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 155 of 427
Found at i:42715756 original size:27 final size:27
Alignment explanation
Indices: 42715726--42715813 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
42715716 ATTACCAAAG
** *
42715726 TACCCTCGATTTATTGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
42715753 TACCCTCGAATTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
42715780 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
42715807 TACCCTC
1 TACCCTC
42715814 TATTGTAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 52 0.98
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:42715925 original size:27 final size:27
Alignment explanation
Indices: 42715816--42715944 Score: 100
Period size: 27 Copynumber: 4.8 Consensus size: 27
42715806 TTACCCTCTA
**
42715816 TTGTAAAATTACTGAAATACCCCT-AT
1 TTGTAAAATTACCAAAATACCCCTGAT
** * * * *
42715842 AGGGTAGAATTACCAAAATAACACTGGT
1 -TTGTAAAATTACCAAAATACCCCTGAT
* * *
42715870 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-GAT
42715897 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
** *
42715924 TTACAAAATTACAAAAATACC
1 TTGTAAAATTACCAAAATACC
42715945 ATTGACTTTC
Statistics
Matches: 77, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
26 3 0.04
27 69 0.90
28 5 0.06
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:42715996 original size:27 final size:27
Alignment explanation
Indices: 42715923--42716008 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
42715913 ATACCCCTGA
** *
42715923 TTTACAAAATTACAAAAATACCATTGAC
1 TTTACAAAATTACTGAAATACCATTG-G
*
42715951 TTT-CTAAAAACTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCATTGG
*
42715979 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCATTGG
42716006 TTT
1 TTT
42716009 GTAGATTTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
27 22 0.47
28 7 0.15
29 18 0.38
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:42717008 original size:25 final size:25
Alignment explanation
Indices: 42716941--42717010 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
42716931 AGGAAGTGCT
* * *
42716941 AAAAGGGCTCTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
42716966 AAAAGGGCTTTGCCCCAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTA-CAG
42716992 -AAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
42717011 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 39 0.95
26 2 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:42717023 original size:24 final size:23
Alignment explanation
Indices: 42716941--42717037 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
42716931 AGGAAGTGCT
* * *
42716941 AAAAGGGCTCTGCCCCAATTTACC
1 AAAAGGGCTTTGCCCC-AGTTATC
42716965 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
42716990 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
42717014 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
42717038 ATAATAAAGC
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
23 4 0.06
24 14 0.23
25 44 0.71
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:42717217 original size:42 final size:42
Alignment explanation
Indices: 42717158--42717249 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
42717148 TAGTCTCCCC
* ** *
42717158 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
42717200 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
42717242 AAATGGGC
1 AAATGGGC
42717250 CTATGGGCCA
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:42718975 original size:42 final size:42
Alignment explanation
Indices: 42718929--42719010 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
42718919 CGATGTCTCG
* * * *
42718929 TATCGATGCCATGTCCCAGACCTGGTCTTACAGGAAATCAAA
1 TATCGATGACATATCCCAGACATGGTCTTACACGAAATCAAA
* * *
42718971 TATCGATGACATATCTCAGATATGGTTTTACACGAAATCA
1 TATCGATGACATATCCCAGACATGGTCTTACACGAAATCA
42719011 CACATAACCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (42 bp):
TATCGATGACATATCCCAGACATGGTCTTACACGAAATCAAA
Found at i:42729109 original size:40 final size:40
Alignment explanation
Indices: 42729035--42729176 Score: 234
Period size: 40 Copynumber: 3.6 Consensus size: 40
42729025 AACCCAAGTA
* *
42729035 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
42729074 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42729114 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42729154 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42729177 CATTCGAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 12 0.12
40 84 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42730798 original size:19 final size:19
Alignment explanation
Indices: 42730774--42730810 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
42730764 ACACATGCAT
42730774 ATATATATATATAATAAGA
1 ATATATATATATAATAAGA
42730793 ATATATATATATAATAAG
1 ATATATATATATAATAAG
42730811 CATCAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATATATATATAATAAGA
Found at i:42737728 original size:76 final size:76
Alignment explanation
Indices: 42737602--42737759 Score: 316
Period size: 76 Copynumber: 2.1 Consensus size: 76
42737592 TCATGTATAA
42737602 GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
1 GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
42737667 TTGTTCAAAAT
66 TTGTTCAAAAT
42737678 GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
1 GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
42737743 TTGTTCAAAAT
66 TTGTTCAAAAT
42737754 GATACC
1 GATACC
42737760 GTATGGGCTC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 82 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (76 bp):
GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
TTGTTCAAAAT
Found at i:42740334 original size:255 final size:255
Alignment explanation
Indices: 42739883--42740377 Score: 936
Period size: 255 Copynumber: 1.9 Consensus size: 255
42739873 ACATACAACC
42739883 CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACAAGG
1 CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACAAGG
*
42739948 TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATGAAATG
66 TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATAAAATG
42740013 CATATCAGCAGTGGCGGCATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
131 CATATCAGCAGTGGCGGCATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
42740078 TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAAAGAATATGCATCTCA
196 TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAAAGAATATGCATCTCA
**
42740138 CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACTCGG
1 CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACAAGG
42740203 TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATAAAATG
66 TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATAAAATG
* * *
42740268 TATATCAGCAGTGGTGGTATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
131 CATATCAGCAGTGGCGGCATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
42740333 TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAA
196 TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAA
42740378 GTAATATTTA
Statistics
Matches: 234, Mismatches: 6, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
255 234 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (255 bp):
CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACAAGG
TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATAAAATG
CATATCAGCAGTGGCGGCATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAAAGAATATGCATCTCA
Found at i:42751243 original size:31 final size:30
Alignment explanation
Indices: 42751185--42751273 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 30
42751175 TTCCATTACA
*
42751185 TAAATTTTGATTTTATACAATTATATATAT
1 TAAATTTTGATTTGATACAATTATATATAT
42751215 TAAATTTTGACTTTGATACAAATT-TATATAT
1 TAAATTTTGA-TTTGATAC-AATTATATATAT
* * **
42751246 AAAATTTTTATTTCGATTTAATTATATA
1 TAAATTTTGATTT-GATACAATTATATA
42751274 ATACATCAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
30 17 0.34
31 29 0.58
32 4 0.08
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (30 bp):
TAAATTTTGATTTGATACAATTATATATAT
Found at i:42754976 original size:27 final size:27
Alignment explanation
Indices: 42754928--42755086 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
42754918 GCGAGGCTGC
* *
42754928 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
42754955 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
42754981 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
42755008 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
42755035 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
42755062 CAGATAATTATGGCATAGCCTCCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
42755087 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:42755087 original size:54 final size:54
Alignment explanation
Indices: 42754946--42755089 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
42754936 GTGACGAAGT
* * *
42754946 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
42755000 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
* *
42755054 CACCAGATCAGATAATTATGGCATAGCCTCCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
42755090 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:42756346 original size:16 final size:16
Alignment explanation
Indices: 42756325--42756357 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
42756315 TCTTATTCCT
*
42756325 TTGCTACTATAGAATA
1 TTGCTACTATAAAATA
42756341 TTGCTACTATAAAATA
1 TTGCTACTATAAAATA
42756357 T
1 T
42756358 AGAATACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TTGCTACTATAAAATA
Found at i:42758005 original size:18 final size:18
Alignment explanation
Indices: 42757982--42758049 Score: 109
Period size: 18 Copynumber: 3.8 Consensus size: 18
42757972 TTAATGATTT
42757982 CGATATTGATGATAGTGA
1 CGATATTGATGATAGTGA
*
42758000 CGATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
*
42758018 CGATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
*
42758036 CGCTATTGATGATA
1 CGATATTGATGATA
42758050 ATGATTTCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.34
Consensus pattern (18 bp):
CGATATTGATGATAGTGA
Found at i:42758054 original size:9 final size:9
Alignment explanation
Indices: 42757983--42758054 Score: 54
Period size: 9 Copynumber: 8.0 Consensus size: 9
42757973 TAATGATTTC
42757983 GATATTGAT
1 GATATTGAT
* *
42757992 GATAGTGAC
1 GATATTGAT
42758001 GATATTGAT
1 GATATTGAT
* * *
42758010 GCTAGTGAC
1 GATATTGAT
42758019 GATATTGAT
1 GATATTGAT
* * *
42758028 GCTAGTGAC
1 GATATTGAT
*
42758037 GCTATTGAT
