indices: 25748952--25748983 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
25748942 GAAGATAATC
25748952 TCAAAAAATAATTAA
1 TCAAAAAATAATTAA
25748967 TCAAAAAATAATTAA
1 TCAAAAAATAATTAA
25748982 TC
1 TC
25748984 TAAATTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (15 bp):
TCAAAAAATAATTAA
Found at i:25754839 original size:39 final size:39
Alignment explanation
Indices: 25754785--25754865 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
25754775 ATGCAATCGA
* * *
25754785 TTTGTTCTTCTTTAAAGTTTTATTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
25754824 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
25754863 TTT
1 TTT
25754866 TCACTTTAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.59
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
Found at i:25755355 original size:62 final size:62
Alignment explanation
Indices: 25755251--25755481 Score: 381
Period size: 62 Copynumber: 3.7 Consensus size: 62
25755241 ATACAGTGCA
* *
25755251 ATTTCCCCATTCCCATTTCCCCTCTTCCACTAATCGAAGTCCCAAACCCCCTGCCCTCCTCCC
1 ATTT-CCCATTCCCATTTCCCCTCTTCCACTAATCAAAGTCCCAAACCCCGTGCCCTCCTCCC
* *
25755314 ATTTCACATTCCCATTTCCCCTCTTCCACCAATCAAAGTCCCAAACCCCGTGCCCTCCTCCC
1 ATTTCCCATTCCCATTTCCCCTCTTCCACTAATCAAAGTCCCAAACCCCGTGCCCTCCTCCC
* * *
25755376 ATTTCCCATTCCCATTTCTCCTCTTCCACTGATCAAAGTTCCAAACCCCGTGCCCTCCTCCC
1 ATTTCCCATTCCCATTTCCCCTCTTCCACTAATCAAAGTCCCAAACCCCGTGCCCTCCTCCC
*
25755438 ATTTCCCATTCCCATTTCCCCTCTTCCACTGATCAAAGTCCCAA
1 ATTTCCCATTCCCATTTCCCCTCTTCCACTAATCAAAGTCCCAA
25755482 TCCACCTCCA
Statistics
Matches: 157, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
62 153 0.97
63 4 0.03
ACGTcount: A:0.19, C:0.47, G:0.05, T:0.29
Consensus pattern (62 bp):
ATTTCCCATTCCCATTTCCCCTCTTCCACTAATCAAAGTCCCAAACCCCGTGCCCTCCTCCC
Found at i:25755778 original size:17 final size:17
Alignment explanation
Indices: 25755742--25755778 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
25755732 TGTTAAATTA
*
25755742 TTTTTCATTTTTTTGCT
1 TTTTTCATTTTTTTACT
25755759 TTTTTCATTTTTTTA-T
1 TTTTTCATTTTTTTACT
25755775 TTTT
1 TTTT
25755779 GGATTGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTTCATTTTTTTACT
Found at i:25757290 original size:21 final size:21
Alignment explanation
Indices: 25757264--25757314 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
25757254 CAAAAAAGAG
25757264 GGGAGAAACCAGCAAGAACAA
1 GGGAGAAACCAGCAAGAACAA
25757285 GGGAGAAACCAGCAAGAACAA
1 GGGAGAAACCAGCAAGAACAA
25757306 GGGAGAAAC
1 GGGAGAAAC
25757315 TATTGTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.51, C:0.18, G:0.31, T:0.00
Consensus pattern (21 bp):
GGGAGAAACCAGCAAGAACAA
Found at i:25757623 original size:59 final size:59
Alignment explanation
Indices: 25757531--25757708 Score: 356
Period size: 59 Copynumber: 3.0 Consensus size: 59
25757521 GAAACCAAGA
25757531 TATCCAAACAACCAAGCAAGTCACTGTGGTGTAGTGAGATTGAAAATCAAGGTAAAAAT
1 TATCCAAACAACCAAGCAAGTCACTGTGGTGTAGTGAGATTGAAAATCAAGGTAAAAAT
25757590 TATCCAAACAACCAAGCAAGTCACTGTGGTGTAGTGAGATTGAAAATCAAGGTAAAAAT
1 TATCCAAACAACCAAGCAAGTCACTGTGGTGTAGTGAGATTGAAAATCAAGGTAAAAAT
