Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 87 of 427
Found at i:22743272 original size:27 final size:27
Alignment explanation
Indices: 22743242--22743303 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
22743232 TTTAAAACCC
22743242 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
*
22743269 TA-GGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
22743296 TAGGGGTA
1 TAGGGGTA
22743304 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.12
27 24 0.75
28 4 0.12
ACGTcount: A:0.19, C:0.10, G:0.27, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:22745130 original size:19 final size:18
Alignment explanation
Indices: 22745093--22745136 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
22745083 ATACATACAG
22745093 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
22745110 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
22745129 TACTAATT
1 TAATAATT
22745137 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:22747536 original size:27 final size:27
Alignment explanation
Indices: 22747506--22747567 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
22747496 TTTAAAACCC
*
22747506 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCAGTAATTTTGCTCTT
*
22747533 TA-GGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGT-ATATCAGTAATTTTGCTCTT
22747560 TAGGGGTA
1 TAGGGGTA
22747568 ATTTCGTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.13
27 23 0.74
28 4 0.13
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCAGTAATTTTGCTCTT
Found at i:22749395 original size:19 final size:18
Alignment explanation
Indices: 22749358--22749401 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
22749348 ATACATACAG
22749358 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
22749375 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
22749394 TACTAATT
1 TAATAATT
22749402 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:22750117 original size:45 final size:45
Alignment explanation
Indices: 22750053--22750140 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
22750043 GAACTATGCG
*
22750053 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
22750098 ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATGTG
1 ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATGTG
22750141 ACACATGTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
Found at i:22762795 original size:45 final size:45
Alignment explanation
Indices: 22762726--22762812 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
22762716 AACTATGCGA
*
22762726 TCTGAACTCATTGAGTTGTAGTCTGAGTTCATGATATATGTGGCT
1 TCTGAACTCATTGAGCTGTAGTCTGAGTTCATGATATATGTGGCT
* * *
22762771 TCTGAACTCATTGAGCTGTGGTCTGATTTCATGATGTATGTG
1 TCTGAACTCATTGAGCTGTAGTCTGAGTTCATGATATATGTG
22762813 ACACGTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40
Consensus pattern (45 bp):
TCTGAACTCATTGAGCTGTAGTCTGAGTTCATGATATATGTGGCT
Found at i:22765677 original size:19 final size:19
Alignment explanation
Indices: 22765655--22765691 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22765645 TTAATTTTAG
*
22765655 TTAATTTATTTTATTTTGA
1 TTAATTTACTTTATTTTGA
*
22765674 TTAATTTCCTTTATTTTG
1 TTAATTTACTTTATTTTG
22765692 GTTTTTCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (19 bp):
TTAATTTACTTTATTTTGA
Found at i:22767411 original size:40 final size:40
Alignment explanation
Indices: 22767344--22767559 Score: 296
Period size: 40 Copynumber: 5.5 Consensus size: 40
22767334 ACCCAAGTAT
*
22767344 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
22767383 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
22767423 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
22767463 CTTCGGGTCTTAGCCTGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
22767503 CTTCGGGACATAG-CCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
22767542 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
22767560 TTATCATCCG
Statistics
Matches: 157, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 3 0.02
39 39 0.25
40 113 0.72
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:22775435 original size:40 final size:40
Alignment explanation
Indices: 22775370--22775545 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
22775360 ACCCAAGTAT
22775370 CTTCGGGAT-TTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
22775409 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
22775449 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
22775489 CTTCGGGACATAGCCC-GATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
22775528 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
22775546 TTATCATCCG
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
38 3 0.03
39 39 0.33
40 75 0.63
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:22775519 original size:79 final size:79
Alignment explanation
Indices: 22775370--22775545 Score: 232
Period size: 79 Copynumber: 2.2 Consensus size: 79
22775360 ACCCAAGTAT
* * *
22775370 CTTCGGGAT-TTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGC
22775434 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
22775449 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCC-GATATAG
1 CTTCGGGTCTTAG-CCGGATAT-AGCAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAG
*
22775512 CAACTCGCACGAATGC
64 CAACTCGCACAAATGC
*
22775528 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
22775546 TTATCATCCG
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 49 0.57
80 34 0.40
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:22776111 original size:50 final size:50
Alignment explanation
Indices: 22776036--22776273 Score: 230
Period size: 50 Copynumber: 4.7 Consensus size: 50
22776026 CGAAGCTTTT
* *
22776036 TGGTACGCATGGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATC
* * ** *
22776086 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGT-TATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCAACCTA-TCAATC
* * * *
22776137 -GAGTACGCATATTAGCCTACACTTAGTACTACACATGCGACCTATCAATC
1 TG-GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATC
* ** * *
22776187 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATC
*** * *
22776237 TTAAACACATAGTAGCCTGCACATGGTACTACACATG
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATG
22776274 TGTTCTCACA
Statistics
Matches: 152, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.02
50 110 0.72
51 36 0.24
52 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATC
Found at i:22776201 original size:101 final size:101
Alignment explanation
Indices: 22776038--22776226 Score: 333
Period size: 101 Copynumber: 1.9 Consensus size: 101
22776028 AAGCTTTTTG
* *
22776038 GTACGCATGGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTACACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTAGTAGCC
22776103 TGCACTTAGTACTACACACGTGATCGAAGTTATCGA
66 TGCACTTAGTACTACACACGTGATCGAAGTTATCGA
* *
22776139 GTACGCATATTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTACACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTAGTAGCC
*
22776204 TGCACTTAGTACTACACATGTGA
66 TGCACTTAGTACTACACACGTGA
22776227 CCTAACCATC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 83 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (101 bp):
GTACGCATAGTAGCCTACACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCGAAGTTATCGA
Found at i:22776654 original size:19 final size:20
Alignment explanation
Indices: 22776626--22776672 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
22776616 AAGAACATGT
22776626 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
22776647 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
22776666 TATATAT
1 TATATAT
22776673 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:22782928 original size:50 final size:50
Alignment explanation
Indices: 22782853--22783089 Score: 230
Period size: 50 Copynumber: 4.7 Consensus size: 50
22782843 GAAGCTTTCA
* * *
22782853 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGATCTATCAATTT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTT
* * * *
22782903 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-A--AAGTTTT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA--TTT
* * *
22782952 CGGGTACACATACTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCT
1 --GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTT
* * * * * *
22783004 AGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAAT-TT
** *
22783055 -AAACACATAGTAGCCTGCACATAGTACTACACATG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATG
22783090 TGTTCTCACA
Statistics
Matches: 153, Mismatches: 26, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
47 2 0.01
49 4 0.03
50 106 0.69
51 36 0.24
52 3 0.02
54 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTT
Found at i:22783028 original size:101 final size:101
Alignment explanation
Indices: 22782848--22783042 Score: 318
Period size: 101 Copynumber: 1.9 Consensus size: 101
22782838 TAACCGAAGC
* * * * *
22782848 TTTCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGATCTATCAATTTGGTACACGTA
1 TTTCAGGTACACATACTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTA
22782913 GTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
* * *
22782949 TTTCGGGTACACATACTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTA
1 TTTCAGGTACACATACTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTA
22783014 GTAGCCTGCACTTAGTACTACACACGTGA
66 GTAGCCTGCACTTAGTACTACACACGTGA
22783043 CCTAACCATC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 86 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (101 bp):
TTTCAGGTACACATACTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTA
GTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
Found at i:22785799 original size:26 final size:27
Alignment explanation
Indices: 22785770--22785829 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
22785760 CCACATATAT
*
22785770 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * * *
22785796 ATATTTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