1 GATATTGAT
*
42758046 GATAATGAT
1 GATATTGAT
42758055 TTCTAGAAAT
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (9 bp):
GATATTGAT
Found at i:42761355 original size:16 final size:16
Alignment explanation
Indices: 42761326--42761359 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42761316 GTTCACTTTT
42761326 AATAGATAGATAGATA
1 AATAGATAGATAGATA
* *
42761342 AATAGGTAGGTAGATA
1 AATAGATAGATAGATA
42761358 AA
1 AA
42761360 GCTAATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (16 bp):
AATAGATAGATAGATA
Found at i:42762052 original size:9 final size:9
Alignment explanation
Indices: 42762029--42762087 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
42762019 TAACACATTT
42762029 TATTAA-AA
1 TATTAATAA
*
42762037 AATTAATAA
1 TATTAATAA
*
42762046 TATTAATTA
1 TATTAATAA
* *
42762055 TTTTAATTA
1 TATTAATAA
42762064 -ATTAATAA
1 TATTAATAA
*
42762072 TATTAAAAAA
1 TATT-AATAA
42762082 TATTAA
1 TATTAA
42762088 ACTAATTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
8 11 0.27
9 22 0.54
10 8 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TATTAATAA
Found at i:42762142 original size:31 final size:30
Alignment explanation
Indices: 42762107--42762165 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
42762097 TAGCATTATA
42762107 AAAATATAA-ATATCAAATTATATTAAAAATT
1 AAAATATAAGA-AT-AAATTATATTAAAAATT
*
42762138 AAAATATAAGAATTAATTATATTAAAAA
1 AAAATATAAGAATAAATTATATTAAAAA
42762166 AAATCAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 14 0.54
31 11 0.42
32 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAATATAAGAATAAATTATATTAAAAATT
Found at i:42762156 original size:25 final size:25
Alignment explanation
Indices: 42762105--42762156 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
42762095 AATAGCATTA
*
42762105 TAAAAATATAAATATCAAATTATAT
1 TAAAAATATAAATATAAAATTATAT
42762130 TAAAAAT-TAAAATATAAGAATTA-AT
1 TAAAAATAT-AAATATAA-AATTATAT
42762155 TA
1 TA
42762157 TATTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 1 0.04
25 18 0.75
26 5 0.21
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
TAAAAATATAAATATAAAATTATAT
Found at i:42766415 original size:2 final size:2
Alignment explanation
Indices: 42766365--42766395 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42766355 AAGTAATACA
42766365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42766396 ATTTTTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42766850 original size:2 final size:2
Alignment explanation
Indices: 42766843--42766869 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42766833 AAAATTACAA
42766843 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
42766870 AGTTGTAGAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42768355 original size:32 final size:30
Alignment explanation
Indices: 42768311--42768380 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 30
42768301 AAAAATTAAA
42768311 ATAAATATAATTTTCAAAAATTTTA-AAAATAT
1 ATAAA-ATAA-TTTCAAAAATTTTACAAAAT-T
*
42768343 ATAAAATGAATTTCCAAAATTTTATCAAAATT
1 ATAAAAT-AATTTCAAAAATTTTA-CAAAATT
42768375 ATAAAA
1 ATAAAA
42768381 ACTTGAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
31 15 0.44
32 14 0.41
33 5 0.15
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (30 bp):
ATAAAATAATTTCAAAAATTTTACAAAATT
Found at i:42768391 original size:17 final size:16
Alignment explanation
Indices: 42768369--42768413 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
42768359 AAATTTTATC
42768369 AAAATTATAAAAACTTG
1 AAAATTATAAAAA-TTG
*
42768386 AAAATTATATAAAATTT
1 AAAATTATA-AAAATTG
*
42768403 TAAATTATAAA
1 AAAATTATAAA
42768414 TATATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 19 0.76
18 4 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
AAAATTATAAAAATTG
Found at i:42771033 original size:13 final size:13
Alignment explanation
Indices: 42771017--42771052 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
42771007 CAACATAACA
42771017 GGTTCGCATATAG
1 GGTTCGCATATAG
*
42771030 GGTTCGCACATAG
1 GGTTCGCATATAG
42771043 GGTTCGCATA
1 GGTTCGCATA
42771053 CTAATTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (13 bp):
GGTTCGCATATAG
Found at i:42771083 original size:18 final size:18
Alignment explanation
Indices: 42771060--42771119 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
42771050 ATACTAATTC
*
42771060 ATATAGGGTTTGCATAAA
1 ATATAGGGTTTGCATAAT
****
42771078 ATATAGGGCCCACATAAT
1 ATATAGGGTTTGCATAAT
42771096 ATATAGGGTTTGCATAAT
1 ATATAGGGTTTGCATAAT
42771114 ATATAG
1 ATATAG
42771120 TAAGAGATCA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (18 bp):
ATATAGGGTTTGCATAAT
Found at i:42771183 original size:18 final size:19
Alignment explanation
Indices: 42771160--42771206 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
42771150 TTTGCATATG
42771160 GGTTCGCATAATAT-GTAA
1 GGTTCGCATAATATAGTAA
42771178 GGTTCGCAT-ATATAGTAA
1 GGTTCGCATAATATAGTAA
*
42771196 GAGATCGCATA
1 G-GTTCGCATA
42771207 CTAAATCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 14 0.56
19 7 0.28
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (19 bp):
GGTTCGCATAATATAGTAA
Found at i:42771247 original size:58 final size:58
Alignment explanation
Indices: 42771185--42771304 Score: 204
Period size: 58 Copynumber: 2.1 Consensus size: 58
42771175 TAAGGTTCGC
* *
42771185 ATATATAGTAAGAGATCGCATACTAAATCATATAATGGTTTGCATATGGGTTCGCATA
1 ATATATAGTAAGAAATCGCATACTAAATCATATAAGGGTTTGCATATGGGTTCGCATA
* *
42771243 ATATATGGTAAGAAATCGCATACTAAATCATATAAGGGTTTGCATATGGGTTTGCATA
1 ATATATAGTAAGAAATCGCATACTAAATCATATAAGGGTTTGCATATGGGTTCGCATA
42771301 ATAT
1 ATAT
42771305 GTAGGATTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (58 bp):
ATATATAGTAAGAAATCGCATACTAAATCATATAAGGGTTTGCATATGGGTTCGCATA
Found at i:42771265 original size:131 final size:133
Alignment explanation
Indices: 42771096--42771376 Score: 408
Period size: 131 Copynumber: 2.1 Consensus size: 133
42771086 CCCACATAAT
* *
42771096 ATATAGGGTTTGCATAATATATAGTAAGAGATCACATACTAAATCATATAAGGGTTTGCATATGG
1 ATAT-GGGTTCGCATAATATATAGTAAGAAATCACATACTAAATCATATAAGGGTTTGCATATGG
**
42771161 GTTCGCATAATATGTAAGG-TTCGCAT-ATATA-GTAAGAGATCGCATACTAAATCATATAATG-
65 GTTCGCATAATATGT-AGGATTCAAATAATATAGGTAAGAGATCGCATACTAAATCATATAA-GA
42771222 GTTTGC
128 GTTTGC
* *
42771228 ATATGGGTTCGCATAATATATGGTAAGAAATCGCATACTAAATCATATAAGGGTTTGCATATGGG
1 ATATGGGTTCGCATAATATATAGTAAGAAATCACATACTAAATCATATAAGGGTTTGCATATGGG
*
42771293 TTTGCATAATATGTAGGATTCAAATAATATATGGTAAGAGATCGCATACTAAATCATATAAGAGT
66 TTCGCATAATATGTAGGATTCAAATAATATA-GGTAAGAGATCGCATACTAAATCATATAAGAGT
*
42771358 TTTC
130 TTGC
* *
42771362 TTATGGGTTCACATA
1 ATATGGGTTCGCATA
42771377 TTCACTTATA
Statistics
Matches: 134, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
130 3 0.02
131 75 0.56
132 9 0.07
133 1 0.01
134 46 0.34
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (133 bp):
ATATGGGTTCGCATAATATATAGTAAGAAATCACATACTAAATCATATAAGGGTTTGCATATGGG
TTCGCATAATATGTAGGATTCAAATAATATAGGTAAGAGATCGCATACTAAATCATATAAGAGTT
TGC
Found at i:42771400 original size:24 final size:24
Alignment explanation
Indices: 42771372--42771423 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
42771362 TTATGGGTTC
42771372 ACATATTCACTTATAATTGAGTTA
1 ACATATTCACTTATAATTGAGTTA
*
42771396 ACATATTCACTTATAATTGAGTTC
1 ACATATTCACTTATAATTGAGTTA
42771420 ACAT
1 ACAT
42771424 GTATACATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (24 bp):
ACATATTCACTTATAATTGAGTTA
Found at i:42771509 original size:16 final size:16
Alignment explanation
Indices: 42771488--42771563 Score: 64
Period size: 16 Copynumber: 4.8 Consensus size: 16
42771478 TAGTTCACCC
*
42771488 AGGGTTCGCATTCATA
1 AGGGTTCGCATACATA
* *
42771504 AGGGTTCACATACCTA
1 AGGGTTCGCATACATA
*
42771520 AGGGTTTGCATACAT-
1 AGGGTTCGCATACATA
* *
42771535 GGGGATTCGTATACATA
1 AGGG-TTCGCATACATA
* *
42771552 AAGGTTCACATA
1 AGGGTTCGCATA
42771564 TATGGGGGTT
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
15 3 0.07
16 40 0.89
17 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (16 bp):
AGGGTTCGCATACATA
Found at i:42777835 original size:33 final size:30
Alignment explanation
Indices: 42777766--42777826 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
42777756 ACTTATTTTA
* *
42777766 TTGTAAATTTTTTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
42777796 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
42777826 T
1 T
42777827 GCTTGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:42780033 original size:31 final size:31
Alignment explanation
Indices: 42779995--42780058 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
42779985 CCTTTTCATA
42779995 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
42780026 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
42780057 TT
1 TT
42780059 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:42780338 original size:47 final size:48
Alignment explanation
Indices: 42780249--42780341 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 48
42780239 GCTTTATCAT
*
42780249 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCA
42780297 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTT
42780342 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
46 12 0.29
47 18 0.43
48 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCA
Found at i:42780342 original size:23 final size:23
Alignment explanation
Indices: 42780248--42780342 Score: 122
Period size: 23 Copynumber: 4.0 Consensus size: 23
42780238 TGCTTTATCA
*
42780248 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
42780272 TAATAACTGGGGCA-AAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
42780295 CAATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
42780319 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
42780342 T
1 T
42780343 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
23 39 0.61
24 17 0.27
25 8 0.12
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:42780418 original size:20 final size:20
Alignment explanation
Indices: 42780393--42780431 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
42780383 TATGATTACC
42780393 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
42780413 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
42780432 ACCATCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:42780507 original size:25 final size:25
Alignment explanation
Indices: 42780475--42780522 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
42780465 ATACATAAAC
* *
42780475 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
*