25757649 TATCCAAACAACCAAGCAAGTCACTGTGGTGTAGTGAGATTGAAAATCAAGGTAAAAAT
1 TATCCAAACAACCAAGCAAGTCACTGTGGTGTAGTGAGATTGAAAATCAAGGTAAAAAT
25757708 T
1 T
25757709 TCAACGCACT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 119 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.22
Consensus pattern (59 bp):
TATCCAAACAACCAAGCAAGTCACTGTGGTGTAGTGAGATTGAAAATCAAGGTAAAAAT
Found at i:25760638 original size:15 final size:16
Alignment explanation
Indices: 25760618--25760655 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
25760608 TTAATTTTGT
*
25760618 ATTTTAATTTC-ATCA
1 ATTTTAATTTCTATAA
25760633 ATTTTAATTTCTATAA
1 ATTTTAATTTCTATAA
25760649 ATTTTAA
1 ATTTTAA
25760656 AATTTTAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTAATTTCTATAA
Found at i:25769303 original size:12 final size:13
Alignment explanation
Indices: 25769286--25769314 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25769276 ATCATACATG
25769286 AATAAATAAA-GC
1 AATAAATAAATGC
25769298 AATAAATAAATGC
1 AATAAATAAATGC
25769311 AATA
1 AATA
25769315 GTTATAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:25774615 original size:57 final size:57
Alignment explanation
Indices: 25774554--25774671 Score: 227
Period size: 57 Copynumber: 2.1 Consensus size: 57
25774544 CAATAAGAGT
25774554 TTACAAGTACAAACATATTTATAACACTTATCTTGCCCTTAAACAATCTCACTGGCA
1 TTACAAGTACAAACATATTTATAACACTTATCTTGCCCTTAAACAATCTCACTGGCA
*
25774611 TTACAAGTACAAACATATTTATAACACTTATCTTGTCCTTAAACAATCTCACTGGCA
1 TTACAAGTACAAACATATTTATAACACTTATCTTGCCCTTAAACAATCTCACTGGCA
25774668 TTAC
1 TTAC
25774672 TTAATTGGCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (57 bp):
TTACAAGTACAAACATATTTATAACACTTATCTTGCCCTTAAACAATCTCACTGGCA
Found at i:25775095 original size:8 final size:7
Alignment explanation
Indices: 25775069--25775099 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
25775059 TGACCCGGGT
25775069 CCCAAAA
1 CCCAAAA
25775076 CCCAAAA
1 CCCAAAA
25775083 CCCAAACA
1 CCCAAA-A
25775091 CCCAAAA
1 CCCAAAA
25775098 CC
1 CC
25775100 TAAACTGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (7 bp):
CCCAAAA
Found at i:25775095 original size:15 final size:15
Alignment explanation
Indices: 25775069--25775104 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
25775059 TGACCCGGGT
25775069 CCCAAA-ACCCAAAA
1 CCCAAACACCCAAAA
25775083 CCCAAACACCCAAAA
1 CCCAAACACCCAAAA
*
25775098 CCTAAAC
1 CCCAAAC
25775105 TGCTACCCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.53, C:0.44, G:0.00, T:0.03
Consensus pattern (15 bp):
CCCAAACACCCAAAA
Found at i:25775545 original size:8 final size:8
Alignment explanation
Indices: 25775532--25775570 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
25775522 ATAAGATTTA
25775532 TTTTTATT
1 TTTTTATT
25775540 TTTTTATT
1 TTTTTATT
25775548 TTTTTATT
1 TTTTTATT
**
25775556 TTTTTCCT
1 TTTTTATT
25775564 TTTTTAT
1 TTTTTAT
25775571 GCATATAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTATT
Found at i:25786456 original size:46 final size:46
Alignment explanation
Indices: 25786389--25786481 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