22785823 ATATCTG
1 ATATCTG
22785830 GCAGCCTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:22792146 original size:39 final size:40
Alignment explanation
Indices: 22792065--22792230 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
22792055 AAATTGAATA
* * ** *
22792065 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
22792104 ATATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
22792143 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
22792183 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
22792223 ATATCCGG
1 ATATCCGG
22792231 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 47 0.45
40 55 0.53
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:22797183 original size:40 final size:40
Alignment explanation
Indices: 22797128--22797234 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
22797118 AAATTATAAA
* *
22797128 CCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATACTAT
*
22797167 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATACTAT
*
22797207 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCAATTGTGC
22797235 AAATCGTGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.02
39 15 0.25
40 41 0.69
41 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATACTAT
Found at i:22797248 original size:40 final size:40
Alignment explanation
Indices: 22797165--22797266 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
22797155 TAGTGGCTAC
* * **
22797165 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
* *
22797205 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
* * *
22797245 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGC
22797267 CTTGGTGCGG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
Found at i:22802690 original size:40 final size:40
Alignment explanation
Indices: 22802631--22802772 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
22802621 AAATTGAATA
* * *
22802631 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
22802671 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
22802711 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
22802751 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
22802773 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:22802773 original size:40 final size:39
Alignment explanation
Indices: 22802670--22802798 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
22802660 TGCTGGAAAT
* * *
22802670 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
22802710 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
22802750 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
22802790 TATATCCGG
1 TATATCCGG
22802799 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:22811982 original size:40 final size:40
Alignment explanation
Indices: 22811937--22812104 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
22811927 CGGAATACAA
22811937 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
22811977 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
22812017 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
22812057 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
22812097 CCGGATAT
1 CCGGATAT
22812105 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:22819959 original size:40 final size:40
Alignment explanation
Indices: 22819914--22820081 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
22819904 CGGAATACAA
22819914 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
22819954 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
22819994 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
22820034 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
22820074 CCGGATAT
1 CCGGATAT
22820082 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:22828984 original size:40 final size:40
Alignment explanation
Indices: 22828939--22829068 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
22828929 CGGAATACAA
22828939 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
22828979 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
22829019 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
22829059 CCGGATATAA
1 CCGGATATAA
22829069 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:22833283 original size:40 final size:40
Alignment explanation
Indices: 22833238--22833405 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
22833228 CGGAATACAA
22833238 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
22833278 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
22833318 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
22833358 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
22833398 CCGGATAT
1 CCGGATAT
22833406 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:22841244 original size:40 final size:40
Alignment explanation
Indices: 22841199--22841366 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
22841189 CGGAATACAA
22841199 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
22841239 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
22841279 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
22841319 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
22841359 CCGGATAT
1 CCGGATAT
22841367 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:22850513 original size:79 final size:80
Alignment explanation
Indices: 22850400--22850663 Score: 322
Period size: 79 Copynumber: 3.3 Consensus size: 80
22850390 GCTACTCATT
* * *
22850400 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGATCTTAACCC
22850463 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* **
22850480 CAAATGCCTTCGGGCTTAGCTCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGATCTTAACCCGG
*
22850544 ATTTAGTAACTCGCG
66 ATTTAGTAACTCGCA
* **
22850559 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGATCTTAACCCGG
* ** *
22850623 ATATAGCCACTTAGCA
66 ATTTAGTAAC-TCGCA
*
22850639 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
22850664 CATCATTCGA
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
78 3 0.02
79 129 0.79
80 32 0.20
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGATCTTAACCCGG
ATTTAGTAACTCGCA
Found at i:22850519 original size:39 final size:39
Alignment explanation
Indices: 22850400--22850663 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 39
22850390 GCTACTCATT
*
22850400 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCA
* *
22850440 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
* *
22850480 CAAATGCCTTCGGGCTTAGCTCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * *
22850519 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGTAACTCGCA
* *
22850559 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * * ** *
22850598 CAAATGCCTTCGGATCTTAGTCCGGATATAGCCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGTAAC-TCGCA
*
22850639 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
22850664 CATCATTCGA
Statistics
Matches: 191, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
39 69 0.36
40 112 0.59
41 10 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:22850657 original size:119 final size:120
Alignment explanation
Indices: 22850400--22850663 Score: 317
Period size: 119 Copynumber: 2.2 Consensus size: 120
22850390 GCTACTCATT
* * * *
22850400 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTTGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* * *
22850464 GATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCTCGGAATTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCTCGGAATTAGCAACTAGCA
* * * *
22850519 CAAATGCC-TTCGGATCTTAGTCCGGATT-TAGTAACTCGCGCAAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTTGGGA-CTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
* *
22850581 AGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAG-TCCGG-ATATAGCCACTTAGCA
65 AGAATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCT-CGGAAT-TAGCAAC-TAGCA
22850639 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTTGGGACTTAGCCCGGA
22850664 CATCATTCGA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
118 42 0.34
119 66 0.54
120 15 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTTGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCTCGGAATTAGCAACTAGCA
Found at i:22854119 original size:27 final size:27
Alignment explanation
Indices: 22854087--22854209 Score: 137
Period size: 27 Copynumber: 4.6 Consensus size: 27
22854077 TATAGGGTAG
22854087 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
22854114 ATTTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
22854141 AATTACCGAAATA-CCCTCAATTT-TAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
22854167 AATTACCAAAATACCCCT-GATTTAG-AA
1 AATTACCAAAATACCCCTAG-TTT-GTAA
*
22854194 AATTACAAAAATACCC
1 AATTACCAAAATACCC
22854210 TTGACTTTCT
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
26 20 0.25
27 60 0.75
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:22854197 original size:53 final size:55
Alignment explanation
Indices: 22854087--22854210 Score: 141
Period size: 53 Copynumber: 2.3 Consensus size: 55
22854077 TATAGGGTAG
* * *
22854087 AATTACCAAAATACCC-CTAGTTTGTAAATTTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAGTTTGTAA
* *
22854141 AATTACCGAAATACCCTC-AATTT-TAAAATTACCAAAATACCCCT-GATTTAG-AA
1 AATTACCAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAG-TTT-GTAA
*
22854194 AATTACAAAAATACCCT
1 AATTACCAAAATACCCT
22854211 TGACTTTCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
52 1 0.02
53 38 0.63
54 20 0.33
55 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (55 bp):
AATTACCAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAGTTTGTAA
Found at i:22854260 original size:27 final size:27
Alignment explanation
Indices: 22854221--22854272 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
22854211 TGACTTTCTA
22854221 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
22854248 AAAATTATTGAAATACCATTGGTTT
1 AAAATTATAGAAATACCATTGGTTT
22854273 GTAGATTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:22854390 original size:27 final size:27