42780500 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
42780523 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:42780620 original size:63 final size:63
Alignment explanation
Indices: 42780547--42780672 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
42780537 AATCTTGCAA
42780547 TTTTACCAAAAATTAGGGTTTCCATGTTTATTAATGATTACTTAACAATTCATGGGTGCAACC
1 TTTTACCAAAAATTAGGGTTTCCATGTTTATTAATGATTACTTAACAATTCATGGGTGCAACC
42780610 TTTTACCAAAAATTAGGGTTTCCATGTTTATTAATGATTACTTAACAATTCATGGGTGCAACC
1 TTTTACCAAAAATTAGGGTTTCCATGTTTATTAATGATTACTTAACAATTCATGGGTGCAACC
42780673 AGTGATTCTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (63 bp):
TTTTACCAAAAATTAGGGTTTCCATGTTTATTAATGATTACTTAACAATTCATGGGTGCAACC
Found at i:42788105 original size:30 final size:31
Alignment explanation
Indices: 42788049--42788111 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
42788039 CCTTTTCATA
42788049 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
42788080 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
42788110 TT
1 TT
42788112 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:42788353 original size:24 final size:23
Alignment explanation
Indices: 42788323--42788395 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
42788313 CCTAGCCTCT
*
42788323 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
42788346 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
*
42788370 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
42788393 TTT
1 TTT
42788396 TTCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 25 0.53
24 22 0.47
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:42788381 original size:23 final size:23
Alignment explanation
Indices: 42788301--42788396 Score: 122
Period size: 24 Copynumber: 4.0 Consensus size: 23
42788291 TGCTTTATCA
*
42788301 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
42788325 TAATAACTGGGGCAAAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
42788349 CAATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
42788373 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
42788396 T
1 T
42788397 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
23 23 0.36
24 29 0.45
25 12 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:42788381 original size:47 final size:49
Alignment explanation
Indices: 42788302--42788395 Score: 140
Period size: 47 Copynumber: 2.0 Consensus size: 49
42788292 GCTTTATCAT
*
42788302 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
*
42788351 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTT
42788396 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 21 0.50
48 9 0.21
49 12 0.29
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:42788472 original size:20 final size:20
Alignment explanation
Indices: 42788447--42788506 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
42788437 TATGATTACC
42788447 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
42788467 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
42788487 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
42788507 CCATTTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:42788477 original size:11 final size:11
Alignment explanation
Indices: 42788447--42788501 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
42788437 TATGATTACC
42788447 TCATGTGCATA
1 TCATGTGCATA
*
42788458 TCA--TACATA
1 TCATGTGCATA
42788467 TCATGTGCATA
1 TCATGTGCATA
* *
42788478 TCA--TACATT
1 TCATGTGCATA
42788487 TCATGTGCATA
1 TCATGTGCATA
42788498 TCAT
1 TCAT
42788502 ACATACCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:42788589 original size:24 final size:24
Alignment explanation
Indices: 42788548--42788594 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
42788538 ATACATAAAC
* * *
42788548 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAACGGTCATTTTA
42788572 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
42788595 CATATAAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:42789683 original size:32 final size:32
Alignment explanation
Indices: 42789647--42789707 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
42789637 TTAGATATTA
42789647 ATTATGTT-TCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTCT-AAGCTTGTTAGATATTGAATTT
*
42789679 ATTATGTTCTAAGCTTGTTGGATATTGAA
1 ATTATGTTCTAAGCTTGTTAGATATTGAA
42789708 ATGATTGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.48
Consensus pattern (32 bp):
ATTATGTTCTAAGCTTGTTAGATATTGAATTT
Found at i:42791145 original size:19 final size:21
Alignment explanation
Indices: 42791114--42791155 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
42791104 CAAACACCAA
42791114 AAAAGTAAAATCA-TTTCCAG
1 AAAAGTAAAATCATTTTCCAG
42791134 AAAAGT-AAATCATTTTCCAG
1 AAAAGTAAAATCATTTTCCAG
42791154 AA
1 AA
42791156 TCATTTCTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (21 bp):
AAAAGTAAAATCATTTTCCAG
Found at i:42794875 original size:37 final size:37
Alignment explanation
Indices: 42794833--42794913 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
42794823 CGGGGTTTTA
* *
42794833 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
42794870 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
42794907 ACCCGGA
1 ACCCGGA
42794914 ATATATTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:42795172 original size:48 final size:48
Alignment explanation
Indices: 42795072--42795196 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 48
42795062 TATTGCACAA
* * *
42795072 TAGCCATTCGGCTTTACCAAATATACAT-CCTCATACATATTTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* *
42795119 TAGCCATTTGGCTTTACCACATATACATATCTCATACATGTCTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* *
42795167 TAGCCATTCGGCTTTACCACACATATATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
42795197 ATTTACCTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
47 26 0.38
48 43 0.62
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
Found at i:42799045 original size:40 final size:40
Alignment explanation
Indices: 42799001--42799349 Score: 340
Period size: 40 Copynumber: 8.8 Consensus size: 40
42798991 GAATACACAT
* *
42799001 CACCGGCATGAATGCCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
* * * *
42799041 CACCGGCACGAA-ACCCTTCGGGATTTAGCCCGGATACAT
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
** * *
42799080 CACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
* * *
42799120 CACCGACACGAATAG-CCTTCGGGA-TTAGCCCGGATACAT
1 CACCGGCACGAAT-GCCCTTCGGGACTTAGCCCGGATATAA
** *
42799159 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
* * *
42799199 CACCGGCACGAATGCCCTTCGGGACTTAGCCTGGATACAT
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
** * *
42799239 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
** *
42799279 CA-CTACACGATTG-CCTTCGGG-CTTAGCCCGGAATTAGTAA
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGG-A-TA-TAA
*
42799319 C-TC-GCAC-AATTG-CCTTCGGGACTTAGCCCGG
1 CACCGGCACGAA-TGCCCTTCGGGACTTAGCCCGG
42799350 TTATCATCCG
Statistics
Matches: 255, Mismatches: 44, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
37 10 0.04
38 10 0.04
39 87 0.34
40 147 0.58
41 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (40 bp):
CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
Found at i:42799109 original size:79 final size:79
Alignment explanation
Indices: 42799010--42799349 Score: 449
Period size: 79 Copynumber: 4.3 Consensus size: 79
42799000 TCACCGGCAT
* *
42799010 GAATGCCCTTCGGGATTTAGCCCGGATATAACACCGGCACGAA-ACCCTTCGGGATTTAGCCCGG
1 GAATGCTCTTCGGGACTTAGCCCGGATATAACACCGGCACGAATACCCTTCGGGA-TTAGCCCGG
42799074 ATACATCACTAGCAC
65 ATACATCACTAGCAC
* * *
42799089 GAATGCTCTTCAGGACTTAGCCCGGATATAACACCGACACGAATAGCCTTCGGGATTAGCCCGGA
1 GAATGCTCTTCGGGACTTAGCCCGGATATAACACCGGCACGAATACCCTTCGGGATTAGCCCGGA
42799154 TACATCACTAGCAC
66 TACATCACTAGCAC
* *
42799168 GAATGCTCTTCGGGACTTAGCCCGGATATAACACCGGCACGAATGCCCTTCGGGACTTAGCCTGG
1 GAATGCTCTTCGGGACTTAGCCCGGATATAACACCGGCACGAATACCCTTCGGGA-TTAGCCCGG
42799233 ATACATCACTAGCAC
65 ATACATCACTAGCAC
* ** ** *
42799248 GAATGCTCTTCGGGACTTAGCCCGGATATATCA-CTACACG-ATTGCCTTCGGGCTTAGCCCGGA
1 GAATGCTCTTCGGGACTTAGCCCGGATATAACACCGGCACGAATACCCTTCGGGATTAGCCCGG-
* * *
42799311 ATTA-GTAACTCGCAC
65 A-TACATCACTAGCAC
42799326 -AATTGC-CTTCGGGACTTAGCCCGG
1 GAA-TGCTCTTCGGGACTTAGCCCGG
42799350 TTATCATCCG
Statistics
Matches: 236, Mismatches: 20, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
77 28 0.12
78 22 0.09
79 121 0.51
80 65 0.28
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (79 bp):
GAATGCTCTTCGGGACTTAGCCCGGATATAACACCGGCACGAATACCCTTCGGGATTAGCCCGGA
TACATCACTAGCAC
Found at i:42799212 original size:119 final size:118
Alignment explanation
Indices: 42799010--42799310 Score: 358
Period size: 119 Copynumber: 2.5 Consensus size: 118
42799000 TCACCGGCAT
* * ** ** *
42799010 GAATGCCCTTCGGGATTTAGCCCGGATATAACACCGGCACGAAACCCTTCGGGATTTAGCCCGGA
1 GAATG-CCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCCTTCGGGACTTAGCCCGGA
* * * *
42799075 TACATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAACACCGA-CAC
65 TACAACACCAGCACGAATGCCCTTCAGGACTTAGCCCGGATACAACA-CGAGCAC
*
42799129 GAATAGCCTTCGGGA-TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 GAAT-GCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC-CTTCGGGACTTAGCCCGG
* * * * * *
42799193 ATATAACACCGGCACGAATGCCCTTCGGGACTTAGCCTGGATACATCACTAGCAC
64 ATACAACACCAGCACGAATGCCCTTCAGGACTTAGCCCGGATACAACACGAGCAC
*
42799248 GAATGCTCTTCGGGACTTAGCCCGGATATATCACTA-CACGATTGCCTTCGGG-CTTAGCCCGGA
1 GAATGC-CTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCCTTCGGGACTTAGCCCGGA
42799311 ATTAGTAACT
Statistics
Matches: 158, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
117 11 0.07
118 35 0.22
119 92 0.58
120 20 0.13
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (118 bp):
GAATGCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCCTTCGGGACTTAGCCCGGAT
ACAACACCAGCACGAATGCCCTTCAGGACTTAGCCCGGATACAACACGAGCAC
Found at i:42801630 original size:37 final size:37
Alignment explanation
Indices: 42801588--42801668 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
42801578 CGGGGTTTTA
* *
42801588 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
42801625 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
42801662 ACCCGGA
1 ACCCGGA
42801669 ATATATTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:42801927 original size:48 final size:48
Alignment explanation
Indices: 42801827--42801951 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 48