25786379 AAAATTTCTT
25786389 AGGATACACATCAATACGAATATATACGTACCCAACATTATTAGAC
1 AGGATACACATCAATACGAATATATACGTACCCAACATTATTAGAC
25786435 AGGATACACATCAATACGAATATATACGTACCCAACATTATTAGAC
1 AGGATACACATCAATACGAATATATACGTACCCAACATTATTAGAC
25786481 A
1 A
25786482 ATCATGGCAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.24
Consensus pattern (46 bp):
AGGATACACATCAATACGAATATATACGTACCCAACATTATTAGAC
Found at i:25795287 original size:34 final size:34
Alignment explanation
Indices: 25795249--25795330 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
25795239 TAGTTTGCTA
* ** * *
25795249 ATAACATAGGTTCGCATATCAGCGTAAGTCATAC
1 ATAACATAGGTTCGCATAACAGAATAAGTAACAC
** *
25795283 ATAACATAGACTCGCATAACAGAATAATTAACAC
1 ATAACATAGGTTCGCATAACAGAATAAGTAACAC
25795317 ATAACATAGGTTCG
1 ATAACATAGGTTCG
25795331 GATCACAGTA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (34 bp):
ATAACATAGGTTCGCATAACAGAATAAGTAACAC
Found at i:25795352 original size:34 final size:34
Alignment explanation
Indices: 25795314--25795413 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 34
25795304 GAATAATTAA
* *
25795314 CACATAACATAGGTTCGGATCACAGTATAGTTTG
1 CACATAACATAGGTTCGCATCATAGTATAGTTTG
* * **
25795348 CACATAATATAAGTTCGCAT-ATAACATAGGTTTG
1 CACATAACATAGGTTCGCATCATAGTATA-GTTTG
* *
25795382 CATATAACATGGGTTCGCATCATAGTATAGTT
1 CACATAACATAGGTTCGCATCATAGTATAGTT
25795414 CACACATAGT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
33 5 0.10
34 41 0.79
35 6 0.12
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (34 bp):
CACATAACATAGGTTCGCATCATAGTATAGTTTG
Found at i:25795371 original size:17 final size:17
Alignment explanation
Indices: 25795351--25795401 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
25795341 TAGTTTGCAC
*
25795351 ATAATATAAGTTCGCAT
1 ATAACATAAGTTCGCAT
* *
25795368 ATAACATAGGTTTGCAT
1 ATAACATAAGTTCGCAT
**
25795385 ATAACATGGGTTCGCAT
1 ATAACATAAGTTCGCAT
25795402 CATAGTATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (17 bp):
ATAACATAAGTTCGCAT
Found at i:25795389 original size:68 final size:68
Alignment explanation
Indices: 25795317--25795461 Score: 173
Period size: 68 Copynumber: 2.1 Consensus size: 68
25795307 TAATTAACAC
* ** * *
25795317 ATAACATAGGTTCGGATCACAGTATAGTTTGCACATAATATAAGTTCGCATATAACATAGGTTTG
1 ATAACATAGGTTCGCATCACAGTATAGTTCACACATAATATAAGTTCGCATATAACATAGATTCG
25795382 CAT
66 CAT
* * * * ** *
25795385 ATAACATGGGTTCGCATCATAGTATAGTTCACACATAGTATAGGTTTTCATATCACATAGATTCG
1 ATAACATAGGTTCGCATCACAGTATAGTTCACACATAATATAAGTTCGCATATAACATAGATTCG
25795450 CAT
66 CAT
*
25795453 ATAGCATAG
1 ATAACATAG
25795462 TAAGGCTCGC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (68 bp):
ATAACATAGGTTCGCATCACAGTATAGTTCACACATAATATAAGTTCGCATATAACATAGATTCG
CAT
Found at i:25795460 original size:17 final size:17
Alignment explanation
Indices: 25795360--25795461 Score: 73
Period size: 17 Copynumber: 6.0 Consensus size: 17
25795350 CATAATATAA
*
25795360 GTTCGCATATAACATAG
1 GTTCGCATATAGCATAG
* * *
25795377 GTTTGCATATAACATGG
1 GTTCGCATATAGCATAG
*
25795394 GTTCGCATCATAGTATA-