Alignment explanation
Indices: 22854313--22854390 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
22854303 AAATGACTAA
* *
22854313 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
22854340 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
22854367 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
22854391 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:22855219 original size:25 final size:26
Alignment explanation
Indices: 22855190--22855312 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
22855180 GAGGAAGTGC
*
22855190 AAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
22855216 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
22855242 AAAATGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
22855268 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
22855293 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
22855313 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 31 0.35
26 57 0.65
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:22855516 original size:42 final size:42
Alignment explanation
Indices: 22855457--22855548 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
22855447 TAGTCTCTCC
* ** *
22855457 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
22855499 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
22855541 AAATGGGC
1 AAATGGGC
22855549 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:22855649 original size:31 final size:31
Alignment explanation
Indices: 22855572--22855650 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
22855562 CGTTTACAGT
*
22855572 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
22855603 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
22855634 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
22855651 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:22858154 original size:27 final size:26
Alignment explanation
Indices: 22858051--22858146 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 26
22858041 TATAGGGTAG
22858051 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
* *
22858078 ATTTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* *
22858105 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
22858132 AATTACCAAAATACC
1 AATTACCAAAATACC
22858147 TCTGATTTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
26 4 0.07
27 56 0.93
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:22858162 original size:54 final size:55
Alignment explanation
Indices: 22858051--22858231 Score: 147
Period size: 54 Copynumber: 3.3 Consensus size: 55
22858041 TATAGGGTAG
* * * ***
22858051 AATTACCAAAATACCC-CTAGTTTGTAAATTTACCAAAATACCACTAGTTTGTGA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAGTTTACCA
*
22858105 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCTCT-GATTTACCA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAG-TTTACCA
** * * * * * *
22858159 AATTATAGAAATACCCT-TGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTCT-AATTTGT-AAAATTACCA-AAATACCACTAGTTTACCA
*
22858215 AATTACTGAAATACCCT
1 AATTACCGAAATACCCT
22858232 TGGTTTGTAG
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
53 1 0.01
54 58 0.56
55 7 0.07
56 36 0.35
57 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (55 bp):
AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAGTTTACCA
Found at i:22858170 original size:27 final size:27
Alignment explanation
Indices: 22858140--22858229 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
22858130 AAAATTACCA
*
22858140 AAATACCTCTGATTTACCAAATTATAG
1 AAATACCTCTGATTTACAAAATTATAG
22858167 AAATACC-CTTGACTTT-CTAAAAATTATAG
1 AAATACCTC-TGA-TTTAC--AAAATTATAG
*
22858196 AAATACCAT-TGGTTTACAAAATTACT-G
1 AAATACC-TCTGATTTACAAAATTA-TAG
22858223 AAATACC
1 AAATACC
22858230 CTTGGTTTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
26 1 0.02
27 26 0.49
28 7 0.13
29 19 0.36
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATACCTCTGATTTACAAAATTATAG
Found at i:22858234 original size:27 final size:27
Alignment explanation
Indices: 22858152--22858237 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
22858142 ATACCTCTGA
* * *
22858152 TTTACCAAATTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
22858180 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
22858208 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
22858235 TTT
1 TTT
22858238 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 23 0.46
28 7 0.14
29 20 0.40
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:22859181 original size:26 final size:26
Alignment explanation
Indices: 22859152--22859274 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
22859142 GAGGAAGTGC
*
22859152 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
22859178 AAAAGGGATTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* * *
22859204 AAAAGGGCTTATGTCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
22859230 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
22859256 -AAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
22859275 ATTAAAGAGG
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
24 9 0.10
25 9 0.10
26 68 0.79
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:22859230 original size:52 final size:52
Alignment explanation
Indices: 22859152--22859274 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
22859142 GAGGAAGTGC
* *
22859152 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGATTATGCCCCAGTTTACCG
* *
22859204 AAAAGGGCTTATGTCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGATTATGCCCCAGTTTACCG
22859256 -AAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCTAGTT
22859275 ATTAAAGAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 9 0.14
51 9 0.14
52 48 0.73
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGATTATGCCCCAGTTTACCG
Found at i:22859478 original size:42 final size:42
Alignment explanation
Indices: 22859419--22859509 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
22859409 TAGTCTCCCC
* ** *
22859419 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
22859461 AAATGGGCTTGTATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
22859503 AAATGGG
1 AAATGGG
22859510 TCTAAAGGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:22859569 original size:31 final size:31
Alignment explanation
Indices: 22859534--22859643 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
22859524 CGTTTACAGT
*
22859534 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
22859565 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
22859596 AAAGGCTTCGGCCCAGTGATATGATTTACGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
22859627 AAAGGCTTCGACCCAGT
1 AAAGGCTTCGGCCCAGT
22859644 AACCGTTAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:22863452 original size:34 final size:34
Alignment explanation
Indices: 22863413--22863494 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
22863403 TATACTGAAT
* **
22863413 TGGGCTAAGGCCTACACAGATACTGGTACT-ATAA
1 TGGGCTAAGGCCCACACAGATACTGCCACTGAT-A
* * *
22863447 TGGGCTAGGGCCCACACTGATATTGCCACTGATA
1 TGGGCTAAGGCCCACACAGATACTGCCACTGATA
22863481 TGGGCTAAGGCCCA
1 TGGGCTAAGGCCCA
22863495 GACCATTTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 38 0.95
35 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACAGATACTGCCACTGATA
Found at i:22864303 original size:14 final size:15
Alignment explanation
Indices: 22864286--22864314 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22864276 TCACAAAAAT
22864286 TTCACACAT-ATAAA
1 TTCACACATAATAAA
22864300 TTCACACATAATAAA
1 TTCACACATAATAAA
22864315 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:22866775 original size:26 final size:26
Alignment explanation
Indices: 22866740--22866803 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 26
22866730 TTATTGAATT
22866740 TTTGATGAAATGAGCTATTT-GGACTAA
1 TTTG-TGAAATGAGCT-TTTAGGACTAA
*
22866767 TTTGTGAAAATGAGGTTTTGAAGGACTAA
1 TTTGTG-AAATGAGCTTTT--AGGACTAA
22866796 TTTGTGAA
1 TTTGTGAA
22866804 TTAAACATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 5 0.16
27 12 0.38
28 2 0.06
29 13 0.41
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (26 bp):
TTTGTGAAATGAGCTTTTAGGACTAA
Found at i:22866777 original size:27 final size:27
Alignment explanation
Indices: 22866747--22866803 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 27
22866737 ATTTTTGATG
22866747 AAATGAGCTATTT-GGACTAATTTGTGA
1 AAATGAGCT-TTTAGGACTAATTTGTGA
*
22866774 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTT--AGGACTAATTTGTGA
22866803 A
1 A
22866804 TTAAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 3 0.12
27 8 0.31
29 15 0.58
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (27 bp):
AAATGAGCTTTTAGGACTAATTTGTGA
Found at i:22887666 original size:44 final size:43
Alignment explanation
Indices: 22887579--22887736 Score: 112
Period size: 44 Copynumber: 3.7 Consensus size: 43
22887569 CGTTGGTATT
* *
22887579 GATTTAAATTATCGTATAAGACCATGTCTGGGACACTAGCATC
1 GATTTAAATTATCGTATAAGACCATGTCTAGGACACGAGCATC
*
22887622 GATTTGAAATT-TACGTGTAAGACCATGTCTAGGACATCGA-CATC
1 GATTT-AAATTAT-CGTATAAGACCATGTCTAGGACA-CGAGCATC
* * * * **
22887666 GTATCT--GTTTTCGTATAAGACCCTGTCGGGGACA-GAGGCATC
1 G-ATTTAAATTATCGTATAAGACCATGTCTAGGACACGA-GCATC
* * *
22887708 GATTTTGAATTA-CATATAAGACCACGTCT
1 GA-TTTAAATTATCGTATAAGACCATGTCT
22887737 GGAACTTCGT
Statistics
Matches: 89, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 28 0.31
43 20 0.22
44 33 0.37
45 5 0.06
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (43 bp):
GATTTAAATTATCGTATAAGACCATGTCTAGGACACGAGCATC
Found at i:22892257 original size:288 final size:288
Alignment explanation
Indices: 22891741--22892316 Score: 1152
Period size: 288 Copynumber: 2.0 Consensus size: 288
22891731 GTTCTATCAT
22891741 ATGCGTATGCTTGTGGAAATTATGTATTTAGAATATAAATTTTTTAGAAAATAAAATAATTATTT
1 ATGCGTATGCTTGTGGAAATTATGTATTTAGAATATAAATTTTTTAGAAAATAAAATAATTATTT
22891806 TAACCTAAAACTAAAACTATCCCTAAATTGACTATTCGTTTCTCCTATTCCTAGTTTCACGACGC
