Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 88 of 318
Found at i:26488592 original size:13 final size:13
Alignment explanation
Indices: 26488574--26488601 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26488564 GTTATTGAAC
26488574 ATGGTGTAAGAGT
1 ATGGTGTAAGAGT
26488587 ATGGTGTAAGAGT
1 ATGGTGTAAGAGT
26488600 AT
1 AT
26488602 AGAGAGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (13 bp):
ATGGTGTAAGAGT
Found at i:26490126 original size:25 final size:26
Alignment explanation
Indices: 26490091--26490145 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
26490081 CCCCATACGA
* *
26490091 GCTTTCTAGATGAC-TTGCCACAAAG
1 GCTTTCAAGATAACTTTGCCACAAAG
* *
26490116 GCTTTCAAGATAACTTTGCTACTAAG
1 GCTTTCAAGATAACTTTGCCACAAAG
26490142 GCTT
1 GCTT
26490146 CCCAAATAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (26 bp):
GCTTTCAAGATAACTTTGCCACAAAG
Found at i:26502996 original size:27 final size:28
Alignment explanation
Indices: 26502940--26503009 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
26502930 AAATTTGTAC
26502940 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
26502968 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
26502995 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
26503010 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:26503020 original size:27 final size:27
Alignment explanation
Indices: 26502940--26503021 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
26502930 AAATTTGTAC
* *
26502940 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
26502968 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
26502995 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
26503022 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:26510819 original size:27 final size:28
Alignment explanation
Indices: 26510763--26510832 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
26510753 AAATTTGTAC
26510763 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
26510791 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
26510818 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
26510833 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:26510843 original size:27 final size:27
Alignment explanation
Indices: 26510763--26510844 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
26510753 AAATTTGTAC
* *
26510763 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
26510791 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
26510818 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
26510845 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:26518611 original size:27 final size:27
Alignment explanation
Indices: 26518581--26518649 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
26518571 AAATTTGTAC
26518581 AGCACTAAGTGTGCGAGTTTGA-TATAT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
26518608 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
26518635 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
26518650 GACTCACTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATAT
Found at i:26526118 original size:68 final size:67
Alignment explanation
Indices: 26526046--26526195 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
26526036 CATCATGTGT
* * * *
26526046 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
26526108 ATGTAG
62 ATGTAG
** * *
26526114 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
26526179 AG
66 AG
26526181 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
26526196 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:26526151 original size:64 final size:64
Alignment explanation
Indices: 26526070--26526253 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
26526060 AGACATTATG
* *
26526070 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
26526134 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
26526199 AA
63 AA
* * * *
26526201 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
26526254 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:26535282 original size:119 final size:119
Alignment explanation
Indices: 26535116--26535950 Score: 1409