1 GTTCGCAT-ATAGCATAG
* * *
25795411 GTTCACACATAGTATAG
1 GTTCGCATATAGCATAG
**
25795428 GTTTTCATATCA-CATAG
1 GTTCGCATAT-AGCATAG
*
25795445 ATTCGCATATAGCATAG
1 GTTCGCATATAGCATAG
25795462 TAAGGCTCGC
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
16 9 0.14
17 51 0.77
18 6 0.09
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (17 bp):
GTTCGCATATAGCATAG
Found at i:25797534 original size:33 final size:33
Alignment explanation
Indices: 25797492--25797557 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
25797482 TACTGTTTCC
25797492 AACTAACCATTTGTCTAAGGATGGTAAGCCATA
1 AACTAACCATTTGTCTAAGGATGGTAAGCCATA
25797525 AACTAACCATTTGTCTAAGGATGGTAAGCCATA
1 AACTAACCATTTGTCTAAGGATGGTAAGCCATA
25797558 CTAAATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (33 bp):
AACTAACCATTTGTCTAAGGATGGTAAGCCATA
Found at i:25801140 original size:43 final size:43
Alignment explanation
Indices: 25801093--25801197 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 43
25801083 TCCCAGATAT
* * *
25801093 GGTCTTACATGTTATCACATATCGATGC-CATTGTAC-CAGACAG
1 GGTCTTACACGTAATCACATATCGAT-CTCAATGT-CTCAGACAG
* *
25801136 GGTCTTACACGTAATCTCATATCGATCTCAATGTCTCAGACAT
1 GGTCTTACACGTAATCACATATCGATCTCAATGTCTCAGACAG
25801179 GGTCTTACAC-TAAATCACA
1 GGTCTTACACGT-AATCACA
25801198 CCTCGGGAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.06
43 50 0.94
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATCTCAATGTCTCAGACAG
Found at i:25817279 original size:15 final size:15
Alignment explanation
Indices: 25817256--25817293 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
25817246 TTCTCTTAGG
*
25817256 TTACATTTTAGTTAT
1 TTACGTTTTAGTTAT
25817271 TTACGTTTTAGTTAT
1 TTACGTTTTAGTTAT
25817286 TTACGTTT
1 TTACGTTT
25817294 GAAATGTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.61
Consensus pattern (15 bp):
TTACGTTTTAGTTAT
Found at i:25817801 original size:31 final size:29
Alignment explanation
Indices: 25817734--25817802 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
25817724 ATAATAACGT
* * *
25817734 AAGTGACTAAAATGTAACATTTCAAATAT
1 AAGTGACTAAAATGTAACATTACAAACAA
25817763 AAGTGACTAAAATGTAAC-TTGAGACAAACAA
1 AAGTGACTAAAATGTAACATT---ACAAACAA
25817794 AAGTGACTA
1 AAGTGACTA
25817803 TTTTAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.06
29 18 0.53
31 14 0.41
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATTACAAACAA
Found at i:25818505 original size:21 final size:22
Alignment explanation
Indices: 25818480--25818526 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
25818470 GTTTTTTACT
25818480 AAAATAATAAAA-AAGAAATAA
1 AAAATAATAAAATAAGAAATAA
* * *
25818501 AAAATATTAAAATAATATATAA
1 AAAATAATAAAATAAGAAATAA
25818523 AAAA
1 AAAA
25818527 ATTATTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAATAAAATAAGAAATAA
Found at i:25818517 original size:11 final size:11
Alignment explanation
Indices: 25818480--25818526 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
25818470 GTTTTTTACT
25818480 AAAATA-ATAA
1 AAAATATATAA
* *
25818490 AAAAGAAATAA
1 AAAATATATAA
25818501 AAAATAT-TAA