66 TAACCTAAAACTAAAACTATCCCTAAATTGACTATTCGTTTCTCCTATTCCTAGTTTCACGACGC
22891871 GAATCCTTTTAGCCAAGAATCAAATTTAGCCCAAACTATTAATTAAGTCAACGATTACCTTCCAT
131 GAATCCTTTTAGCCAAGAATCAAATTTAGCCCAAACTATTAATTAAGTCAACGATTACCTTCCAT
22891936 TAACTATTTCCTACCCTTTGTTAAGAAACCCTCTCGGTTACATCTTCAGCAAGAATTACTGCCTA
196 TAACTATTTCCTACCCTTTGTTAAGAAACCCTCTCGGTTACATCTTCAGCAAGAATTACTGCCTA
22892001 AGATGGTCTCACCTAGTCATAAAGATAC
261 AGATGGTCTCACCTAGTCATAAAGATAC
22892029 ATGCGTATGCTTGTGGAAATTATGTATTTAGAATATAAATTTTTTAGAAAATAAAATAATTATTT
1 ATGCGTATGCTTGTGGAAATTATGTATTTAGAATATAAATTTTTTAGAAAATAAAATAATTATTT
22892094 TAACCTAAAACTAAAACTATCCCTAAATTGACTATTCGTTTCTCCTATTCCTAGTTTCACGACGC
66 TAACCTAAAACTAAAACTATCCCTAAATTGACTATTCGTTTCTCCTATTCCTAGTTTCACGACGC
22892159 GAATCCTTTTAGCCAAGAATCAAATTTAGCCCAAACTATTAATTAAGTCAACGATTACCTTCCAT
131 GAATCCTTTTAGCCAAGAATCAAATTTAGCCCAAACTATTAATTAAGTCAACGATTACCTTCCAT
22892224 TAACTATTTCCTACCCTTTGTTAAGAAACCCTCTCGGTTACATCTTCAGCAAGAATTACTGCCTA
196 TAACTATTTCCTACCCTTTGTTAAGAAACCCTCTCGGTTACATCTTCAGCAAGAATTACTGCCTA
22892289 AGATGGTCTCACCTAGTCATAAAGATAC
261 AGATGGTCTCACCTAGTCATAAAGATAC
22892317 TCCCTAGGTC
Statistics
Matches: 288, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
288 288 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (288 bp):
ATGCGTATGCTTGTGGAAATTATGTATTTAGAATATAAATTTTTTAGAAAATAAAATAATTATTT
TAACCTAAAACTAAAACTATCCCTAAATTGACTATTCGTTTCTCCTATTCCTAGTTTCACGACGC
GAATCCTTTTAGCCAAGAATCAAATTTAGCCCAAACTATTAATTAAGTCAACGATTACCTTCCAT
TAACTATTTCCTACCCTTTGTTAAGAAACCCTCTCGGTTACATCTTCAGCAAGAATTACTGCCTA
AGATGGTCTCACCTAGTCATAAAGATAC
Found at i:22894655 original size:13 final size:13
Alignment explanation
Indices: 22894637--22894664 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22894627 ATGTATTTAT
22894637 GTAGTGGACGGTG
1 GTAGTGGACGGTG
22894650 GTAGTGGACGGTG
1 GTAGTGGACGGTG
22894663 GT
1 GT
22894665 GGGGGCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.54, T:0.25
Consensus pattern (13 bp):
GTAGTGGACGGTG
Found at i:22896954 original size:33 final size:33
Alignment explanation
Indices: 22896896--22896958 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
22896886 AGTCCATAGC
* *
22896896 TGGGTTATGGCATTCTGATGATAAGACCATAAT
1 TGGGTTATGGCATTCGGAAGATAAGACCATAAT
22896929 TGGGTTATGGCATTACGGAAG-TAAGACCAT
1 TGGGTTATGGCATT-CGGAAGATAAGACCAT
22896959 GGTTGGACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 23 0.85
34 4 0.15
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (33 bp):
TGGGTTATGGCATTCGGAAGATAAGACCATAAT
Found at i:22896994 original size:101 final size:101
Alignment explanation
Indices: 22896850--22897161 Score: 446
Period size: 101 Copynumber: 3.1 Consensus size: 101
22896840 ATTCAAAAGG
** * * *
22896850 AAGACCATGGTTGGATTATGGCAGCGTTTATATGTAAGTCCATAGCTGGGTTATGGCATTCTGAT
1 AAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
*
22896915 GATAAGACCATAATTGGGTTATGGCATTACGGAA-GT
66 GATAAGACCATAACTGGGTTATGGCATTAC-GAACGT
* * *
22896951 AAGACCATGGTTGGACCATGGCGGTGTTTATATGTAAGACCATAGCTGAGCTATAGCATTCTGAT
1 AAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
* *
22897016 GATAAGATCATAACTGGATTATGGCATTACGAACGT
66 GATAAGACCATAACTGGGTTATGGCATTACGAACGT
* * *
22897052 AATATCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
1 AAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
* * **
22897117 GATAAGACCATAACTGGGTTATGGCACTATGAATAT
66 GATAAGACCATAACTGGGTTATGGCATTACGAACGT
22897153 AAGACCATG
1 AAGACCATG
22897162 ACAGGGTCAT
Statistics
Matches: 185, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 3 0.02
101 182 0.98
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (101 bp):
AAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
GATAAGACCATAACTGGGTTATGGCATTACGAACGT
Found at i:22897155 original size:33 final size:33
Alignment explanation
Indices: 22897086--22897175 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
22897076 TGTTTATATG
* * * * *
22897086 TAAGACCATAGCTGGGCTATGACATTCTGATGA
1 TAAGACCATAACTGGGTTATGGCACTATGATGA
22897119 TAAGACCATAACTGGGTTATGGCACTATGAAT-A
1 TAAGACCATAACTGGGTTATGGCACTATG-ATGA
* * *
22897152 TAAGACCATGACAGGGTCATGGCA
1 TAAGACCATAACTGGGTTATGGCA
22897176 ATGCATATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 46 0.96
34 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (33 bp):
TAAGACCATAACTGGGTTATGGCACTATGATGA
Found at i:22898219 original size:27 final size:27
Alignment explanation
Indices: 22898189--22898347 Score: 167
Period size: 27 Copynumber: 5.9 Consensus size: 27
22898179 AAAGTACTCC
22898189 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
22898216 CGATTTTTAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
22898243 CGATTTGTAAAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
22898270 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
22898297 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
22898324 TGATTTACAGAATTACCATTTTAC
1 CGATTTACAGAATTACCGTTTTAC
22898348 ACTTGATTGT
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 107 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:22898338 original size:81 final size:81
Alignment explanation
Indices: 22898190--22898338 Score: 185
Period size: 81 Copynumber: 1.8 Consensus size: 81
22898180 AAGTACTCCC
* ** * **
22898190 GATTTACAGAATTACCGTTTTACCCTCGATTTTTAGAATTACTGTTTTACCCTCGATTTGTAAAA
1 GATTTACAGAATTACCGGTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAA
22898255 TTATTGTTTTACCCTT
66 TTATTGTTTTACCCTT
* * *
22898271 GATTTACAGAATTACTGGTTTACCCTC-AGTTTACAAAATTA-TCGTTTTACCCTTGATTTACAG
1 GATTTACAGAATTACCGGTTTACCCTCGA-TTTACAAAATTACT-GTTTTACCCTCGATTTACAA
22898334 AATTA
64 AATTA
22898339 CCATTTTACA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
80 2 0.04
81 55 0.96
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (81 bp):
GATTTACAGAATTACCGGTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAA
TTATTGTTTTACCCTT
Found at i:22898347 original size:54 final size:54
Alignment explanation
Indices: 22898189--22898339 Score: 205
Period size: 54 Copynumber: 2.8 Consensus size: 54
22898179 AAAGTACTCC
* * * **
22898189 CGATTTACAGAATTACCGTTTTACCCTCGATTTTTAGAATTACTGTTTTACCCT
1 CGATTTACAAAATTATCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCT
** * *
22898243 CGATTTGTAAAATTATTGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAAAATTATCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCT
22898297 C-AGTTTACAAAATTATCGTTTTACCCTTGATTTACAGAATTAC
1 CGA-TTTACAAAATTATCGTTTTACCCTTGATTTACAGAATTAC
22898340 CATTTTACAC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 83 0.99
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.42
Consensus pattern (54 bp):
CGATTTACAAAATTATCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCT
Found at i:22898398 original size:27 final size:27
Alignment explanation
Indices: 22898360--22898555 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
22898350 TTGATTGTGA
*
22898360 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
22898387 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
22898414 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
22898441 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
22898468 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
22898495 AAATGCCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
22898522 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
22898549 AATTACC
1 AATTACC
22898556 ATTTTGCCCC
Statistics
Matches: 141, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:22898424 original size:54 final size:54
Alignment explanation
Indices: 22898360--22898556 Score: 261
Period size: 54 Copynumber: 3.6 Consensus size: 54
22898350 TTGATTGTGA
* * * *
22898360 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
22898414 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
22898468 AATTA-TCGAAATACCCTTGTAGGGTAGAAATGCCAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * * *
22898522 AATTACCGAGATACCTTTGTGGGGTAAAATTACCA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCA
22898557 TTTTGCCCCT
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 123 0.99
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:22898821 original size:27 final size:26
Alignment explanation
Indices: 22898754--22898836 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 26
22898744 CGGAGGAAGC
*
22898754 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
22898781 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
22898807 GTATCTGGTGACTCT-CTTACAATATCT
1 GT-TCTGGTGGCTCTGC-CACAATATCT
22898834 GTT
1 GTT
22898837 GACTCTGTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
26 11 0.22
27 40 0.78
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:22898832 original size:21 final size:21
Alignment explanation
Indices: 22898808--22898860 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
22898798 ACAATATCTG
* *
22898808 TATCTGGTGACTCTCTTACAA
1 TATCTGTTGACTCTCTCACAA
*
22898829 TATCTGTTGACTCTGTCACAA
1 TATCTGTTGACTCTCTCACAA
22898850 TATCTGTTGAC
1 TATCTGTTGAC
22898861 CGATCGATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (21 bp):
TATCTGTTGACTCTCTCACAA
Found at i:22898977 original size:22 final size:23
Alignment explanation
Indices: 22898952--22899003 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
22898942 TTAATTGCTC
22898952 TGTGCCAACCTAGA-TATGGCTT
1 TGTGCCAACCTAGACTATGGCTT
* *
22898974 TGTGCC-ATCTTGACTATGGCTT
1 TGTGCCAACCTAGACTATGGCTT
*
22898996 CGTGCCAA
1 TGTGCCAA
22899004 ACGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 5 0.20
22 19 0.76
23 1 0.04
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (23 bp):
TGTGCCAACCTAGACTATGGCTT
Found at i:22899190 original size:27 final size:27
Alignment explanation
Indices: 22899160--22899236 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
22899150 TATTCTGTTA
* *
22899160 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
22899187 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * *
22899214 GGTGACTCTGTCACGATATCTGT
1 GGTGGCTCTGCCACAATATCTGT