Period size: 119 Copynumber: 7.0 Consensus size: 119
26535106 TTGGCTGCAG
26535116 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
*
26535181 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGAATCTCAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
* * * *
26535235 TATAGCAGATCTAACTTTCAGATATTTATACTGAAGTAGATCTAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
26535300 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
*
26535354 TATAGCAGATCTAGCTTTCAGATGTTTATACTGATGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
26535419 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
*
26535473 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAATCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * *
26535538 TTTACAAGGAACAAATTGAGGACATAGCAGATTTGACTCTTAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
*
26535592 TATAGCAGATCTAGCTTACAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
26535657 TTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
* * * *
26535711 TATAGCAGATCTAACCTGCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGATATTCTTGT
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGC-AGATCCAAGATGATTTGGTATTCTTGT
* * * *
26535776 GTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTGTCAGATGTTCTCAGA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
* * * *
26535831 CATGGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGATATTCTTGT
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGC-AGATCCAAGATGATTTGGTATTCTTGT
* *
26535896 GTTTACATGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
26535951 CAGACTCAAG
Statistics
Matches: 679, Mismatches: 36, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
119 490 0.72
120 189 0.28
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (119 bp):
TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
Found at i:26537618 original size:18 final size:17
Alignment explanation
Indices: 26537579--26537623 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
26537569 AATTTAGTCC
*
26537579 TATATTTATTCTATATA
1 TATATTTATTATATATA
26537596 TATATTT-TTATATATA
1 TATATTTATTATATATA
26537612 TTGATATTTATT
1 -T-ATATTTATT
26537624 TTATCCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
17 8 0.33
18 6 0.25
19 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATTTATTATATATA
Found at i:26537931 original size:12 final size:12
Alignment explanation
Indices: 26537822--26538048 Score: 63
Period size: 12 Copynumber: 19.2 Consensus size: 12
26537812 TCTTATTTCC
*
26537822 TATATATTTAAAT
1 TATATA-TTATAT
* *
26537835 TATATTTTATAA
1 TATATATTATAT
* *
26537847 CATTTATTATAT
1 TATATATTATAT
* *
26537859 TTTAT-TTTTAT
1 TATATATTATAT
*
26537870 TCTATATTACTTAT
1 TATATATTA--TAT
*
26537884 TAT-TATT-TTT
1 TATATATTATAT
26537894 TATATATGT-TAT
1 TATATAT-TATAT
*
26537906 GTGTATCA-TATAT
1 -TATAT-ATTATAT
26537919 TATATATTATAT
1 TATATATTATAT
26537931 TAT-TCATTATA-
1 TATAT-ATTATAT
* * *
26537942 -AGATTTGTAAAT
1 TATATAT-TATAT
26537954 TA-A-ATTATAT
1 TATATATTATAT
* * *
26537964 TTTAAACTCATAT
1 TATATA-TTATAT
26537977 TATATA-TATA-
1 TATATATTATAT
26537987 TATATA-TATAT
1 TATATATTATAT
26537998 T-TATA-TATAT
1 TATATATTATAT
26538008 ATATATATATATAT
1 -TATATAT-TATAT
*
26538022 TAAATTATTA-AT
1 TATA-TATTATAT
* *
26538034 TATGTATTATTT
1 TATATATTATAT
26538046 TAT
1 TAT
26538049 TTTAAAATGA
Statistics
Matches: 158, Mismatches: 32, Indels: 49
0.66 0.13 0.21
Matches are distributed among these distances:
10 31 0.20
11 30 0.19
12 52 0.33
13 31 0.20
14 14 0.09
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (12 bp):
TATATATTATAT
Found at i:26537984 original size:2 final size:2
Alignment explanation
Indices: 26537973--26538021 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
26537963 TTTTAAACTC
*
26537973 AT AT -T AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26538014 AT AT AT AT
1 AT AT AT AT
26538022 TAAATTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:26538169 original size:14 final size:14
Alignment explanation
Indices: 26538107--26538173 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 14
26538097 TACTTTTATA
26538107 TTATATA-TATATT
1 TTATATATTATATT
26538120 TTATA-ATTATTATT