1 AAAATATATAA
25818511 AATAATATATAA
1 AA-AATATATAA
25818523 AAAA
1 AAAA
25818527 ATTATTTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 10 0.32
11 16 0.52
12 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAATATATAA
Found at i:25818553 original size:13 final size:12
Alignment explanation
Indices: 25818480--25818553 Score: 50
Period size: 13 Copynumber: 6.3 Consensus size: 12
25818470 GTTTTTTACT
25818480 AAAATA-ATAAA
1 AAAATATATAAA
25818491 AAAGA-A-AT-AA
1 AAA-ATATATAAA
25818501 AAAATAT-TAAA
1 AAAATATATAAA
*
25818512 ATAATATATAAA
1 AAAATATATAAA
* **
25818524 AAAATTATTTACT
1 AAAA-TATATAAA
25818537 AAAATAATATAAA
1 AAAAT-ATATAAA
25818550 AAAA
1 AAAA
25818554 GACGGCTGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
9 1 0.02
10 7 0.15
11 14 0.29
12 9 0.19
13 17 0.35
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.26
Consensus pattern (12 bp):
AAAATATATAAA
Found at i:25818616 original size:27 final size:27
Alignment explanation
Indices: 25818578--25818640 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
25818568 GGTAATGGAA
*
25818578 TGGCGACACCGGTGGTG-CATTTCTCAT
1 TGGCGGCACCGGTGGTGCCATTTC-CAT
25818605 TGGCGGCACCGGTGGTGCCATTTCCAT
1 TGGCGGCACCGGTGGTGCCATTTCCAT
25818632 TGGCGGCAC
1 TGGCGGCAC
25818641 AGGACTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 28 0.82
28 6 0.18
ACGTcount: A:0.13, C:0.29, G:0.33, T:0.25
Consensus pattern (27 bp):
TGGCGGCACCGGTGGTGCCATTTCCAT
Found at i:25819566 original size:27 final size:27
Alignment explanation
Indices: 25819528--25819590 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
25819518 TTTTAGTCCT
* *
25819528 GTGCCGCCAATGGGAATGGCACCACCG
1 GTGCCGCCAATGAGAAAGGCACCACCG
25819555 GTGCCGCCAATGAGAAAGGCACCACCG
1 GTGCCGCCAATGAGAAAGGCACCACCG
25819582 GTGCCGCCA
1 GTGCCGCCA
25819591 TTCCATTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.24, C:0.35, G:0.32, T:0.10
Consensus pattern (27 bp):
GTGCCGCCAATGAGAAAGGCACCACCG
Found at i:25819682 original size:19 final size:21
Alignment explanation
Indices: 25819641--25819689 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
25819631 GGTAAATAAT
25819641 TTTTTTGTATATTATTTTGGTA
1 TTTTTT-TATATTATTTTGGTA
*
25819663 TTTTTTTAT-TTCTTTT-GTA
1 TTTTTTTATATTATTTTGGTA
*
25819682 TTATTTTA
1 TTTTTTTA
25819690 GTAAAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 6 0.24
21 3 0.12
22 6 0.24
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.73
Consensus pattern (21 bp):
TTTTTTTATATTATTTTGGTA
Found at i:25820119 original size:16 final size:16
Alignment explanation
Indices: 25820082--25820128 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
25820072 TTTCATGAAC
25820082 TTTTTAATATTTTTT-
1 TTTTTAATATTTTTTA
25820097 TTATTTAATATTTTTTA
1 TT-TTTAATATTTTTTA
*
25820114 TTTTT-ATAATTTTTA
1 TTTTTAATATTTTTTA
25820129 AATTATCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 11 0.38
16 16 0.55
17 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTAATATTTTTTA
Found at i:25838250 original size:16 final size:18
Alignment explanation