22899237 TTTGGCAGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:22899354 original size:6 final size:6
Alignment explanation
Indices: 22899343--22899516 Score: 126
Period size: 6 Copynumber: 28.7 Consensus size: 6
22899333 CTGGATTGGG
* *
22899343 TTCTGA TTCTGA TTCTG- TCACCTAA TTCTGA TTCTGA TTCTGA TTCTG-
1 TTCTGA TTCTGA TTCTGA T--TCTGA TTCTGA TTCTGA TTCTGA TTCTGA
* * * * *
22899391 TTACTAA TACTGA TTCTGA TTCTGA TTCTGA TTCTAA TTCTG- TCACCTAA
1 TT-CTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA T--TCTGA
* * *
22899441 TTTTGA TTCTGA TTCTGA TTCTG- TTACTAA TAT-TGA TTCTAA TTCTGA
1 TTCTGA TTCTGA TTCTGA TTCTGA TT-CTGA T-TCTGA TTCTGA TTCTGA
* *
22899489 TTCTG- TTATTGG TTCTGA TTCTGA TTCT
1 TTCTGA TT-CTGA TTCTGA TTCTGA TTCT
22899517 CATTTTGGTT
Statistics
Matches: 131, Mismatches: 23, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
5 9 0.07
6 111 0.85
7 8 0.06
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
TTCTGA
Found at i:22899505 original size:73 final size:73
Alignment explanation
Indices: 22899343--22899493 Score: 266
Period size: 73 Copynumber: 2.1 Consensus size: 73
22899333 CTGGATTGGG
*
22899343 TTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCT
1 TTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCT
*
22899408 GATTCTGA
66 AATTCTGA
* *
22899416 TTCTGATTCTAATTCTGTCACCTAATTTTGATTCTGATTCTGATTCTGTTACTAATATTGATTCT
1 TTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCT
22899481 AATTCTGA
66 AATTCTGA
22899489 TTCTG
1 TTCTG
22899494 TTATTGGTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (73 bp):
TTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCT
AATTCTGA
Found at i:22899524 original size:24 final size:23
Alignment explanation
Indices: 22899477--22899537 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
22899467 CTAATATTGA
*
22899477 TTCTAATTCTGATTCTGTTATTGG
1 TTCTAATTCTGATTCTATT-TTGG
*
22899501 TTCTGATTCTGATTCTCATTTTGG
1 TTCTAATTCTGATTCT-ATTTTGG
*
22899525 TTCCAATTCTGAT
1 TTCTAATTCTGAT
22899538 AATGTTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 30 0.94
25 2 0.06
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.52
Consensus pattern (23 bp):
TTCTAATTCTGATTCTATTTTGG
Found at i:22901563 original size:27 final size:27
Alignment explanation
Indices: 22901533--22901780 Score: 345
Period size: 27 Copynumber: 9.2 Consensus size: 27
22901523 AAAGTACTCC
*
22901533 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
22901560 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
22901587 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
22901614 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
22901641 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
22901668 CGATTTATAGAGTTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
22901695 CGATTTGTAAAATTACTGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
22901722 TGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
22901749 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
22901776 TGATT
1 CGATT
22901781 GTGAAATTAC
Statistics
Matches: 195, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 193 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:22901815 original size:27 final size:27
Alignment explanation
Indices: 22901785--22901961 Score: 219
Period size: 27 Copynumber: 6.6 Consensus size: 27
22901775 TTGATTGTGA
*
22901785 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
22901812 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
** * *
22901839 AATTATTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
22901866 AATTACCAAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
22901893 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
22901920 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
22901947 AATTACCGAGATACC
1 AATTACCGAAATACC
22901962 TTTGTGGGGT
Statistics
Matches: 127, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:22901853 original size:54 final size:54
Alignment explanation
Indices: 22901785--22901951 Score: 244
Period size: 54 Copynumber: 3.1 Consensus size: 54
22901775 TTGATTGTGA
* * * *
22901785 AATTACTGAAATACCCCTATAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTATTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
22901839 AATTATTGAAATACCCTTATAGGATAGAATTACCAAAATACTCCTGTAGGGTAG
1 AATTATTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
22901893 AATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
22901947 AATTA
1 AATTA
22901952 CCGAGATACC
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTATTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:22902217 original size:27 final size:26
Alignment explanation
Indices: 22902179--22902261 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
22902169 CGGAGGAAGC
*
22902179 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
22902206 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
22902232 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
22902259 GTT
1 GTT
22902262 GACCGATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:22902381 original size:22 final size:22
Alignment explanation
Indices: 22902349--22902407 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
22902339 CCCGTTATTA
*
22902349 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
22902371 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
22902393 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
22902408 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:22902579 original size:25 final size:27
Alignment explanation
Indices: 22902547--22902611 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
22902537 TATGGCTTTG
*
22902547 TGCCACA-TATTCTG-TT-AGGTGGCTT
1 TGCCACATTA-TCTGATTCAGGTGGCTC
*
22902572 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACATTATCTGATTCAGGTGGCTC
*
22902599 TGCCACAATATCT
1 TGCCACATTATCT
22902612 ATATCTGGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.32
26 4 0.12
27 19 0.56
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (27 bp):
TGCCACATTATCTGATTCAGGTGGCTC
Found at i:22902635 original size:26 final size:27
Alignment explanation
Indices: 22902564--22902642 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
22902554 TATTCTGTTA
* *
22902564 GGTGGCTTTGCCACATTATCTGATTCT
1 GGTGGCTCTGCCACAATATCTGATTCT
22902591 GGTGGCTCTGCCACAATATCT-ATATCT
1 GGTGGCTCTGCCACAATATCTGAT-TCT
* *
22902618 GGT-GCTCTGTCACGATATCTG-TTCT
1 GGTGGCTCTGCCACAATATCTGATTCT
22902643 AGCAGCCATG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.07
26 18 0.39
27 25 0.54
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGATTCT
Found at i:22902771 original size:6 final size:6
Alignment explanation
Indices: 22902762--22902930 Score: 161
Period size: 6 Copynumber: 27.8 Consensus size: 6
22902752 TTGCATTCAC
* *
22902762 ATTCTG ATTCTG ATTCTG -TCATCTA ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
22902811 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
*
22902860 ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG
22902908 -TTACTG ATTCTG ATTCTG ATTCT
1 ATT-CTG ATTCTG ATTCTG ATTCT
22902931 CATTTTGGTT
Statistics
Matches: 135, Mismatches: 14, Indels: 28
0.76 0.08 0.16
Matches are distributed among these distances:
5 9 0.07
6 114 0.84
7 9 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:22902870 original size:67 final size:67
Alignment explanation
Indices: 22902762--22902907 Score: 265
Period size: 67 Copynumber: 2.2 Consensus size: 67
22902752 TTGCATTCAC
* *
22902762 ATTCTGATTCTGATTCTGTCATCTAATTCTGATTTTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
22902827 TG
66 TG
*
22902829 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
22902894 TG
66 TG
22902896 ATTCTGATTCTG
1 ATTCTGATTCTG
22902908 TTACTGATTC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 76 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (67 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TG
Found at i:22902948 original size:30 final size:30
Alignment explanation
Indices: 22902762--22902951 Score: 186
Period size: 30 Copynumber: 6.1 Consensus size: 30
22902752 TTGCATTCAC
* *
22902762 ATTCTGATTCTGATTCTGTCATCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CCAATTCTG
* *
22902793 ATTTTGATTCTGATTCTGTTACTAATACTGATTCTG
1 ATTCTGATTCTGATTCTGTTAC-----C-AATTCTG
*
22902829 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
22902860 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
**
22902890 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
22902920 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
22902950 AT
1 AT
22902952 AATGTTTCTT
Statistics
Matches: 136, Mismatches: 14, Indels: 19
0.80 0.08 0.11
Matches are distributed among these distances:
29 1 0.01
30 57 0.42
31 52 0.38
36 26 0.19
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:22907619 original size:54 final size:54
Alignment explanation
Indices: 22907553--22907684 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 54
22907543 GATCAATTGC
* *
22907553 TCAGTAACAATCAGTTATTCAGTAATAGCCATTTATTCATTAATAGTCAATTAT
1 TCAGTAACAATCAGTTATTCAGTAATAGCCATTTATTCACTAACAGTCAATTAT
* ** *
22907607 TCAGTAATAATCAGTTATTCAGTAATAGTTATTTATTCACTAACAGTTAATTAT
1 TCAGTAACAATCAGTTATTCAGTAATAGCCATTTATTCACTAACAGTCAATTAT
* * **
22907661 TCACTAGCAGCCAGTTATTCAGTA
1 TCAGTAACAATCAGTTATTCAGTA
22907685 CCTTTATTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (54 bp):
TCAGTAACAATCAGTTATTCAGTAATAGCCATTTATTCACTAACAGTCAATTAT
Found at i:22907642 original size:18 final size:18
Alignment explanation
Indices: 22907553--22907663 Score: 105
Period size: 18 Copynumber: 6.2 Consensus size: 18
22907543 GATCAATTGC
* * *
22907553 TCAGTAACAATCAGTTAT
1 TCAGTAATAGTCAATTAT
* *
22907571 TCAGTAATAGCCATTTAT
1 TCAGTAATAGTCAATTAT
*
22907589 TCATTAATAGTCAATTAT
1 TCAGTAATAGTCAATTAT
* *
22907607 TCAGTAATAATCAGTTAT
1 TCAGTAATAGTCAATTAT
* *
22907625 TCAGTAATAGTTATTTAT
1 TCAGTAATAGTCAATTAT
* * *
22907643 TCACTAACAGTTAATTAT
1 TCAGTAATAGTCAATTAT
22907661 TCA
1 TCA
22907664 CTAGCAGCCA