1 TTATATATTA-TATT
*
26538134 CTCT-TATA-AATATT
1 -T-TATATATTATATT
*
26538148 TTGT-TATTATATT
1 TTATATATTATATT
26538161 TTATATATTATAT
1 TTATATATTATAT
26538174 AGCAAATACT
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
12 4 0.09
13 17 0.40
14 16 0.37
15 4 0.09
16 2 0.05
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (14 bp):
TTATATATTATATT
Found at i:26551895 original size:23 final size:23
Alignment explanation
Indices: 26551869--26551915 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
26551859 AGTTACTCTA
26551869 AGGTCCACAACTTAATACTTATT
1 AGGTCCACAACTTAATACTTATT
* *
26551892 AGGTCCTCATCTTAATACTTATT
1 AGGTCCACAACTTAATACTTATT
26551915 A
1 A
26551916 ATTGAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (23 bp):
AGGTCCACAACTTAATACTTATT
Found at i:26557726 original size:46 final size:46
Alignment explanation
Indices: 26557676--26557847 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
26557666 TGAGCATCCA
26557676 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * **
26557722 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GAT-ATAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
26557769 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
26557815 AGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
26557848 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:26557828 original size:93 final size:93
Alignment explanation
Indices: 26557669--26557840 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
26557659 GGATGGTTGA
* * *
26557669 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
26557734 TGAGTCCGAGTTCGTGAGATATAACTAG
66 TGAGTCCGAGTTCGTGAGATATAACTAG
* *
26557762 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
26557827 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
26557841 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATATAACTAG
Found at i:26560415 original size:47 final size:46
Alignment explanation
Indices: 26560345--26560606 Score: 144
Period size: 47 Copynumber: 5.6 Consensus size: 46
26560335 TAAGGTGCCA
*
26560345 ATGCCATGTCCTAGACACTGTCTTACACTGGCTCAT-ATCT-TAAG-TCG
1 ATGCCATGTCCCAGACA-TGTCTTACACTGGCT-ATCATCTCT-AGCT-G
*
26560392 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTC-TAGCTG
* * *
26560440 ATG-CATGTCCCAGACATGTCTTACATTGGCT-TACGTCTCGTGGAC-G
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTAT-CATCTC-TAG-CTG
* * ** * * ** * * **
26560486 AT-ACACGTATCAGACATTTCTTACACTAGCCCTCGTCTCAACGCCA
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCTA-GCTG
* * * * * *
26560532 ATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTCTAGCTG
*
26560580 ATG-CATGTCCCAGACATGTCTTGCACT
1 ATGCCATGTCCCAGACATGTCTTACACT
26560607 AGCTCACACA
Statistics
Matches: 169, Mismatches: 32, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
45 2 0.01
46 65 0.38
47 72 0.43
48 27 0.16
49 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCTAGCTG
Found at i:26569902 original size:14 final size:13
Alignment explanation
Indices: 26569875--26569905 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
26569865 TATTAATGTT
26569875 TTAATTAAATTAA
1 TTAATTAAATTAA
26569888 TTAATTAAGATTAA
1 TTAATTAA-ATTAA
26569902 TTAA
1 TTAA
26569906 ATTATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:26570967 original size:16 final size:18
Alignment explanation
Indices: 26570936--26570968 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
26570926 TGAATTATGC
26570936 TATATGATATTGAATATT
1 TATATGATATTGAATATT
26570954 TATAT-ATA-TGAATAT
1 TATATGATATTGAATAT
26570969 AAATTGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (18 bp):
TATATGATATTGAATATT
Found at i:26575230 original size:29 final size:29
Alignment explanation
Indices: 26575163--26575322 Score: 137
Period size: 29 Copynumber: 5.6 Consensus size: 29
26575153 AATCTCTGTT
* *
26575163 AAAGGAAGCCTTTG-GGTGATCTCTT-TT-
1 AAAGGATGCCTTTGTGGCGATCT-TTATTA
* * * *
26575190 AAAGGAAGCCTTTGCGGCAATATTTATTA
1 AAAGGATGCCTTTGTGGCGATCTTTATTA
* * *
26575219 AAAGGATGCCTTTTGTGGCTATCTCTGTTA
1 AAAGGATGCC-TTTGTGGCGATCTTTATTA
* * *
26575249 AAAGGATGGCTTTTTGGTGATCTTTATTA
1 AAAGGATGCCTTTGTGGCGATCTTTATTA
* *