Indices: 25838216--25838255 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
25838206 TAAAGTCTTG
25838216 AAAAAAATTAATGACAAGT
1 AAAAAAATT-ATGACAAGT
25838235 AAAAAAATT-TGA-AAGT
1 AAAAAAATTATGACAAGT
25838251 AAAAA
1 AAAAA
25838256 CATAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.43
17 3 0.14
19 9 0.43
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (18 bp):
AAAAAAATTATGACAAGT
Found at i:25845587 original size:40 final size:40
Alignment explanation
Indices: 25845484--25845589 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
25845474 ACGAGGCAGG
*
25845484 AAAA-CGCTTCCTCAAGGAAGCG-CTTTGTCCATGTGGAC
1 AAAAGCGCTTCCTCAAGGAAGCGTTTTTGTCCATGTGGAC
** *
25845522 ATAAAGCGCGCCCTCAAGGACGCGTTTTCTGTCCATGTGGAC
1 A-AAAGCGCTTCCTCAAGGAAGCGTTTT-TGTCCATGTGGAC
**
25845564 -AAAGCGCTTCCTTGAGGAAGCGTTTT
1 AAAAGCGCTTCCTCAAGGAAGCGTTTT
25845590 GCCCGCGCGT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 36 0.65
41 2 0.04
42 13 0.24
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
AAAAGCGCTTCCTCAAGGAAGCGTTTTTGTCCATGTGGAC
Found at i:25845740 original size:11 final size:11
Alignment explanation
Indices: 25845704--25845773 Score: 81
Period size: 11 Copynumber: 6.4 Consensus size: 11
25845694 TAAATCCTTT
*
25845704 CTCTC-AATTT
1 CTCTCAAATTC
25845714 CTCTCCAATATT-
1 CTCT-CAA-ATTC
25845726 CTCTCAAATTC
1 CTCTCAAATTC
25845737 CTCTCAAATTC
1 CTCTCAAATTC
*
25845748 CTCTCAATTTC
1 CTCTCAAATTC
*
25845759 CTATCAAATTC
1 CTCTCAAATTC
25845770 CTCT
1 CTCT
25845774 TAAAAAAGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
10 7 0.13
11 37 0.71
12 5 0.10
13 3 0.06
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:25845766 original size:33 final size:33
Alignment explanation
Indices: 25845704--25845773 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
25845694 TAAATCCTTT
* *
25845704 CTCTCAATTTCTCTCCAATATTCTCTCAAATTC
1 CTCTCAATTCCTCTCCAATATTCTATCAAATTC
25845737 CTCTCAAATTCCTCT-CAAT-TTCCTATCAAATTC
1 CTCTC-AATTCCTCTCCAATATT-CTATCAAATTC
25845770 CTCT
1 CTCT
25845774 TAAAAAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 2 0.06
33 23 0.70
34 8 0.24
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (33 bp):
CTCTCAATTCCTCTCCAATATTCTATCAAATTC
Found at i:25846000 original size:21 final size:20
Alignment explanation
Indices: 25845975--25846040 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
25845965 ATTTTTTTGA
25845975 TTTATGTAATTTTAAATAATT
1 TTTAT-TAATTTTAAATAATT
*
25845996 TTTATT--TTATTAGA-AATT
1 TTTATTAATT-TTAAATAATT
25846014 TCTTA-TAATTTTTAAATAATT
1 T-TTATTAA-TTTTAAATAATT
25846035 TTTATT
1 TTTATT
25846041 TTATTATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTATTAATTTTAAATAATT
Found at i:25846997 original size:7 final size:7
Alignment explanation
Indices: 25846987--25847014 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
25846977 GATTGATATC
25846987 TAGTATT
1 TAGTATT
25846994 TAGTATT
1 TAGTATT
25847001 TAGTATT
1 TAGTATT
25847008 TAGTATT
1 TAGTATT
25847015 ATGTATTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TAGTATT
Found at i:25848135 original size:29 final size:32