42801817 TATTGCACAA
* * *
42801827 TAGCCATTCGGCTTTACCAAATATACAT-CCTCATACATATTTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* *
42801874 TAGCCATTTGGCTTTACCACATATACATATCTCATACATGTCTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* *
42801922 TAGCCATTCGGCTTTACCACACATATATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
42801952 ATTTACCTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
47 26 0.38
48 43 0.62
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
Found at i:42819489 original size:59 final size:58
Alignment explanation
Indices: 42819397--42819568 Score: 272
Period size: 59 Copynumber: 2.9 Consensus size: 58
42819387 TTGATACGTA
42819397 ATACATGCTAGGGTTCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
1 ATACATGCTAGGG-TCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
* *
42819456 ATACATGCTAGGGTCAGGGTGCTTTTGTGTAGCCCCGTTGAGAGGCATGTGAATATGTG
1 ATACATGCTAGGGTC-GGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
* * *
42819515 ATACATGATAGGGTCTGGGTGCTTTTAAGTAGCCCCGTTGAGAAGCATGTGATT
1 ATACATGCTAGGGTC-GGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATT
42819569 CTATGAACTG
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
58 2 0.02
59 102 0.98
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (58 bp):
ATACATGCTAGGGTCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
Found at i:42819781 original size:24 final size:24
Alignment explanation
Indices: 42819754--42819805 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
42819744 GGGAGGTAGG
* *
42819754 TATGTATGTATGTGCTT-TTGTGTA
1 TATGTATGGATGTG-TTCATGTGTA
42819778 TATGTATGGATGTGTTCATGTGTA
1 TATGTATGGATGTGTTCATGTGTA
42819802 TATG
1 TATG
42819806 GGTATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (24 bp):
TATGTATGGATGTGTTCATGTGTA
Found at i:42826825 original size:43 final size:42
Alignment explanation
Indices: 42826760--42826848 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 42
42826750 TGGGGCATCA
*** *
42826760 GCATCATATTTGATTTTGTGTAAAACC-CTGTCTGGGACAGTG
1 GCATCATATTTGATTACATGTAAAACCAC-GTCTGGAACAGTG
* *
42826802 GCATCGATATTTGATTACATGTAAGACCACGTCTGGAACATTG
1 GCATC-ATATTTGATTACATGTAAAACCACGTCTGGAACAGTG
42826845 GCAT
1 GCAT
42826849 TGTACGAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
42 5 0.13
43 33 0.85
44 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
GCATCATATTTGATTACATGTAAAACCACGTCTGGAACAGTG
Found at i:42827976 original size:42 final size:42
Alignment explanation
Indices: 42827912--42828008 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
42827902 ACAGCCTAGA
* *
42827912 CACATGGGCGTGTTTATCGGTCGTGTGCTG-CATACGGGCTGG
1 CACATGGGCGTGTCTATCGGTCGTGTG-TGACACACGGGCTGG
*
42827954 CACATGGGCGTGTCTATTGGTCGTGTGTGACACACGGGCTGG
1 CACATGGGCGTGTCTATCGGTCGTGTGTGACACACGGGCTGG
*
42827996 CACATGGGTGTGT
1 CACATGGGCGTGT
42828009 GGTCAGCTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.04
42 48 0.96
ACGTcount: A:0.13, C:0.21, G:0.38, T:0.28
Consensus pattern (42 bp):
CACATGGGCGTGTCTATCGGTCGTGTGTGACACACGGGCTGG
Found at i:42829028 original size:44 final size:44
Alignment explanation
Indices: 42828973--42829061 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
42828963 CACTTCAAAT
*
42828973 GTATGCTTCGGGCCTCGTAAGCCCATATAATGGACAAAATGATG
1 GTATGCTTCGGGCCTCGTAAGCCCATATAAGGGACAAAATGATG
42829017 GTATGCTTCGGGCCTCGTAAGCCCATATAAGGGACAAAATGATG
1 GTATGCTTCGGGCCTCGTAAGCCCATATAAGGGACAAAATGATG
42829061 G
1 G
42829062 AATTGAAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
GTATGCTTCGGGCCTCGTAAGCCCATATAAGGGACAAAATGATG
Found at i:42831143 original size:41 final size:40
Alignment explanation
Indices: 42831085--42831192 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 40
42831075 TAATTAATTA
*
42831085 TACCCTGAATT-CAACATACGTGCCCCTATTTGTTCTTCGG
1 TACCCTGAATTGC-ACATACGTGCCCCTATTTGTACTTCGG
* * *
42831125 TACCCTCGAATTGCACATACATGCCCCTGTTTGTACTTTGG
1 TACCCT-GAATTGCACATACGTGCCCCTATTTGTACTTCGG
* * *
42831166 TCCCCTGAATAGCACATATGTGCCCCT
1 TACCCTGAATTGCACATACGTGCCCCT
42831193 GTTTACACTC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 24 0.41
41 33 0.57
42 1 0.02
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.32
Consensus pattern (40 bp):
TACCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGG
Found at i:42833482 original size:40 final size:40
Alignment explanation
Indices: 42833435--42833639 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
42833425 CGGATGATAA
*
42833435 CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
42833475 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
42833515 CGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
42833555 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
42833595 CGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
42833634 CGAAGG
1 CGAAGG
42833640 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 16 0.10
40 141 0.90
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:42836878 original size:45 final size:45
Alignment explanation
Indices: 42836829--42836930 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 45
42836819 ATATGTGCAA
*
42836829 ATTCATAGAAAATGATTCATATATATGGTGAACTCGTTCATATGG
1 ATTCATAGAAAATGATTCATATATATGGTGAACTCGTACATATGG
** *
42836874 ATTCATAGAAAATGATTCATATATATGGTGGGCTCGTACATGTGG
1 ATTCATAGAAAATGATTCATATATATGGTGAACTCGTACATATGG
* *
42836919 ACTCAGAGAAAA
1 ATTCATAGAAAA
42836931 AACTTCATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (45 bp):
ATTCATAGAAAATGATTCATATATATGGTGAACTCGTACATATGG
Found at i:42836938 original size:45 final size:45
Alignment explanation
Indices: 42836835--42836941 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
42836825 GCAAATTCAT
* * * *
42836835 AGAAAATGATTCATATATATGGTGAACTCGTTCATATGGATTCAT
1 AGAAAATAATTCATATATATGGTGAACTCGTACATATGGACTCAG
* ** *
42836880 AGAAAATGATTCATATATATGGTGGGCTCGTACATGTGGACTCAG
1 AGAAAATAATTCATATATATGGTGAACTCGTACATATGGACTCAG
42836925 AGAAAA-AACTTCATATA
1 AGAAAATAA-TTCATATA
42836942 ACAGATTCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 53 0.98
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (45 bp):
AGAAAATAATTCATATATATGGTGAACTCGTACATATGGACTCAG
Found at i:42837281 original size:23 final size:25
Alignment explanation
Indices: 42837255--42837305 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
42837245 GGGATTACAG
* *
42837255 ATTAGAGAAACT-ATTA-TAAATTA
1 ATTAGAGAAAATAATTACTAAACTA
*
42837278 ATTATAGAAAATAATTACTAAACTA
1 ATTAGAGAAAATAATTACTAAACTA
42837303 ATT
1 ATT
42837306 GAGTCACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 10 0.43
24 4 0.17
25 9 0.39
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (25 bp):
ATTAGAGAAAATAATTACTAAACTA
Found at i:42840055 original size:43 final size:43
Alignment explanation
Indices: 42839973--42840124 Score: 139
Period size: 43 Copynumber: 3.6 Consensus size: 43
42839963 TATGACATCG
** * * * *
42839973 TGTAAGACTGTGTCTGGGACATAGGCCTCGAT-TGAGATTTACG
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTACA
*
42840016 TATAAGACCATGTCTGGGACATCGGCATC-ATATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTACA
* * ** *
42840058 TGTAAGACCCTGTCTGAGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
* *
42840101 TGTAAGACCACGTTTGGGACATCG
1 TGTAAGACCATGTCTGGGACATCG
42840125 ACATTGTACT
Statistics
Matches: 86, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 32 0.37
43 54 0.63
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
Found at i:42840085 original size:42 final size:43
Alignment explanation
Indices: 42840018--42840110 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
42840008 GATTTACGTA
* ** *
42840018 TAAGACCATGTCTGGGACATCGGCATC-ATATCTG-ATTTCATG
1 TAAGACCATGTCTGAGACAGAGGCATCGATAT-TGAATTACATG
*
42840060 TAAGACCCTGTCTGAGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTGAGACAGAGGCATCGATATTGAATTACATG
42840103 TAAGACCA
1 TAAGACCA
42840111 CGTTTGGGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 25 0.58
43 18 0.42
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
TAAGACCATGTCTGAGACAGAGGCATCGATATTGAATTACATG
Found at i:42841533 original size:48 final size:48
Alignment explanation
Indices: 42841450--42841732 Score: 293
Period size: 48 Copynumber: 5.9 Consensus size: 48
42841440 CGGGGTATCT
* * *
42841450 CACCTTAAGTG-TCAATATCATGACCCAAAGTCAAATCAATGAAGCTCG
1 CACCTGAAGTGCT-AATATCATGGCCCAAAGCCAAATCAATGAAGCTCG
* * * * ***
42841498 CACCTGAAGT-ATCGATATCCTAGCTTGAAGCCAAATCAATGAAGCTCG
1 CACCTGAAGTGCT-AATATCATGGCCCAAAGCCAAATCAATGAAGCTCG
*** *
42841546 CACCTGAAGTGCTAATATCATGGAAAAAAGCCAAATCAATGAAGCTCA
1 CACCTGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGCTCG
* * * *
42841594 CACCCGAAGTGCTGATATCATGGCCCGAAGCCAAATCAATTAAGCTCG
1 CACCTGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGCTCG
*
42841642 CACCTGAAGTG-TCAATATCATGGCCCAAAGCCAAATCAATAAAGCTCG
1 CACCTGAAGTGCT-AATATCATGGCCCAAAGCCAAATCAATGAAGCTCG
** ** * *
42841690 CACCCAAAGTGCCGATATAATGGCCCGAAGCCAAATCAATGAA
1 CACCTGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATGAA
42841733 TTCCCTAATA
Statistics
Matches: 194, Mismatches: 37, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
47 1 0.01
48 192 0.99
49 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (48 bp):
CACCTGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATGAAGCTCG
Found at i:42841624 original size:96 final size:96
Alignment explanation
Indices: 42841450--42841732 Score: 347
Period size: 96 Copynumber: 2.9 Consensus size: 96
42841440 CGGGGTATCT
* ** * * *
42841450 CACCTTAAGTGTCAATATCAT-GACCCAAAGTCAAATCAATGAAGCTCGCACCTGAAGT-ATCGA
1 CACCTGAAGTGTCAATATCATGGA-AAAAAGCCAAATCAATGAAGCTCGCACCCGAAGTGCT-GA
* * **
42841513 TATCCTAGCTTGAAGCCAAATCAATGAAGCTCG
64 TATCATGGCCCGAAGCCAAATCAATGAAGCTCG
*
42841546 CACCTGAAGTG-CTAATATCATGGAAAAAAGCCAAATCAATGAAGCTCACACCCGAAGTGCTGAT
1 CACCTGAAGTGTC-AATATCATGGAAAAAAGCCAAATCAATGAAGCTCGCACCCGAAGTGCTGAT
*
42841610 ATCATGGCCCGAAGCCAAATCAATTAAGCTCG
65 ATCATGGCCCGAAGCCAAATCAATGAAGCTCG
*** * * *
42841642 CACCTGAAGTGTCAATATCATGGCCCAAAGCCAAATCAATAAAGCTCGCACCCAAAGTGCCGATA
1 CACCTGAAGTGTCAATATCATGGAAAAAAGCCAAATCAATGAAGCTCGCACCCGAAGTGCTGATA
*
42841707 TAATGGCCCGAAGCCAAATCAATGAA
66 TCATGGCCCGAAGCCAAATCAATGAA
42841733 TTCCCTAATA
Statistics
Matches: 162, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
95 1 0.01
96 157 0.97
97 4 0.02
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (96 bp):
CACCTGAAGTGTCAATATCATGGAAAAAAGCCAAATCAATGAAGCTCGCACCCGAAGTGCTGATA
TCATGGCCCGAAGCCAAATCAATGAAGCTCG