26575278 AAAAGATGTCTTTGTGGCGATCTTTATTA
1 AAAGGATGCCTTTGTGGCGATCTTTATTA
* *
26575307 AAAAGATACCTTTGTG
1 AAAGGATGCCTTTGTG
26575323 TCTAAAGGAT
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 16 0.15
28 7 0.06
29 62 0.57
30 23 0.21
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (29 bp):
AAAGGATGCCTTTGTGGCGATCTTTATTA
Found at i:26575365 original size:29 final size:28
Alignment explanation
Indices: 26575326--26575418 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 28
26575316 CTTTGTGTCT
26575326 AAAGGATGCCTTTGTGGCTATCTCTGTAA
1 AAAGGATGCCTTTGTGGCTATCTCT-TAA
*
26575355 AAAGGATGCCTTTGTGGCTATCTCATTCA
1 AAAGGATGCCTTTGTGGCTATCTC-TTAA
* * * *
26575384 AAAGGATGCATGTGTGGTTATCTCTATTA
1 AAAGGATGCCTTTGTGGCTATCTCT-TAA
26575413 AAAGGA
1 AAAGGA
26575419 CACCTTCGTG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.02
29 55 0.96
30 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (28 bp):
AAAGGATGCCTTTGTGGCTATCTCTTAA
Found at i:26575412 original size:106 final size:107
Alignment explanation
Indices: 26575219--26575424 Score: 258
Period size: 106 Copynumber: 1.9 Consensus size: 107
26575209 ATATTTATTA
* * * *
26575219 AAAGGATGCCTTTTGTGGCTATCTCTGTTAAAAGGATGGCTTTTTGGTGATCTTTATTAAAAAGA
1 AAAGGATGCCTTTTGTGGCTATCTCTGTAAAAAGGATGCCTTTGTGGTGATCTTCATTAAAAAGA
* * *
26575284 TGTCTTTGTGGCGATCTTTATTAAAAAGATACCTTTGTGTCT
66 TGTCTGTGTGGCGATCTCTATTAAAAAGACACCTTTGTGTCT
*
26575326 AAAGGATGCC-TTTGTGGCTATCTCTGTAAAAAGGATGCCTTTGTGGCT-ATC-TCATTCAAAAG
1 AAAGGATGCCTTTTGTGGCTATCTCTGTAAAAAGGATGCCTTTGTGG-TGATCTTCATT-AAAAA
** *
26575388 GATG-CATGTGTGGTTATCTCTATTAAAAGGACACCTT
64 GATGTC-TGTGTGGCGATCTCTATTAAAAAGACACCTT
26575425 CGTGGTGAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
105 5 0.06
106 69 0.81
107 11 0.13
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (107 bp):
AAAGGATGCCTTTTGTGGCTATCTCTGTAAAAAGGATGCCTTTGTGGTGATCTTCATTAAAAAGA
TGTCTGTGTGGCGATCTCTATTAAAAAGACACCTTTGTGTCT
Found at i:26583200 original size:24 final size:24
Alignment explanation
Indices: 26583161--26583297 Score: 108
Period size: 23 Copynumber: 5.9 Consensus size: 24
26583151 AAGCTCCTCC
*
26583161 TGAGCTAATAAACAATAAGCTCTAT
1 TGAGCTGA-AAACAATAAGCTCTAT
26583186 TGAGCTGAAAACAATAAGCTCTAT
1 TGAGCTGAAAACAATAAGCTCTAT
*
26583210 TGAGCTG--AACAGTAAGCTCT-T
1 TGAGCTGAAAACAATAAGCTCTAT
* ** * *
26583231 TCGAGCT-AAATCGGTAAGCTCCAA
1 T-GAGCTGAAAACAATAAGCTCTAT
*
26583255 TGAGCT-AAAACAGTAAGCTCT-T
1 TGAGCTGAAAACAATAAGCTCTAT
* *
26583277 ACGAGCTG-AATCAATAAGCTC
1 -TGAGCTGAAAACAATAAGCTC
26583298 ATACGAGCTG
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
21 2 0.02
22 17 0.18
23 43 0.46
24 24 0.26
25 7 0.08
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
TGAGCTGAAAACAATAAGCTCTAT
Found at i:26583237 original size:46 final size:47
Alignment explanation
Indices: 26583161--26583297 Score: 147
Period size: 46 Copynumber: 2.9 Consensus size: 47
26583151 AAGCTCCTCC
* * * *
26583161 TGAGCTAATAAACAATAAGCTCTATT-GAGCTGAAAACAATAAGCTCTAT
1 TGAGCT-A-AAACAGTAAGCTCT-TTCGAGCTGAAATCAATAAGCTCCAA
* **
26583210 TGAGCT-GAACAGTAAGCTCTTTCGAGCT-AAATCGGTAAGCTCCAA
1 TGAGCTAAAACAGTAAGCTCTTTCGAGCTGAAATCAATAAGCTCCAA
*
26583255 TGAGCTAAAACAGTAAGCTCTTACGAGCTG-AATCAATAAGCTC
1 TGAGCTAAAACAGTAAGCTCTTTCGAGCTGAAATCAATAAGCTC
26583298 ATACGAGCTG
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
45 20 0.27
46 48 0.65
49 6 0.08
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (47 bp):
TGAGCTAAAACAGTAAGCTCTTTCGAGCTGAAATCAATAAGCTCCAA
Found at i:26583259 original size:69 final size:69
Alignment explanation
Indices: 26583176--26583306 Score: 167
Period size: 69 Copynumber: 1.9 Consensus size: 69
26583166 TAATAAACAA
* * * * * *
26583176 TAAGCTCTATTGAGCTGAAAACAATAAGCTC-TATTGAGCTGAA-CAGTAAGCTCTTTCGAGCTA
1 TAAGCTCCAATGAGCT-AAAACAATAAGCTCTTA-CGAGCTGAATCAATAAGCTCATACGAGCTA
26583239 AATCGG
64 AATCGG
*
26583245 TAAGCTCCAATGAGCTAAAACAGTAAGCTCTTACGAGCTGAATCAATAAGCTCATACGAGCT
1 TAAGCTCCAATGAGCTAAAACAATAAGCTCTTACGAGCTGAATCAATAAGCTCATACGAGCT
26583307 GTGGTGAGCC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
68 21 0.40
69 32 0.60
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (69 bp):