Alignment explanation
Indices: 25848102--25848166 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
25848092 TTTGAATATT
* *
25848102 TTTATATTATTTGATGTAATAAAATAGAAATTA
1 TTTATATTATTTCACGTAATAAAATAGAAA-TA
25848135 TTCTATATTATTTCACGTAATAAAATAGAAAT
1 TT-TATATTATTTCACGTAATAAAATAGAAAT
25848167 TTACTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 3 0.10
34 26 0.90
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.43
Consensus pattern (32 bp):
TTTATATTATTTCACGTAATAAAATAGAAATA
Found at i:25850410 original size:126 final size:125
Alignment explanation
Indices: 25850185--25850475 Score: 483
Period size: 126 Copynumber: 2.3 Consensus size: 125
25850175 TCAGGCCAAA
25850185 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * *
25850250 ATCCTGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGCCTACTCGAAATTATTTTTT
66 ATCCTACTTAAAGCATTTTTGACACTATTGGCTCAGAAACGCCTACTCAAAATTA-TTTTT
* * *
25850311 CAGGAGCTACTGTAGCAGAAGTGCGTCCACGTGGGATCTTCTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * *
25850376 ATCCTACTTAAAGCGTTTTTGACACTATTGGCTCAGAAACGTCTTCTCAAAATTATTTTT
66 ATCCTACTTAAAGCATTTTTGACACTATTGGCTCAGAAACGCCTACTCAAAATTATTTTT
*
25850436 CAGGAGCTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
1 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
25850476 TTTTAAATTA
Statistics
Matches: 152, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
125 41 0.27
126 111 0.73
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (125 bp):
CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
ATCCTACTTAAAGCATTTTTGACACTATTGGCTCAGAAACGCCTACTCAAAATTATTTTT
Found at i:25850740 original size:33 final size:35
Alignment explanation
Indices: 25850678--25850743 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
25850668 TTTTCTTTAA
*
25850678 AACCCTAAACCTAAAAACAACAAAACCCTAACCCT
1 AACCCTAAAACTAAAAACAACAAAACCCTAACCCT
*
25850713 AACCCTAAAAC-AAAAAC-CCAAAACCCTAACC
1 AACCCTAAAACTAAAAACAACAAAACCCTAACC
25850744 AGCAGGAGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 13 0.45
34 6 0.21
35 10 0.34
ACGTcount: A:0.53, C:0.38, G:0.00, T:0.09
Consensus pattern (35 bp):
AACCCTAAAACTAAAAACAACAAAACCCTAACCCT
Found at i:25853720 original size:13 final size:13
Alignment explanation
Indices: 25853702--25853726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25853692 AATTTTTTTG
25853702 AAAATAAAAGAAA
1 AAAATAAAAGAAA
25853715 AAAATAAAAGAA
1 AAAATAAAAGAA
25853727 GATGAAGGAT
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAATAAAAGAAA
Found at i:25855697 original size:47 final size:45
Alignment explanation
Indices: 25855643--25855869 Score: 238
Period size: 47 Copynumber: 4.8 Consensus size: 45
25855633 ATAAAAGTTG
* * * *
25855643 CTAAAATACATTGTGGATATACCACTAGTTGAGAAGGTGACTGCGGA
1 CTAAAATACGTTGTGGATAAACCACT-GTCGAGCAGGTGACTGC-GA
25855690 CTAAAATACGTTGTGGATAAACCACTGGTCGAGCAGGTGACTGTCGA
1 CTAAAATACGTTGTGGATAAACCACT-GTCGAGCAGGTGACTG-CGA
* * *
25855737 TTAAAATATGTTGTGGATAAACCACTGCTCGAGCAGGTGACTGCCAA
1 CTAAAATACGTTGTGGATAAACCACTG-TCGAGCAGGTGACTG-CGA
* * * **
25855784 CTAAAATACGTAGTGGATAAACCACTGGTAGAACATATGACTGTCGA