Found at i:42841721 original size:144 final size:144
Alignment explanation
Indices: 42841464--42841732 Score: 349
Period size: 144 Copynumber: 1.9 Consensus size: 144
42841454 TTAAGTGTCA
* * * ***
42841464 ATATCATGACCCAAAGTCAAATCAATGAAGCTCGCACCTGAAGTATCGATATCCTAGCTTGAAGC
1 ATATCATGACCCAAAGCCAAATCAATGAAGCTCGCACCTGAAGTATCAATATCATAGCCCAAAGC
* ** * *
42841529 CAAATCAATGAAGCTCGCACCTGAAGTGCTAATATCATGGAAAAAAGCCAAATCAATGAAGCTCA
66 CAAATCAATAAAGCTCGCACCCAAAGTGCCAATATAATGGAAAAAAGCCAAATCAATGAAGCTCA
42841594 CACCCGAAGTGCTG
131 CACCCGAAGTGCTG
* * * * *
42841608 ATATCATGGCCCGAAGCCAAATCAATTAAGCTCGCACCTGAAGTGTCAATATCATGGCCCAAAGC
1 ATATCATGACCCAAAGCCAAATCAATGAAGCTCGCACCTGAAGTATCAATATCATAGCCCAAAGC
* ****
42841673 CAAATCAATAAAGCTCGCACCCAAAGTGCCGATATAATGGCCCGAAGCCAAATCAATGAA
66 CAAATCAATAAAGCTCGCACCCAAAGTGCCAATATAATGGAAAAAAGCCAAATCAATGAA
42841733 TTCCCTAATA
Statistics
Matches: 104, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
144 104 1.00
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.19
Consensus pattern (144 bp):
ATATCATGACCCAAAGCCAAATCAATGAAGCTCGCACCTGAAGTATCAATATCATAGCCCAAAGC
CAAATCAATAAAGCTCGCACCCAAAGTGCCAATATAATGGAAAAAAGCCAAATCAATGAAGCTCA
CACCCGAAGTGCTG
Found at i:42843529 original size:43 final size:43
Alignment explanation
Indices: 42843360--42843530 Score: 220
Period size: 43 Copynumber: 4.0 Consensus size: 43
42843350 CATAGGATTT
* * * * *
42843360 TCGATATGTGTTTTCGTGTAAGACCATGTCTAGGACGTTCGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCA
**
42843403 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCAGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCA
* * *
42843446 TCG-TATTTGATTA-GTGTAAGACCCTGTCTGGGACAATGGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCA
* *
42843487 TCGATATGTGATTACATGTAAGACCATGTGTGGGACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCA
42843530 T
1 T
42843531 TTTACGATAT
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 27 0.25
42 18 0.16
43 65 0.59
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCA
Found at i:42845515 original size:595 final size:596
Alignment explanation
Indices: 42844342--42845534 Score: 2176
Period size: 595 Copynumber: 2.0 Consensus size: 596
42844332 ATTCCAATGG
42844342 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAGATCAC
1 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAGATCAC
*
42844407 ATGTTTTGCCCACCAATTTGACATTTCCAGTCAGACTGGAAGACTGCGTCACCTTCGCCTTAAAA
66 ATGTTTTGCCCACCAATTTGACATTTCCAGTCAGACTGGAAAACTGCGTCACCTTCGCCTTAAAA
42844472 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTTCGTAAATTTTCCCTGAATTTAGACTCATA
131 ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTTCGTAAATTTTCCCTGAATTTAGACTCATA
42844537 TATCCATCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGGACAGTTTATTAGTTAAA
196 TATCCATCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGGACAGTTTATTAGTTAAA
*
42844602 TTCACCCATGTTACAGGGATCGACTGCTCTGACCTACGCGCGGTATAACTTGAATATCTCTCTGT
261 GTCACCCATGTTACAGGGATCGACTGCTCTGACCTA-GCGCGGTATAACTTGAATATCTCTCTGT
* *
42844667 ACAGGGCTTTAATGCTGGTTCCGTTTGCTTCTAATGAAACTATACTCAAAATGGAATCTGTACAT
325 ACAGGGCTTTAATGCTGGTGCCGTTTGCTTCTAATGAAACTAGACTCAAAATGGAATCTGTACAT
*
42844732 ATAAGGTATGTCTCCTAATTCTTTCTGGATAATTTATAGTAAATTTTTAAAGTTGCGACAGGGGA
390 ATAAGGTATGTCTCCTAATTCTTTCTGGATAATTTATAGTAAATTTTTAAAGTTGCGACAGGGAA
* *
42844797 CCCAGAAACCGTTCTGGCCCTGTTTCACAATAGCTTCAATATCTCTTAACATGTAACTCCTATGA
455 CCCAGAAACCATTCTGGCCCTGTCTCACAATAGCTTCAATATCTCTTAACATGTAACTCCTATGA
42844862 CCATTTCGTTTCCTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGCTTATTCACTATT
520 CCATTTCGTTTCCTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGCTTATTCACTATT
42844927 TAATACCATTCC
585 TAATACCATTCC
*
42844939 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAGTTCAC
1 TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAGATCAC
* * *
42845004 TTGTTTTGCCCATCC-ATTTGACATTTCCAGTCAGGCTGGAAAACTGCGTCA-CTGTTGCCTTAA
66 ATGTTTTGCCCA-CCAATTTGACATTTCCAGTCAGACTGGAAAACTGCGTCACCT-TCGCCTTAA
42845067 AAATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTTCGTAAATTTTCCCTGAATTTAGACTCA
129 AAATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTTCGTAAATTTTCCCTGAATTTAGACTCA
*
42845132 TATATCCATCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTA
194 TATATCCATCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGGACAGTTTATTAGTTA
*
42845197 AAGTCACCCATGTTACAGGGATCGACTGCTCTGACCT-TCGCGGTATAACTTGAATATCTCTCTG
259 AAGTCACCCATGTTACAGGGATCGACTGCTCTGACCTAGCGCGGTATAACTTGAATATCTCTCTG
*
42845261 TACAGGGCTTTAATGCTGGTGCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGTACA
324 TACAGGGCTTTAATGCTGGTGCCGTTTGCTTCTAATGAAACTAGACTCAAAATGGAATCTGTACA
*
42845326 TATAAGGTATGTCTCCTAATTCTTTTTGGATAATTTATAGTAAATTTTTAAAGTTGCGACAGGGA
389 TATAAGGTATGTCTCCTAATTCTTTCTGGATAATTTATAGTAAATTTTTAAAGTTGCGACAGGGA
*
42845391 ACCCAGAAACCATTCTGGCCCTGTCTCACAATAGCTTTAATATCTCTTAACATGTAACTCCTATG
454 ACCCAGAAACCATTCTGGCCCTGTCTCACAATAGCTTCAATATCTCTTAACATGTAACTCCTATG
*
42845456 ACCATTTCGTTTCTTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGCTTATTCACTAT
519 ACCATTTCGTTTCCTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGCTTATTCACTAT
*
42845521 TTAATTCCATTCC
584 TTAATACCATTCC
42845534 T
1 T
42845535 ACGAATTTTG
Statistics
Matches: 576, Mismatches: 18, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
595 290 0.50
596 2 0.00
597 282 0.49
598 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (596 bp):
TGTAACACCCCGAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAGATCAC
ATGTTTTGCCCACCAATTTGACATTTCCAGTCAGACTGGAAAACTGCGTCACCTTCGCCTTAAAA
ATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTTCGTAAATTTTCCCTGAATTTAGACTCATA
TATCCATCCATGGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGGACAGTTTATTAGTTAAA
GTCACCCATGTTACAGGGATCGACTGCTCTGACCTAGCGCGGTATAACTTGAATATCTCTCTGTA
CAGGGCTTTAATGCTGGTGCCGTTTGCTTCTAATGAAACTAGACTCAAAATGGAATCTGTACATA
TAAGGTATGTCTCCTAATTCTTTCTGGATAATTTATAGTAAATTTTTAAAGTTGCGACAGGGAAC
CCAGAAACCATTCTGGCCCTGTCTCACAATAGCTTCAATATCTCTTAACATGTAACTCCTATGAC
CATTTCGTTTCCTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGCTTATTCACTATTT
AATACCATTCC
Found at i:42846347 original size:40 final size:40
Alignment explanation
Indices: 42846302--42846469 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
42846292 CGGAATATAA
42846302 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
42846342 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
42846382 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
42846422 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42846462 CCGGATAT
1 CCGGATAT
42846470 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42854373 original size:40 final size:40
Alignment explanation
Indices: 42854328--42854494 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
42854318 CGGAATATAA
42854328 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
42854368 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
42854408 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
42854448 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42854487 CCGGATAT
1 CCGGATAT
42854495 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42856981 original size:40 final size:39
Alignment explanation
Indices: 42856936--42857101 Score: 183
Period size: 40 Copynumber: 4.2 Consensus size: 39
42856926 CGGAATATAA
42856936 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
42856976 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
42857016 CCGGATATAGCCACTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
* * * *
42857055 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGTCTTAGC
42857094 CCGGATAT
1 CCGGATAT
42857102 CATTCAATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
39 44 0.41
40 62 0.58
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:42857085 original size:79 final size:79
Alignment explanation
Indices: 42856936--42857101 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
42856926 CGGAATATAA
* *
42856936 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
42857001 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
42857016 CCGGATATAGCCAC-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAAT
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-
*
42857078 TGTCTTCGGGCTTAGC
64 TGCCTTCGGGCTTAGC
42857094 CCGGATAT
1 CCGGATAT
42857102 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 17 0.23
79 46 0.61
80 12 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:42859538 original size:41 final size:40
Alignment explanation
Indices: 42859405--42859628 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
42859395 AACCCAAGTA
* * * *
42859405 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
42859444 CCTTCGGGACTTAGCCCGGATATAGTGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42859484 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * *
42859525 CCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42859565 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
*
42859606 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42859629 CATCCGAATA
Statistics
Matches: 164, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 12 0.07
40 93 0.57
41 59 0.36
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42859629 original size:81 final size:80
Alignment explanation
Indices: 42859405--42859629 Score: 319
Period size: 81 Copynumber: 2.8 Consensus size: 80
42859395 AACCCAAGTA
* * * * *
42859405 CCTTCGGGATTTAA-CCGGATATAG-CAAATCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATC
* *
42859468 GTGACTCGCACAAATG
65 GTCACTAGCACAAATG
* *
42859484 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
*
42859549 GTCACTAGCGCAAATG
65 GTCACTAGCACAAATG
42859565 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
42859630 ATCCGAATAA
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 12 0.09
80 18 0.14
81 100 0.77
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
TCACTAGCACAAATG
Found at i:42862018 original size:39 final size:39
Alignment explanation
Indices: 42861930--42862020 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 39
42861920 TACAAATCAC
* *
42861930 TTGGCCAAATATACACAAGTACACCAATTAAAAAGCCTA
1 TTGGCCGAATATACACAAGTACACCAAGTAAAAAGCCTA
42861969 TTGGCCGAATATACACAAGTACACCAAGTAAAAAGCCTA
1 TTGGCCGAATATACACAAGTACACCAAGTAAAAAGCCTA
*
42862008 TTGGCTGAATATA
1 TTGGCCGAATATA
42862021 TATGTATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (39 bp):
TTGGCCGAATATACACAAGTACACCAAGTAAAAAGCCTA
Found at i:42862447 original size:38 final size:37