TAAGCTCCAATGAGCTAAAACAATAAGCTCTTACGAGCTGAATCAATAAGCTCATACGAGCTAAA
TCGG
Found at i:26591939 original size:2 final size:2
Alignment explanation
Indices: 26591932--26591968 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26591922 AAAAGATGAA
26591932 AT AT AT 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 AT AT AT A
26591969 AAATCATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26592920 original size:26 final size:25
Alignment explanation
Indices: 26592879--26592927 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 25
26592869 CATCTTATAA
26592879 AAATATAATAAAATA-TTAAAAATT
1 AAATATAATAAAATATTTAAAAATT
*
26592903 AAATATATATATATATATTTAAAAA
1 AAATATA-ATA-AAATATTTAAAAA
26592928 AGACATGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 4 0.19
27 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
AAATATAATAAAATATTTAAAAATT
Found at i:26602408 original size:21 final size:22
Alignment explanation
Indices: 26602382--26602423 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26602372 CACTTAACAC
*
26602382 AGGGGC-ACATGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
*
26602403 AGGGGCAACACGCCTGTGTGA
1 AGGGGCAACACGCCCGTGTGA
26602424 CCATTTAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.24, G:0.40, T:0.14
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:26602945 original size:57 final size:57
Alignment explanation
Indices: 26602857--26602967 Score: 222
Period size: 57 Copynumber: 1.9 Consensus size: 57
26602847 CACACGCCCT
26602857 TATGTCTACTCGTGTGGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCCCCG
1 TATGTCTACTCGTGTGGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCCCCG
26602914 TATGTCTACTCGTGTGGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCC
1 TATGTCTACTCGTGTGGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCC
26602968 TTACATACCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (57 bp):
TATGTCTACTCGTGTGGACAAAATAAGGCTATTTACCAAGCCTCTTTGCCACCCCCG
Found at i:26606320 original size:30 final size:33
Alignment explanation
Indices: 26606286--26606369 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 33
26606276 AAAAATCAAT
26606286 TCAATTCAATTCAATATCA-ATATC-A-CA-ACA
1 TCAATTCAATTCAATATCACATA-CAATCATACA
* *
26606316 TCAATTCATTTCAACAATCACATACAATCATACA
1 TCAATTCAATTCAA-TATCACATACAATCATACA
26606350 TACAATTCAATTCAATATCA
1 T-CAATTCAATTCAATATCA
26606370 TAGTGTCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 13 0.30
31 5 0.11
32 4 0.09
33 2 0.05
34 8 0.18
35 12 0.27
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (33 bp):
TCAATTCAATTCAATATCACATACAATCATACA
Found at i:26607127 original size:5 final size:5
Alignment explanation
Indices: 26607119--26607165 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
26607109 ATTAAACTAT
26607119 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
26607166 ATATTATTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:26607214 original size:27 final size:26
Alignment explanation
Indices: 26607123--26607217 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 26
26607113 AACTATTATA
* *
26607123 ATATAATAT-AATA-TAATATAATATA
1 ATATAATATAAATATTAATATTAT-TT
*
26607148 ATATAATATAATATAATAATATTATTT
1 ATATAATATAA-ATATTAATATTATTT
*
26607175 ATATATATTTAAATATTAAGTATGTATTT
1 ATATA-ATATAAATATTAA-TAT-TATTT
26607204 ATATAA-ATAAATAT
1 ATATAATATAAATAT
26607218 ATGTACATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
25 9 0.15
26 1 0.02
27 22 0.37
28 17 0.29
29 10 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
ATATAATATAAATATTAATATTATTT
Found at i:26607219 original size:29 final size:27
Alignment explanation
Indices: 26607148--26607219 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
26607138 ATATAATATA
*
26607148 ATAT-AATATAATATAATAATATTATTT
1 ATATAAATA-AATATATTAATATTATTT
* *
26607175 ATATATATTTAA-ATATTAAGTATGTATTT
1 ATATA-AATAAATATATTAA-TAT-TATTT
26607204 ATATAAATAAATATAT
1 ATATAAATAAATATAT
26607220 GTACATTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
27 10 0.29
28 9 0.26
29 16 0.46
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
ATATAAATAAATATATTAATATTATTT
Found at i:26607292 original size:26 final size:26