1 CTAAAATACGTTGTGGATAAACCACT-GTCGAGCAGGTGACTG-CGA
* * *
25855831 CTAAGATATGTTGTGGATAAACCACTGGTCAAGCAGGTG
1 CTAAAATACGTTGTGGATAAACCACT-GTCGAGCAGGTG
25855870 TGTCACATCC
Statistics
Matches: 151, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.01
47 148 0.98
48 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (45 bp):
CTAAAATACGTTGTGGATAAACCACTGTCGAGCAGGTGACTGCGA
Found at i:25855805 original size:94 final size:93
Alignment explanation
Indices: 25855643--25855869 Score: 292
Period size: 94 Copynumber: 2.4 Consensus size: 93
25855633 ATAAAAGTTG
** * * * ** *
25855643 CTAAAATACATTGTGGATATACCACTAGTTGAGAAGGTGACTGCGGACTAAAATACGTTGTGGAT
1 CTAAAATATGTTGTGGATAAACCACT-GTCGAGCAGGTGACTGCCAACTAAAATACGTAGTGGAT
* * *
25855708 AAACCACTGGTCGAGCAGGTGACTGTCGA
65 AAACCACTGGTAGAACAGATGACTGTCGA
*
25855737 TTAAAATATGTTGTGGATAAACCACTGCTCGAGCAGGTGACTGCCAACTAAAATACGTAGTGGAT
1 CTAAAATATGTTGTGGATAAACCACTG-TCGAGCAGGTGACTGCCAACTAAAATACGTAGTGGAT
*
25855802 AAACCACTGGTAGAACATATGACTGTCGA
65 AAACCACTGGTAGAACAGATGACTGTCGA
* *
25855831 CTAAGATATGTTGTGGATAAACCACTGGTCAAGCAGGTG
1 CTAAAATATGTTGTGGATAAACCACT-GTCGAGCAGGTG
25855870 TGTCACATCC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
93 1 0.01
94 113 0.98
95 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (93 bp):
CTAAAATATGTTGTGGATAAACCACTGTCGAGCAGGTGACTGCCAACTAAAATACGTAGTGGATA
AACCACTGGTAGAACAGATGACTGTCGA
Found at i:25857871 original size:11 final size:11
Alignment explanation
Indices: 25857855--25857894 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
25857845 ATCAATCATC
25857855 ATATTTTAAAA
1 ATATTTTAAAA
25857866 ATATTTTAAAAA
1 ATATTTT-AAAA
25857878 TATGATTTTAAAA
1 -AT-ATTTTAAAA
25857891 ATAT
1 ATAT
25857895 GATAATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.35
12 6 0.23
13 6 0.23
14 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
ATATTTTAAAA
Found at i:25857887 original size:14 final size:14
Alignment explanation
Indices: 25857857--25857897 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
25857847 CAATCATCAT
25857857 ATTTT-AAAA-AT-
1 ATTTTAAAAATATG
25857868 ATTTTAAAAATATG
1 ATTTTAAAAATATG
25857882 ATTTTAAAAATATG
1 ATTTTAAAAATATG
25857896 AT
1 AT
25857898 AATTGAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 5 0.19
12 4 0.15
13 2 0.07
14 16 0.59
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (14 bp):
ATTTTAAAAATATG
Found at i:25865381 original size:40 final size:39
Alignment explanation
Indices: 25865153--25865374 Score: 261
Period size: 40 Copynumber: 5.6 Consensus size: 39
25865143 AATGATGTCT
* * * *
25865153 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACC
* *
25865193 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACC
* *
25865233 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-CC
*
25865272 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACC
*
25865312 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACC
*
25865352 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
25865375 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACC
Done.