Alignment explanation
Indices: 42862402--42862539 Score: 125
Period size: 38 Copynumber: 3.6 Consensus size: 37
42862392 TTTAAGTTCA
*
42862402 GATATAATACCAGCACTAGGCTGCGAGACTTTAACCCG
1 GATATAATACCAGCACTAGCCTGCGAGA-TTTAACCCG
* * *
42862440 GATATAATACTAGCA-TGAAGCCTACAAGATTTAACCCG
1 GATATAATACCAGCACT--AGCCTGCGAGATTTAACCCG
* * * * *
42862478 GATATATTACCAGCACGAAGCCTGTGGGATTTAACCTG
1 GATATAATACCAGCAC-TAGCCTGCGAGATTTAACCCG
* *
42862516 GATATAATTCCAGCATATAGCCTG
1 GATATAATACCAGCA-CTAGCCTG
42862540 TGGGTCTTTA
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
37 1 0.01
38 70 0.89
39 8 0.10
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (37 bp):
GATATAATACCAGCACTAGCCTGCGAGATTTAACCCG
Found at i:42862540 original size:38 final size:38
Alignment explanation
Indices: 42862431--42862559 Score: 118
Period size: 38 Copynumber: 3.3 Consensus size: 38
42862421 GCTGCGAGAC
* * * ****
42862431 TTTAACCCGGATATAATACTAGCATGAAGCCTACAAGA
1 TTTAACCCGGATATATTACCAGCACGAAGCCTGTGGGA
42862469 TTTAACCCGGATATATTACCAGCACGAAGCCTGTGGGA
1 TTTAACCCGGATATATTACCAGCACGAAGCCTGTGGGA
* * *
42862507 TTTAACCTGGATATAATT-CCAGCA-TATAGCCTGTGGGTC
1 TTTAACCCGGATAT-ATTACCAGCACGA-AGCCTGTGGG-A
42862546 TTTAAGCCCGGATA
1 TTTAA-CCCGGATA
42862560 CACATCAAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.01
38 60 0.79
39 8 0.11
40 7 0.09
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (38 bp):
TTTAACCCGGATATATTACCAGCACGAAGCCTGTGGGA
Found at i:42864881 original size:16 final size:16
Alignment explanation
Indices: 42864857--42864887 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42864847 TGGTTATTTG
*
42864857 ATATGTGATGCAAATT
1 ATATATGATGCAAATT
42864873 ATATATGATGCAAAT
1 ATATATGATGCAAAT
42864888 GAAAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (16 bp):
ATATATGATGCAAATT
Found at i:42864897 original size:19 final size:18
Alignment explanation
Indices: 42864873--42864916 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
42864863 GATGCAAATT
42864873 ATATATGATGCAAATGAAA
1 ATATATG-TGCAAATGAAA
* *
42864892 ATATATGTGTATATGAAA
1 ATATATGTGCAAATGAAA
42864910 AGTATAT
1 A-TATAT
42864917 TCAACCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATATGTGCAAATGAAA
Found at i:42865037 original size:22 final size:22
Alignment explanation
Indices: 42865009--42865054 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
42864999 ATATAAAATG
*
42865009 TGAATATTTATGAAATGA-TTTA
1 TGAATATATAT-AAATGAGTTTA
*
42865031 TGAATATATATATATGAGTTTA
1 TGAATATATATAAATGAGTTTA
42865053 TG
1 TG
42865055 TTATTCGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (22 bp):
TGAATATATATAAATGAGTTTA
Found at i:42866881 original size:21 final size:20
Alignment explanation
Indices: 42866853--42866891 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
42866843 CAAAACTTGT
42866853 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
42866873 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
42866892 AAATACTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:42868089 original size:18 final size:19
Alignment explanation
Indices: 42868055--42868161 Score: 168
Period size: 18 Copynumber: 5.8 Consensus size: 19
42868045 TCATATCTTT
*
42868055 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
42868074 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
42868092 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
42868109 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
*
42868127 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
42868146 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
42868162 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.20
18 34 0.42
19 31 0.38
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:42868110 original size:35 final size:36
Alignment explanation
Indices: 42868055--42868161 Score: 171
Period size: 35 Copynumber: 2.9 Consensus size: 36
42868045 TCATATCTTT
42868055 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
42868092 TAAGATTG-TATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
*
42868127 TAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
42868162 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
35 35 0.53
37 26 0.39
38 5 0.08
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAAGATTGCAATCATATC
Found at i:42868168 original size:54 final size:54
Alignment explanation
Indices: 42868046--42868169 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 54
42868036 ATTACAAAAT
* * *
42868046 CATATCTTTTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTG
1 CATATCATTTAAGATTGCATATCATATCTAAGATTGCAATCACATCTAAGATTG
42868100 --TATCATATCTAAGATTGCA-ATCATATCTAAGATTGCATATCACATCTAAGATTG
1 CATATCAT-T-TAAGATTGCATATCATATCTAAGATTGCA-ATCACATCTAAGATTG
*
42868154 CATATCATTGAAGATT
1 CATATCATTTAAGATT
42868170 ATATTTCCCT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
52 5 0.08
53 19 0.31
54 30 0.49
55 1 0.02
56 6 0.10
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (54 bp):
CATATCATTTAAGATTGCATATCATATCTAAGATTGCAATCACATCTAAGATTG
Found at i:42868569 original size:45 final size:45
Alignment explanation
Indices: 42868513--42868702 Score: 249
Period size: 45 Copynumber: 4.3 Consensus size: 45
42868503 CGATATCTAC
* *
42868513 TATCTTTGATCTGCTCCCTGTCTAATACAGAGACACCAAATCTGT
1 TATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGT
* * *
42868558 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCGAATCTGC
1 TATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGT
* * *
42868603 T-TCTTCAATCTGCTCCC-ATCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGT
* * *
42868646 TATCTCCGATTTGCTCCCTGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGT
* *
42868691 CATCTTGGATCT
1 TATCTTCGATCT
42868703 ACTTCGATGT
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 23 0.18
44 28 0.22
45 74 0.59
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGT
Found at i:42868640 original size:88 final size:89
Alignment explanation
Indices: 42868521--42868689 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 89
42868511 ACTATCTTTG
* *
42868521 ATCTGCTCCCTGTCTAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCTATCTAATACAGAGACACCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
*
42868586 AGAGACGCCGAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
** * *
42868610 ATCTGCTCCC-ATCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCTGTCTAATAC
1 ATCTGCTCCCTATCTAATACAGAGACACCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
*
42868674 AGAGATGCCAAATCTG
66 AGAGACGCCAAATCTG
42868690 TCATCTTGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 62 0.86
89 10 0.14
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (89 bp):
ATCTGCTCCCTATCTAATACAGAGACACCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:42869112 original size:206 final size:207
Alignment explanation
Indices: 42868863--42869581 Score: 1140
Period size: 206 Copynumber: 3.5 Consensus size: 207
42868853 AAATTTGTTT
* *
42868863 CTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGA-TCTGCTTCAGCGTAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACT-TGCTTCAACGTAAACA
* * * *
42868927 CGTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAA-CGCAAGGATGCTAAATCATC
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCTTGT-AAGCACAAGGATGCCAAACCATC
* * *
42868991 TTGGATCTTACTTCAGTACAAACATCTGAAGGCCAGATCTGCTATGTGTTTGCCCTCCGTCGCAT
129 TTGGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAT
*
42869056 ATGGAGATG-CAAA
194 ATGGAGACGCCAAA
*
42869069 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
42869134 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
42869199 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
42869264 GGAGACGCCAAA
196 GGAGACGCCAAA
42869276 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
42869341 GTGAAAGCCAAATCAGCTATGACTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
42869406 GGATCTTACTTCAGCATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
42869471 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * *
42869483 CTTCAATTTGTTCTCTGACAATACAGAGATGCC-AATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
42869547 GTAAAAACCAAATCAGCTATGTCTTCGATCTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
42869582 TCCGTCGAAT
Statistics
Matches: 477, Mismatches: 33, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
205 2 0.00
206 238 0.50
207 237 0.50
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:42869374 original size:207 final size:207
Alignment explanation
Indices: 42868863--42869575 Score: 1146
Period size: 207 Copynumber: 3.5 Consensus size: 207
42868853 AAATTTGTTT
* *
42868863 CTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGA-TCTGCTTCAGCGTAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACT-TGCTTCAACGTAAACA
* * * * * *
42868927 CGTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAA-CGCAAGGATGCTAAATCATC
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAACCATC
* * *
42868991 TTGGATCTTACTTCAGTACAAACATCTGAAGGCCAGATCTGCTATGTGTTTGCCCTCCGTCGCAT
129 TTGGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAT
*
42869056 ATGGAGATG-CAAA
194 ATGGAGACGCCAAA
*
42869069 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
42869134 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
42869199 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTTGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
42869264 GGAGACGCCAAA
196 GGAGACGCCAAA
42869276 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
42869341 GTGAAAGCCAAATCAGCTATGACTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
42869406 GGATCTTACTTCAGCATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATAT
131 GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
42869471 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * *
42869483 CTTCAATTTGTTCTCTGACAATACAGAGATGCC-AATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
42869547 GTAAAAACCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
42869576 CTGCTCTCCG
Statistics
Matches: 473, Mismatches: 31, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
205 2 0.00
206 234 0.49
207 237 0.50
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:42869802 original size:43 final size:42
Alignment explanation
Indices: 42869754--42869896 Score: 116
Period size: 43 Copynumber: 3.3 Consensus size: 42
42869744 ATCTGCTCCA
42869754 CTACTGCTTAGGGAGATAAGATCCGCAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCCG-AATTTTGACCTGTTACC
* * * *