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 77 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (18 bp):
TCAGTAATAGTCAATTAT
Found at i:22909117 original size:4 final size:4
Alignment explanation
Indices: 22909108--22909135 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
22909098 TTGTCTCTCT
22909108 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
22909136 ATATAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:22915124 original size:29 final size:29
Alignment explanation
Indices: 22915091--22915191 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
22915081 TGAGAGATTA
22915091 GCACTAAGTGTGCGAGCTTGAAATGCATG
1 GCACTAAGTGTGCGAGCTTGAAATGCATG
*
22915120 GCACTGAGTGTGCGAGCTTGAAATGCATG
1 GCACTAAGTGTGCGAGCTTGAAATGCATG
* **
22915149 GCACTAAGTGTGCGAG-TTTAAAGTATATG
1 GCACTAAGTGTGCGAGCTTGAAA-TGCATG
22915178 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
22915192 CGGCTGATTA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 5 0.08
29 61 0.92
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTTGAAATGCATG
Found at i:22920127 original size:46 final size:47
Alignment explanation
Indices: 22919961--22920130 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 47
22919951 TGTAACCCGC
* *
22919961 CCATAAGCGAACTCGGACTCAACTCAATGAGCTC-GAGCGTTCGCAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCGCAT
* * * *
22920007 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA-G-C--GTTCGCAT
*
22920057 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGA-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCGCAT
*
22920100 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
22920131 TTCATATGCC
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 55 0.53
47 29 0.28
48 3 0.03
49 2 0.02
50 2 0.02
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCGCAT
Found at i:22920140 original size:93 final size:93
Alignment explanation
Indices: 22919968--22920140 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
22919958 CGCCCATAAG
*
22919968 CGAACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCAGCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAGCCATAAGTGAACTCGGACTCAACTCA
* *
22920033 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
22920061 CGAACTCGGACTCAACTCAACGAGCTCG-GACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAG-CGTTCGCAGCCATAAGTGAACTCGGACTCAACTC
*
22920125 AACGAGTTCATATGCC
65 AACGAGTTCAGATGCC
22920141 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAGCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:22928021 original size:2 final size:2
Alignment explanation
Indices: 22928016--22928044 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22928006 TATATATATA
22928016 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
22928045 TAAAGTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:22930257 original size:41 final size:40
Alignment explanation
Indices: 22930212--22930325 Score: 124
Period size: 40 Copynumber: 2.8 Consensus size: 40
22930202 ATGTGTGTGT
*
22930212 GCATTAGAATTGAGAGTTATATCCGGGCTAAGTCCCGAAGA
1 GCATTAGAACTG-GAGTTATATCCGGGCTAAGTCCCGAAGA
* ** *
22930253 GCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGA
1 GCATTAGAACTGGAGTTATATCCGGGCTAAGTCCCGAAGA
* *
22930293 GCATTCATG--CTGGTGTTACATCCGGGCTAAGTC
1 GCATT-A-GAACTGGAGTTATATCCGGGCTAAGTC
22930326 TTGAAGGGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 55 0.86
41 8 0.12
42 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GCATTAGAACTGGAGTTATATCCGGGCTAAGTCCCGAAGA
Found at i:22930271 original size:40 final size:40
Alignment explanation
Indices: 22930227--22930325 Score: 180
Period size: 40 Copynumber: 2.5 Consensus size: 40
22930217 AGAATTGAGA
*
22930227 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGT
22930267 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGT
*
22930307 GTTACATCCGGGCTAAGTC
1 GTTATATCCGGGCTAAGTC
22930326 TTGAAGGGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGT
Found at i:22930476 original size:43 final size:43
Alignment explanation
Indices: 22930339--22930478 Score: 172
Period size: 43 Copynumber: 3.3 Consensus size: 43
22930329 AAGGGAATTC
* * * * *
22930339 GTGCCGGTGATGTGAAATCAGGCCTTCATGCCTAGCAGGCTTT
1 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
* * *
22930382 GTGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAGCAGGCTTC
1 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
* * *
22930425 GTGTCGGTGATGTGTATTTGGGTCTTCGTGCCTAGCAGGCTTA
1 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
*
22930468 ATGCCGGTGAT
1 GTGCCGGTGAT
22930479 TCGAGCAAAG
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.33
Consensus pattern (43 bp):
GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
Found at i:22930636 original size:25 final size:25
Alignment explanation
Indices: 22930597--22930651 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
22930587 TGTGTAATAA
22930597 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
*
22930622 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGCACTATGTGTG
22930647 CGAAT
1 CGAAT
22930652 TCTTTAACCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:22933858 original size:2 final size:2
Alignment explanation
Indices: 22933853--22933879 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22933843 TATATATATA
22933853 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
22933880 TAAAGTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:22935479 original size:39 final size:39
Alignment explanation
Indices: 22935436--22935612 Score: 273
Period size: 39 Copynumber: 4.5 Consensus size: 39
22935426 GTGTTACACC
* *
22935436 ATGTGCTAGAATTATATCCGGACTTAGGGTCCGTAGGCT
1 ATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
*
22935475 ATGTGCTGGAATTATATCCGAACTTAGGGTCCGCAGGCT
1 ATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
22935514 ATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
1 ATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
* * *
22935553 ATGTGCTGGAATTATATCTGGACTTAAGGTCCGTAGGCT
1 ATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
* * *
22935592 ACGTGCTGGAAATATGTCCGG
1 ATGTGCTGGAATTATATCCGG
22935613 GCTAAAGTCC
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 127 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (39 bp):
ATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
Found at i:22935630 original size:39 final size:39
Alignment explanation
Indices: 22935438--22935646 Score: 240
Period size: 39 Copynumber: 5.4 Consensus size: 39
22935428 GTTACACCAT
* * * *
22935438 GTGCTAGAATTATATCCGGACTTAGGGTCCGTAGGCTAT
1 GTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTAC
* * *
22935477 GTGCTGGAATTATATCCGAACTTAGGGTCCGCAGGCTAT
1 GTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTAC
* *
22935516 GTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTAT
1 GTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTAC
* *
22935555 GTGCTGGAATTATATCTGGACTTAAGGTCCGTAGGCTAC
1 GTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTAC
* * * * *
22935594 GTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCTTC
1 GTGCTGGAATTATATCCGGACTTAAGGT-CCGCAGGCTAC
* *
22935633 GAGCTGGTATTATA
1 GTGCTGGAATTATA
22935647 CCAGGTTTAA
Statistics
Matches: 150, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 5 0.03
39 145 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
GTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTAC
Found at i:22935639 original size:117 final size:117
Alignment explanation
Indices: 22935436--22935646 Score: 282
Period size: 117 Copynumber: 1.8 Consensus size: 117
22935426 GTGTTACACC
* * *
22935436 ATGTGCTAGAATTATATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAATTATATCCGAACTTA
1 ATGTGCTAGAATTATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATATCCGAACTTA
** *
22935501 GGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
66 AAGTCCGCAGGCTATGAGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
* * * **
22935553 ATGTGCTGGAATTATATCTGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATGTCCGGGC-TA
1 ATGTGCTAGAATTATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATATCCGAACTTA
*
22935617 AAGTCCCGCAGGCT-TCGAGCTGGTATTATA
66 AAGT-CCGCAGGCTAT-GAGCTGGAATTATA
22935647 CCAGGTTTAA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
116 5 0.06
117 75 0.94
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (117 bp):
ATGTGCTAGAATTATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATATCCGAACTTA
AAGTCCGCAGGCTATGAGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
Found at i:22935667 original size:117 final size:117
Alignment explanation
Indices: 22935436--22935682 Score: 270
Period size: 117 Copynumber: 2.1 Consensus size: 117
22935426 GTGTTACACC
* * * *
22935436 ATGTGCTAGAATTATATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAATTATATCCGAACTTA
1 ATGTGCTGGAATTATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATATCCGAACTTA
** * **
22935501 GGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
66 AAGTCCGCAGGCTATGAGCTGGAATTATATCCGGACTTAAAGTCCGCAGGCT
* * **
22935553 ATGTGCTGGAATTATATCTGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATGTCCGGGC-TA
1 ATGTGCTGGAATTATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATATCCGAACTTA
* * *
22935617 AAGTCCCGCAGGCT-TCGAGCTGGTATTATA-CCAGG-TTTAAATTCCAGCAGGCT
66 AAGT-CCGCAGGCTAT-GAGCTGGAATTATATCC-GGACTTAAAGTCC-GCAGGCT
22935670 -TGTGCTGGTAATT
1 ATGTGCTGG-AATT
22935683 TGTTTCAAGT
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
116 21 0.19
117 88 0.81
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (117 bp):
ATGTGCTGGAATTATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATATCCGAACTTA
AAGTCCGCAGGCTATGAGCTGGAATTATATCCGGACTTAAAGTCCGCAGGCT
Found at i:22943687 original size:39 final size:39
Alignment explanation
Indices: 22943577--22943736 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
22943567 ATTTGATGTG
**
22943577 TATCCGGACTTAGGGTCTACAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
22943616 TAT--GGACTTAGGGTCCG-AGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
22943652 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
22943691 TATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
22943730 TGTCCGG
1 TATCCGG
22943737 GCTAAAGTCC
Statistics
Matches: 111, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
36 22 0.20
37 12 0.11
38 14 0.13
39 63 0.57
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:22943750 original size:78 final size:75
Alignment explanation
Indices: 22943577--22943754 Score: 214
Period size: 75 Copynumber: 2.3 Consensus size: 75
22943567 ATTTGATGTG
** ** * *
22943577 TATCCGGACTTAGGGTCTACAGGCTATGTGCTGGAATTATATGGACTTAGGGTCCGAGGCTATGT
1 TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTATATGGACTTAAGGTCCGAGGCTACGT
*
22943642 GCTGGAATTA
66 GCTGGAAATA
**
22943652 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGTAGGCTA
1 TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTATAT--GGACTTAAGGTCCG-AGGCTA
22943717 CGTGCTGGAAATA
63 CGTGCTGGAAATA
* *
22943730 TGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAAGT-CCGCAGGCT
22943755 TCGAGCTGGT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
75 40 0.44
77 17 0.19
78 33 0.37
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (75 bp):
TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTATATGGACTTAAGGTCCGAGGCTACGT
GCTGGAAATA
Found at i:22943754 original size:39 final size:39
Alignment explanation
Indices: 22943577--22943774 Score: 208
Period size: 39 Copynumber: 5.2 Consensus size: 39
22943567 ATTTGATGTG
* ** *
22943577 TATCCGGACTTAGGGTCTACAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
22943616 TAT--GGACTTAGGGTCCG-AGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
22943652 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
22943691 TATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* * * * * *
22943730 TGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTATTA
1 TATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAATTA
22943769 TA-CCGG
1 TATCCGG
22943775 GTTTAAATTC
Statistics
Matches: 140, Mismatches: 15, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
36 22 0.16
37 12 0.09
38 23 0.16
39 83 0.59
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
Found at i:22945031 original size:15 final size:15
Alignment explanation
Indices: 22945013--22945051 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
22945003 TCCAAGATTG
22945013 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
*
22945028 AGAAATCCAGAATAA
1 AGAAACCCAGAATAA
22945043 AGAAACCCA
1 AGAAACCCA
22945052 AGATACGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.08
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:22945047 original size:30 final size:30
Alignment explanation
Indices: 22944975--22945051 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
22944965 TTATAGAATA
*
22944975 AAGATAACGAGAAAACC-GAATAAAGAAATCC
1 AAGATAA--AGAAACCCAGAATAAAGAAATCC
**
22945006 AAGATTGAGAAACCCAGAATAAAGAAATCC
1 AAGATAAAGAAACCCAGAATAAAGAAATCC
22945036 -AGAATAAAGAAACCCA
1 AAG-ATAAAGAAACCCA
22945052 AGATACGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.23
30 25 0.64
31 5 0.13
ACGTcount: A:0.57, C:0.17, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGATAAAGAAACCCAGAATAAAGAAATCC
Found at i:22947487 original size:25 final size:25
Alignment explanation
Indices: 22947458--22947505 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
22947448 TTATAATATG
* *
22947458 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22947483 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
22947506 ATTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22947556 original size:9 final size:9
Alignment explanation
Indices: 22947544--22947600 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22947534 TTTGATAAAC
22947544 ATGATATGT
1 ATGATATGT
*
22947553 ATGATATGCAC
1 ATGATATG--T
*
22947564 ATGACATGT
1 ATGATATGT
*
22947573 ATGATATGCAC
1 ATGATATG--T
22947584 ATGATATGT
1 ATGATATGT
22947593 ATGATATG
1 ATGATATG
22947601 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:22947567 original size:20 final size:20
Alignment explanation
Indices: 22947542--22947604 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
22947532 ATTTTGATAA
22947542 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
22947562 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
22947582 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22947602 ACA
1 ACA
22947605 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22947684 original size:24 final size:24
Alignment explanation
Indices: 22947657--22947776 Score: 149
Period size: 24 Copynumber: 5.0 Consensus size: 24
22947647 GGAGGAAGTG
22947657 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
22947681 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
22947705 -TAAAGGGCTTATGCCCCAGTTATT
1 CAAAAGGGCTTATGCCCCAGTTA-T
*
22947729 AAAAAGGGCTT-TGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
*
22947751 CTAAAAGAGGC-TAGGCCTCCAGTTAT
1 C-AAAAG-GGCTTATGCC-CCAGTTAT
22947777 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
23 27 0.32
24 42 0.49
25 16 0.19
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:22947744 original size:47 final size:47
Alignment explanation
Indices: 22947659--22947777 Score: 161
Period size: 47 Copynumber: 2.5 Consensus size: 47
22947649 AGGAAGTGCA
* *
22947659 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTACT
22947706 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTACT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAAGGGCTTATGCCCCAGTTACT
*
22947753 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
22947778 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
47 33 0.51
48 22 0.34
49 10 0.15
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTACT
Found at i:22949852 original size:27 final size:27
Alignment explanation
Indices: 22949822--22950004 Score: 177
Period size: 27 Copynumber: 6.8 Consensus size: 27
22949812 CAAATTGTAA
* *
22949822 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTACAG
***
22949849 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAG
** *
22949876 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTACAG
* ** *
22949903 AATTACTATTTTACCCTTGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAG
* ** *
22949930 AATTACTATTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTACAG
* * *
22949957 AATTACTAAAATACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTACAG
* *
22949984 AATTACCAAAATACCTTCGAT
1 AATTACCAAATTACCCTCGAT
22950005 CAGTAAAATT
Statistics
Matches: 139, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (27 bp):
AATTACCAAATTACCCTCGATTTACAG
Found at i:22949926 original size:81 final size:81
Alignment explanation
Indices: 22949833--22949989 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
22949823 ATTACCAAAG
* * * ***
22949833 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* *
22949898 TATAGAATTACTATTT
66 TACAAAATTACTATTT
* * *
22949914 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
22949979 TACAAAATTAC
66 TACAAAATTAC
22949990 CAAAATACCT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TACAAAATTACTATTT
Found at i:22950004 original size:54 final size:54
Alignment explanation
Indices: 22949820--22950215 Score: 255
Period size: 54 Copynumber: 7.4 Consensus size: 54
22949810 TTCAAATTGT
* * *****
22949820 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGATTTAC
* *** * *** *
22949874 AGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGATTTAC
* * *** *
22949928 AGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGATTTAC
* * * * * *
22949982 AAAATTACCAAAATACCTTCGA-TCAGTAAAATTACCAAAATACCCTAG-TCTAT
1 AAAATTACCAAAATACCCTCGATTTA-TAAAATTACTAAAATACCCTCGATTTAC
* * * * * * * *
22950035 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACTGAAATACCCTCAATTTGC
1 AAAATTACCAAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGATTTAC
* * * * **
22950089 AAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACT-GGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTATAAAATTACTAAAATACC-CTCGATTTAC
* * * ** * *
22950143 GAAATTATCGAAATACCCTTAATTTGTAAAATTACCAAAATACCC-CTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTATAAAATTACTAAAATACCCTC-GATTTAC
*
22950197 AAAGTTA-CAGAAATACCCT
1 AAAATTACCA-AAATACCCT
22950216 TGACTTTCTA
Statistics
Matches: 272, Mismatches: 61, Indels: 18
0.77 0.17 0.05
Matches are distributed among these distances:
53 42 0.15
54 227 0.83
55 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGATTTAC
Found at i:22950026 original size:81 final size:79
Alignment explanation
Indices: 22949941--22950215 Score: 259
Period size: 81 Copynumber: 3.4 Consensus size: 79
22949931 ATTACTATTT
* ** * * *
22949941 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAATACCTTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCCT-GGTTTGTAAAATTACCGAAATACCTTCAATT
*
22950006 AGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* * * * * *
22950022 TA-CCCTAGTCTATAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACTGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATACCTTCAATT
*
22950086 TGCAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* ** * * *
22950102 TACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTT-AAT
1 TACCCCGA-TTTACAAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATA-CCTTCAAT
22950166 TTGTAAAATTACCAAAA
63 TTGTAAAATTACCAAAA
*
22950183 TACCCCTGATTTACAAAGTTAC-AGAAATACCCT
1 TACCCC-GATTTACAAAATTACTA-AAATACCCT
22950216 TGACTTTCTA
Statistics
Matches: 160, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
79 2 0.01
80 64 0.40
81 89 0.56
82 5 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (79 bp):
TACCCCGATTTACAAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCTTCAATTTG
TAAAATTACCAAAA
Found at i:22950140 original size:27 final size:26
Alignment explanation
Indices: 22949955--22950187 Score: 187
Period size: 27 Copynumber: 8.7 Consensus size: 26
22949945 CTCGATTTAC
* * **