42869797 CTACTGCTTAGGG-GATTAAG--GCGAGTCGTCGTTGATCTGTT-CTG
1 CTACTGCTTAGGGAGA-TAAGATCCGAAT--T--TTGACCTGTTAC-C
**
42869841 CTACTGCTTAGGGAGATAAGATCTATAATTTT-AGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATC-CGAATTTTGA-CCTGTTACC
42869884 CTACTGCTTAGGG
1 CTACTGCTTAGGG
42869897 GGTTAAGGCG
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
40 2 0.03
41 2 0.03
42 4 0.05
43 38 0.49
44 27 0.35
45 3 0.04
47 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (42 bp):
CTACTGCTTAGGGAGATAAGATCCGAATTTTGACCTGTTACC
Found at i:42869848 original size:44 final size:44
Alignment explanation
Indices: 42869797--42869940 Score: 127
Period size: 44 Copynumber: 3.3 Consensus size: 44
42869787 ACCTGTTACC
42869797 CTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGATCTGTTCTG
1 CTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGATCTGTTCTG
* * ** * * *
42869841 CTACTGCTTAGGGAGA-TAAGATCTA-TAAT--TTTAGCCTGTTAC-C
1 CTACTGCTTAGGG-GATTAAG-GCGAGTCGTCGTTGA-TCTGTT-CTG
* * *
42869884 CTACTGCTTAGGGGGTTAAGGCGAGTCGTCGTCGATCTGCTCTG
1 CTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGATCTGTTCTG
42869928 CTACTGCTTAGGG
1 CTACTGCTTAGGG
42869941 AGATAAGATC
Statistics
Matches: 74, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
42 6 0.08
43 25 0.34
44 37 0.50
45 6 0.08
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (44 bp):
CTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGATCTGTTCTG
Found at i:42869857 original size:87 final size:84
Alignment explanation
Indices: 42869704--42870072 Score: 459
Period size: 87 Copynumber: 4.4 Consensus size: 84
42869694 ATATGCTTTA
* *
42869704 ACCTGTTACCCTACTGTTTAGGGG-TTAAGGTGCA-TCTTCGATCTGCTCCACTACTGCTTAGGG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTTAGGG
*
42869767 AGATAAGATCCGCAATTTTG
65 AGATAAGATCTGCAATTTTG
* * **
42869787 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGATCTGTTCTGCTACTGCTTAG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAG
**
42869852 GGAGATAAGATCTATAATTTT-
63 GGAGATAAGATCTGCAATTTTG
* **
42869873 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCGTCGTCGATCTGCTCTGCTACTGCTTA
1 A-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTA
42869938 GGGAGATAAGATCTG------TG
62 GGGAGATAAGATCTGCAATTTTG
*
42869955 AACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
* *
42870020 AGATAAGATCTGCAAATTTA
65 AGATAAGATCTGCAATTTTG
42870040 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
42870073 CTGAATTTTG
Statistics
Matches: 253, Mismatches: 19, Indels: 27
0.85 0.06 0.09
Matches are distributed among these distances:
79 36 0.14
81 2 0.01
82 34 0.13
83 25 0.10
84 41 0.16
85 2 0.01
86 1 0.00
87 112 0.44
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (84 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTGCAATTTTG
Found at i:42870052 original size:166 final size:166
Alignment explanation
Indices: 42869700--42870073 Score: 481
Period size: 166 Copynumber: 2.2 Consensus size: 166
42869690 TCTGATATGC
* *
42869700 TTTAACCTGTTACCCTACTGTTTA-GGGGTTAAGGTGCATCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTA
* *
42869764 GGGAGATAAGATCCGCAATTTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGT
66 GGGAGATAAGAT-C-C-A-TGTGACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCGTC-T
* * ** * *
42869829 TGATCTGTTCTGCTACTGCTTAGGGAGATAAGATCTATAAT
126 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAA
* **
42869870 TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG-AGTCGTCGTCGATCTGCTCTGCTACTG
1 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TC-T--TCGATCTGCTCCACTACTG
42869934 CTTAGGGAGATAAGAT-C-TGTGAACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTC-T-T
62 CTTAGGGAGATAAGATCCATGTG-ACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCGTCT
*
42869995 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAA
126 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAA
*
42870036 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGC
42870074 TGAATTTTGT
Statistics
Matches: 181, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
166 70 0.39
168 4 0.02
169 36 0.20
170 23 0.13
171 14 0.08
172 1 0.01
174 33 0.18
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (166 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCCATGTGACCTGTTACCCTACTGCTTAAGGGATTAAGGCGAGTCGTCTCGATC
TGCTCCACTACTGCTTAGGGAGATAAGATCTACAAA
Found at i:42871005 original size:1 final size:1
Alignment explanation
Indices: 42870999--42871069 Score: 70
Period size: 1 Copynumber: 71.0 Consensus size: 1
42870989 GGCCTCTCCA
* * * * * * * *
42870999 TTTTTTTTTTCTTTTTCTTTTTTTTTTTTCTTTTTCTTTTCTTTTTTTCTTCTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
42871064 TTTTTT
1 TTTTTT
42871070 GAAATAGAAG
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:42871019 original size:11 final size:10
Alignment explanation
Indices: 42871000--42871069 Score: 90
Period size: 11 Copynumber: 6.9 Consensus size: 10
42870990 GCCTCTCCAT
42871000 TTTTTTTTTC
1 TTTTTTTTTC
*
42871010 TTTTTCTTT-
1 TTTTTTTTTC
42871019 TTTTTTTTTC
1 TTTTTTTTTC
42871029 TTTTTCTTTTC
1 TTTTT-TTTTC
42871040 TTTTTTTCTTC
1 TTTTTTT-TTC
42871051 TTTTTTTCTT-
1 TTTTTTT-TTC
42871061 TTTTTTTTT
1 TTTTTTTTT
42871070 GAAATAGAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
9 10 0.18
10 22 0.40
11 23 0.42
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:42871023 original size:19 final size:19
Alignment explanation
Indices: 42870999--42871066 Score: 102
Period size: 19 Copynumber: 3.5 Consensus size: 19
42870989 GGCCTCTCCA
42870999 TTTTTTTTTTCTTTTTCTT
1 TTTTTTTTTTCTTTTTCTT
42871018 TTTTTTTTTTCTTTTTCTT
1 TTTTTTTTTTCTTTTTCTT
*
42871037 TTCTTTTTTTCTTCTTT-TT
1 TTTTTTTTTTCTT-TTTCTT
42871056 TTCTTTTTTTT
1 TT-TTTTTTTT
42871067 TTTGAAATAG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 35 0.78
20 10 0.22
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTCTTTTTCTT
Found at i:42871026 original size:24 final size:25
Alignment explanation
Indices: 42871000--42871069 Score: 101
Period size: 24 Copynumber: 2.9 Consensus size: 25
42870990 GCCTCTCCAT
42871000 TTTTTTTTTCTTTTTCTTTTTTT-T
1 TTTTTTTTTCTTTTTCTTTTTTTCT
42871024 TTTTCTTTTTC-TTTTCTTTTTTTCT
1 TTTT-TTTTTCTTTTTCTTTTTTTCT
*
42871049 TCTTTTTTTCTTTTT-TTTTTT
1 TTTTTTTTTCTTTTTCTTTTTT
42871070 GAAATAGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
24 28 0.67
25 14 0.33
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (25 bp):
TTTTTTTTTCTTTTTCTTTTTTTCT
Found at i:42871033 original size:30 final size:30
Alignment explanation
Indices: 42870999--42871068 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
42870989 GGCCTCTCCA
*
42870999 TTTTTTTTTTCTTTTTCTT-TTTTTTTTTTC
1 TTTTTTTTTTCTTTTT-TTCTTCTTTTTTTC
*
42871029 TTTTTCTTTTCTTTTTTTCTTCTTTTTTTC
1 TTTTTTTTTTCTTTTTTTCTTCTTTTTTTC
42871059 TTTTTTTTTT
1 TTTTTTTTTT
42871069 TGAAATAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 2 0.06
30 34 0.94
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (30 bp):
TTTTTTTTTTCTTTTTTTCTTCTTTTTTTC
Found at i:42876775 original size:18 final size:19
Alignment explanation
Indices: 42876741--42876847 Score: 168
Period size: 18 Copynumber: 5.8 Consensus size: 19
42876731 TCATAACTTT
*
42876741 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
42876760 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
42876778 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
42876795 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
*
42876813 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
42876832 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
42876848 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.20
18 34 0.42
19 31 0.38
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:42876796 original size:35 final size:36
Alignment explanation
Indices: 42876741--42876847 Score: 171
Period size: 35 Copynumber: 2.9 Consensus size: 36
42876731 TCATAACTTT
42876741 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
42876778 TAAGATTG-TATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
*
42876813 TAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
42876848 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
35 35 0.53
37 26 0.39
38 5 0.08
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAAGATTGCAATCATATC
Found at i:42882579 original size:40 final size:40
Alignment explanation
Indices: 42882501--42882724 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
42882491 ACCCAAGTAT
* *
42882501 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
42882540 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
42882580 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
42882620 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
42882663 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
42882703 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
42882725 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:42882697 original size:83 final size:80
Alignment explanation
Indices: 42882501--42882724 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
42882491 ACCCAAGTAT
* * * *
42882501 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
42882565 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
42882580 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
42882644 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
42882663 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
42882725 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:42890710 original size:39 final size:40
Alignment explanation
Indices: 42890620--42890841 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
42890610 ACCCAAGTAT
* *
42890620 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
42890659 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
42890699 CTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
42890738 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
42890781 CTT-GGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
42890820 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
42890842 CATCGAATAA
Statistics
Matches: 162, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 61 0.38
40 65 0.40
41 1 0.01
42 22 0.14
43 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:42890814 original size:82 final size:79
Alignment explanation
Indices: 42890624--42890841 Score: 296
Period size: 82 Copynumber: 2.7 Consensus size: 79
42890614 AAGTATCTTC
* * * *
42890624 GGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACT
1 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACT
**
42890688 AGCATGAATGCCTT
66 AGCACAAATGCCTT
* * *
42890702 CGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAAC
1 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-AC
42890766 TACTCGCACAAATGCCTT
65 TA---GCACAAATGCCTT
*
42890784 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
42890842 CATCGAATAA
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 8 0.07
79 49 0.40
82 65 0.53
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (79 bp):
GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACT
AGCACAAATGCCTT
Found at i:42892285 original size:6 final size:6
Alignment explanation
Indices: 42892274--42892435 Score: 163
Period size: 6 Copynumber: 26.8 Consensus size: 6
42892264 AACCAAAATG
* *
42892274 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * *
42892322 AGTAA-C AGAATC AAAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
42892371 AGAATC AGTAA-C AGAATC AGAATC AAAATC AGTATT AGTAAT- AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
42892419 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
42892436 GTGAATGCAA
Statistics
Matches: 130, Mismatches: 15, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
5 10 0.08
6 110 0.85
7 9 0.07
8 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:42892289 original size:30 final size:30
Alignment explanation
Indices: 42892253--42892435 Score: 191
Period size: 30 Copynumber: 6.3 Consensus size: 30
42892243 AAGAAACATT
* *
42892253 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
42892283 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * *
42892313 ATCAGTATTAGTAACAGAATCAAAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
42892343 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
*
42892374 ATCAG---T---AACAGAATCAGAATCAAA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * *
42892398 ATCAGTATTAGTAATAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
42892428 ATCAGAAT
1 ATCAGAAT
42892436 GTGAATGCAA
Statistics
Matches: 129, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
24 21 0.16
27 1 0.01
28 1 0.01
30 82 0.64
31 24 0.19
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:42892374 original size:85 final size:85
Alignment explanation
Indices: 42892274--42892435 Score: 297
Period size: 85 Copynumber: 1.9 Consensus size: 85
42892264 AACCAAAATG
*
42892274 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAAAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAGTATTAGTAACAGAATCAAAAT
42892339 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* *
42892359 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAGTATTAGTAATAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAGTATTAGTAACAGAATCAAAAT
42892424 CAGAATCAGAAT
66 CAGAATCAGAAT
42892436 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAGTATTAGTAACAGAATCAAAAT
CAGAATCAGAATTAGGTGAC
Found at i:42892590 original size:27 final size:26
Alignment explanation
Indices: 42892553--42892618 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
42892543 AGCATGGCTT
*
42892553 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
42892579 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
42892606 CCAGAATCAGATA
1 CCAGAA-CAGATA
42892619 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:42892623 original size:27 final size:27
Alignment explanation
Indices: 42892553--42892626 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
42892543 AGCATGGCTT
* *
42892553 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
42892579 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
42892606 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
42892627 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:42892633 original size:27 final size:27
Alignment explanation
Indices: 42892577--42892634 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
42892567 GTGACAGAGT
* * *
42892577 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
42892604 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
42892631 CACC
1 CACC
42892635 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:42892839 original size:22 final size:22
Alignment explanation
Indices: 42892791--42892849 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
42892781 GTAAATACGT
*
42892791 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
42892813 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
42892835 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
42892850 TAATAACGGG
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:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:42893016 original size:27 final size:26
Alignment explanation
Indices: 42892937--42893019 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
42892927 TCGATCGGTC
* *
42892937 AACAGATATTGTGGCAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
42892963 ATACAGATATTGTGGCCGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
42892990 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
42893017 AAC
1 AAC
42893020 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:42893248 original size:27 final size:27
Alignment explanation
Indices: 42893218--42893386 Score: 203
Period size: 27 Copynumber: 6.3 Consensus size: 27
42893208 GGGGCAAAAT
* * *
42893218 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42893245 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
42893272 GGTATTTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42893299 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
42893326 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42893353 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42893380 AGTAATT
1 GGTAATT
42893387 TCACAATCAA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:42893385 original size:81 final size:81
Alignment explanation
Indices: 42893234--42893386 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 81
42893224 TTTACCCCAC
* * * * *
42893234 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTT
1 AAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGAAATTCTACCCTACAAGGGTATTTC
*
42893299 GGTAATTCTATCCTAT
66 AGTAATTCTATCCTAT
* * *
42893315 AAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGAAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGAAATTCTACCCTACAAGGGTATTTC
42893380 AGTAATT
66 AGTAATT
42893387 TCACAATCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (81 bp):
AAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGAAATTCTACCCTACAAGGGTATTTC
AGTAATTCTATCCTAT
Found at i:42893421 original size:27 final size:27
Alignment explanation
Indices: 42893391--42893777 Score: 422
Period size: 27 Copynumber: 14.3 Consensus size: 27
42893381 GTAATTTCAC
* *
42893391 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
42893418 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
42893445 AA-CTGAGAGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
42893472 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
42893499 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
42893526 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
42893553 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
42893580 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
42893607 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *
42893634 AATCGAGGGTAAAATAGTATTTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
42893661 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
42893688 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
42893715 AATCGATGGTGAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * **
42893742 AATTGAGGCTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
42893769 AATCGAGGG
1 AATCGAGGG
42893778 CATTTCAGTA
Statistics
Matches: 301, Mismatches: 51, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.01
27 293 0.97
28 4 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:42893467 original size:54 final size:54
Alignment explanation
Indices: 42893396--42893755 Score: 467
Period size: 54 Copynumber: 6.7 Consensus size: 54
42893386 TTCACAATCA
* *
42893396 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTTTGTAAACTG
* * * * * **
42893450 AGAGTAAACCAGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* *
42893504 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
*
42893558 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
*
42893612 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGT-ATTTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTT-TGTAAACTG
* **
42893666 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* * * * *
42893720 ATGGTGAAACGGTAATTTTATAAATTGAGGCTAAAA
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
42893756 TGGTAATTCT
Statistics
Matches: 270, Mismatches: 30, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
53 5 0.02
54 259 0.96
55 6 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
Found at i:42893761 original size:81 final size:81
Alignment explanation
Indices: 42893379--42893831 Score: 438
Period size: 81 Copynumber: 5.6 Consensus size: 81
42893369 AGGGGTATTT
* * * * * * *
42893379 CAGTAATTTCAC-AATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTG
* *
42893443 TAAA-CTGAGAGTAAAC
66 TAAATC-GAGGGTAAAA
* * * *
42893459 CAGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTG
42893524 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * *
42893540 CAGTAATTCTGTA-AACT-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTC
1 CAGTAATT-T-TACAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTC
42893603 TGTAAA-CTGAGGGTAAAA
64 TGTAAATC-GAGGGTAAAA
* * * ** *
42893621 CGGTAATTCTATAAATCGAGGGTAAAATAGT-ATTTCTGTAAA-CTGAGGGTAAAACGGTAATTC
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTT-TATAAATC-GAGGGTAAAACGGTAATTC
42893684 TGTAAATCGAGGGTAAAA
64 TGTAAATCGAGGGTAAAA
* * * * * *
42893702 CAGTAATTTTACAAATCGATGGTGAAACGGTAATTTTATAAATTGAGGCTAAAATGGTAATTCTA
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTG
* * ***
42893767 CAAATCGAGGGCATTT
66 TAAATCGAGGGTAAAA
* **** *
42893783 CAGTAATTTTAC-AATCGACGGTATTTTGGTAATTTTATAAACCG-GGGTA
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTA
42893832 CTTTGGTAAT
Statistics
Matches: 310, Mismatches: 51, Indels: 25
0.80 0.13 0.06
Matches are distributed among these distances:
79 6 0.02
80 41 0.13
81 252 0.81
82 9 0.03
83 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (81 bp):
CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTG
TAAATCGAGGGTAAAA
Done.