22949955 AAAATTACTAAAATACCCTCGATTTAC
1 AAAATTACCAAAATACCCT-AATTTGT
* * **
22949982 AAAATTACCAAAATACCTTCGATCAGT
1 AAAATTACCAAAATACCCT-AATTTGT
* * *
22950009 AAAATTACCAAAATACCCTAGTCTAT
1 AAAATTACCAAAATACCCTAATTTGT
* * **
22950035 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TAATTTGT
** *
22950062 AAAATTACTGAAATACCCTCAATTTGC
1 AAAATTACCAAAATACCCT-AATTTGT
*
22950089 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAATTTGT
**
22950116 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTAATTTGT
* * *
22950143 GAAATTATCGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCC-TAATTTGT
22950170 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
22950188 CTGATTTACA
Statistics
Matches: 167, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
26 23 0.14
27 140 0.84
28 4 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAATTTGT
Found at i:22950204 original size:27 final size:28
Alignment explanation
Indices: 22949820--22950214 Score: 158
Period size: 27 Copynumber: 14.6 Consensus size: 28
22949810 TTCAAATTGT
* *
22949820 AAAATTACCAAAGTA-CCCTCGATTTAT
1 AAAATTACCAAAATACCCCTCGATTTAC
* ****
22949847 AGAATTACCGTTTTA-CCCTCGATTTAC
1 AAAATTACCAAAATACCCCTCGATTTAC
* *** *
22949874 AGAATTACCATTTTA-CCCTCGATTTAT
1 AAAATTACCAAAATACCCCTCGATTTAC
* * *** *
22949901 AGAATTACTATTTTA-CCCTTGATTTAC
1 AAAATTACCAAAATACCCCTCGATTTAC
* * ***
22949928 AGAATTACTATTTTA-CCCTCGATTTAC
1 AAAATTACCAAAATACCCCTCGATTTAC
*
22949955 AAAATTACTAAAATA-CCCTCGATTTAC
1 AAAATTACCAAAATACCCCTCGATTTAC
* * *
22949982 AAAATTACCAAAATA-CCTTCGA-TCAGT
1 AAAATTACCAAAATACCCCTCGATTTA-C
* * *
22950009 AAAATTACCAAAATA-CCCTAG-TCTAT
1 AAAATTACCAAAATACCCCTCGATTTAC
* * * * **
22950035 AAAATTGCTAAAATA-CCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTCGATTTAC
** * *
22950062 AAAATTACTGAAATA-CCCTCAATTTGC
1 AAAATTACCAAAATACCCCTCGATTTAC
* **
22950089 AAAATTACCAAAATACCCCTAG-TTTGT
1 AAAATTACCAAAATACCCCTCGATTTAC
* * **
22950116 AAAATTACCAAAATACCACT-GGTTTGT
1 AAAATTACCAAAATACCCCTCGATTTAC
* * * ** **
22950143 GAAATTATCGAAATA-CCCTTAATTTGT
1 AAAATTACCAAAATACCCCTCGATTTAC
22950170 AAAATTACCAAAATACCCCT-GATTTAC
1 AAAATTACCAAAATACCCCTCGATTTAC
*
22950197 AAAGTTA-CAGAAATACCC
1 AAAATTACCA-AAATACCC
22950215 TTGACTTTCT
Statistics
Matches: 306, Mismatches: 54, Indels: 16
0.81 0.14 0.04
Matches are distributed among these distances:
26 27 0.09
27 271 0.89
28 8 0.03
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (28 bp):
AAAATTACCAAAATACCCCTCGATTTAC
Found at i:22950216 original size:54 final size:53
Alignment explanation
Indices: 22949955--22950293 Score: 252
Period size: 54 Copynumber: 6.2 Consensus size: 53
22949945 CTCGATTTAC
* * **
22949955 AAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAATA-CCTTCGATCAGT
1 AAAATTACCAAAATACCCT-GATTTACAAAATTACCAAAATACCCTTAG-TTTGT
* * * * *
22950009 AAAATTACCAAAATACCCT-AGTCTATAAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTGA-TTTACAAAATTACCAAAATACCCTTAGTTTGT
** * * *
22950062 AAAATTACTGAAATACCCTCAATTTGCAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCT-GATTTACAAAATTACCAAAATACCCTTAGTTTGT
* *** * * *
22950116 AAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACC-CTGATTTACAAAATTACCAAAATACCCTTAGTTTGT
* * *
22950170 AAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATA-CCCTGATTTACAAAATTACCA-AAATACCCTT-AGTTTGT
*** * * ** *
22950225 AAAAATTATGGAAATACCATTGGTTTAACAAAATTACTGAAATACCCTTGGTTTGT
1 -AAAATTACCAAAATACC-CTGATTT-ACAAAATTACCAAAATACCCTTAGTTTGT
* *
22950281 AGATTTACCAAAA
1 AAAATTACCAAAA
22950294 CACTCTTGTA
Statistics
Matches: 222, Mismatches: 51, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
52 1 0.00
53 37 0.17
54 125 0.56
55 20 0.09
56 21 0.09
57 18 0.08
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTGATTTACAAAATTACCAAAATACCCTTAGTTTGT
Found at i:22950362 original size:27 final size:27
Alignment explanation
Indices: 22950319--22950392 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
22950309 AAATGACTAA
*
22950319 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
22950346 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
22950373 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
22950393 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:22950396 original size:27 final size:27
Alignment explanation
Indices: 22950332--22950396 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
22950322 ACCCCTATTA
*
22950332 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
22950359 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
22950386 GGTAAAATGAC
1 GGTAAAATGAC
22950397 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:22951271 original size:52 final size:51
Alignment explanation
Indices: 22951193--22951315 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 51
22951183 GAGGAAGTGC
*
22951193 AAAAGGGCTTATGTCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
* *
22951245 AAAAGGGCTTATGCCCCAGTTTATTGAGAAGTGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
22951296 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
22951316 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 10 0.15
51 25 0.37
52 33 0.49
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:22951290 original size:25 final size:26
Alignment explanation
Indices: 22951193--22951315 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
22951183 GAGGAAGTGC
* **
22951193 AAAAGGGCTTATGTCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
22951219 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
22951245 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
22951271 AGAAGTGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
22951296 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
22951316 ATTAAAGAGG
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 31 0.36
26 55 0.64
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:22951519 original size:42 final size:42
Alignment explanation
Indices: 22951460--22951551 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
22951450 TAGTCTCCCC
* ** *
22951460 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
22951502 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
22951544 AAATGGGC
1 AAATGGGC
22951552 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:22951610 original size:31 final size:31
Alignment explanation
Indices: 22951575--22951651 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
22951565 CGTTTACAGT
* *
22951575 AAAGGCTTCGGCCCAATTATATTATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
22951606 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
22951637 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
22951652 GTAACCGTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:22954718 original size:93 final size:89
Alignment explanation
Indices: 22954600--22954767 Score: 241
Period size: 93 Copynumber: 1.8 Consensus size: 89
22954590 CGCCTATAAG
* *
22954600 CGAACTCGGACTCAACTCAATGAGCTC-GAGCTTTCACATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCACATCC---A-TGAACTCGGACTCAACTC
22954664 AACGAA-TTCGGATGCTTAGTTACATCTCA
61 AAC-AAGTTCGGATGCTTAGTTACATCTCA
*
22954693 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATGAACTCGGACTCAACTCAACAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATGAACTCGGACTCAACTCAACAA
22954758 GTTCGGATGC
66 GTTCGGATGC
22954768 CCAAATATCC
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
88 2 0.03
89 30 0.43
90 1 0.01
93 35 0.50
94 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (89 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATGAACTCGGACTCAACTCAACAA
GTTCGGATGCTTAGTTACATCTCA
Found at i:22954740 original size:42 final size:43
Alignment explanation
Indices: 22954601--22954764 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 43
22954591 GCCTATAAGC
* *
22954601 GAACTCGGACTCAACTCAATGAGCTC-GAGCTTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGAGCATTCACATCC---A-T
** *
22954647 GAACTCGGACTCAACTCAACGAATTCGGATGCTTAGTT-ACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGA-GC--A-TTCACATC-CAT
*
22954694 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCAT
1 GAACTCGGACTCAACTCAACGAGCTCGGAGCATTCACATCCAT
* *
22954736 GAACTCGGACTCAACTCAACAAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
22954765 TGCCCAAATA
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
42 31 0.31
43 5 0.05
45 1 0.01
46 23 0.23
47 29 0.29
48 3 0.03
50 5 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAGCATTCACATCCAT
Found at i:22959199 original size:27 final size:27
Alignment explanation
Indices: 22959160--22959240 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
22959150 TTAGAATACT
*
22959160 TTAGTTTACTAAAATTA-TCGAAATACCC
1 TTAGTTT-GTAAAATTACT-GAAATACCC
*
22959188 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
22959215 -TCGATTTGTAAAATTACTGAAATACC
1 TTAG-TTTGTAAAATTACTGAAATACC
22959241 TTCGACTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.04
27 37 0.79
28 8 0.17
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:22959245 original size:27 final size:27
Alignment explanation
Indices: 22959169--22959258 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 27
22959159 TTTAGTTTAC
*
22959169 TAAAATTA-TCGAAATACCCTTAG-TTTG
1 TAAAATTACT-GAAATA-CCTTCGATTTG
* *
22959196 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
* *
22959223 TAAAATTACTGAAATACCTTCGACTTA
1 TAAAATTACTGAAATACCTTCGATTTG
22959250 TAAAATTAC
1 TAAAATTAC
22959259 AAAGTACCCC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 49 0.91
28 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:22959282 original size:26 final size:26
Alignment explanation
Indices: 22959253--22959311 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
22959243 CGACTTATAA
22959253 AATTACAAAGTACCCCCGATTTACAG
1 AATTACAAAGTACCCCCGATTTACAG
**** *
22959279 AATTATCGTTTTACCCCCGATTTACAT
1 AATTA-CAAAGTACCCCCGATTTACAG
22959306 AATTAC
1 AATTAC
22959312 CGTTTTACCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
AATTACAAAGTACCCCCGATTTACAG
Done.