Alignment explanation
Indices: 26607258--26607314 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
26607248 TTTACCATAC
*
26607258 ATTTGTCACTTATGGTTTATTTACTA
1 ATTTATCACTTATGGTTTATTTACTA
26607284 ATTTATCACTTATGGTTTATTTACTA
1 ATTTATCACTTATGGTTTATTTACTA
26607310 ATTTA
1 ATTTA
26607315 GTCCTTCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (26 bp):
ATTTATCACTTATGGTTTATTTACTA
Found at i:26609292 original size:29 final size:28
Alignment explanation
Indices: 26609259--26609359 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
26609249 ATAGTGAATC
*
26609259 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
26609288 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
26609316 CGCAGACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
26609346 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26609360 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.06
28 22 0.35
29 18 0.29
30 18 0.29
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26617239 original size:28 final size:28
Alignment explanation
Indices: 26617174--26617245 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 28
26617164 ATAGTGAATC
*
26617174 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
26617203 CGCACACTTAGTGCTATA-TAATCAAACT
1 CGCACACTTAGTGCTATAGTAATC-AACT
26617231 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26617246 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 19 0.46
29 18 0.44
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:26618953 original size:89 final size:86
Alignment explanation
Indices: 26618799--26618973 Score: 323
Period size: 89 Copynumber: 2.0 Consensus size: 86
26618789 AACTAAATCA
26618799 ATCATCATAAATGTCATACATGAGCACACACATATTATAGGATCAAATAAATTTTTAATTATTTT
1 ATCATCATAAATGTCATACATGAGCACACACATATTATAGGATCAAATAAATTTTTAATTATTTT
26618864 TATGCCTCGGTTTTGTGGTCC
66 TATGCCTCGGTTTTGTGGTCC
26618885 ATCATCATAAAATGTCATACATGAGCACACACATATTATAGGCATCAAAATAAATTTTTAATTAT
1 ATCATCAT-AAATGTCATACATGAGCACACACATATTATAGG-ATC-AAATAAATTTTTAATTAT
26618950 TTTTATGCCTCGGTTTTGTGGTCC
63 TTTTATGCCTCGGTTTTGTGGTCC
26618974 CGAAACCACA
Statistics
Matches: 86, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
86 8 0.09
87 33 0.38
88 3 0.03
89 42 0.49
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (86 bp):
ATCATCATAAATGTCATACATGAGCACACACATATTATAGGATCAAATAAATTTTTAATTATTTT
TATGCCTCGGTTTTGTGGTCC
Found at i:26620078 original size:17 final size:18
Alignment explanation
Indices: 26620042--26620080 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
26620032 CATGTGGCGT
**
26620042 GCCCGTGTGGGCTTACAC
1 GCCCGTGTGGGCCCACAC
26620060 GCCCGTGT-GGCCCACAC
1 GCCCGTGTGGGCCCACAC
26620077 GCCC
1 GCCC
26620081 AACTTGGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.10, C:0.44, G:0.31, T:0.15
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:26620201 original size:24 final size:24
Alignment explanation
Indices: 26620166--26620229 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
26620156 CTTCATCGAT
26620166 CACACGACCTACCACATAGCCTAC
1 CACACGACCTACCACATAGCCTAC
** *
26620190 CGTACGACCTACCACATGGCCTAC
1 CACACGACCTACCACATAGCCTAC
26620214 CACACGACCTACCACA
1 CACACGACCTACCACA
26620230 CGACCGTGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.31, C:0.45, G:0.11, T:0.12
Consensus pattern (24 bp):
CACACGACCTACCACATAGCCTAC
Found at i:26620224 original size:12 final size:12
Alignment explanation
Indices: 26620166--26620234 Score: 77
Period size: 12 Copynumber: 5.8 Consensus size: 12
26620156 CTTCATCGAT
26620166 CACACGACCTAC
1 CACACGACCTAC
*
26620178 CACA-TAGCCTAC
1 CACACGA-CCTAC
**
26620190 CGTACGACCTAC
1 CACACGACCTAC
* *
26620202 CACATGGCCTAC
1 CACACGACCTAC
26620214 CACACGACCTAC
1 CACACGACCTAC
26620226 CACACGACC
1 CACACGACC
26620235 GTGTAACGTC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
11 1 0.02
12 43 0.96
13 1 0.02
ACGTcount: A:0.30, C:0.46, G:0.12, T:0.12
Consensus pattern (12 bp):
CACACGACCTAC
Found at i:26620940 original size:37 final size:37
Alignment explanation
Indices: 26620885--26620958 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
26620875 GCTCGCGCAG
* *
26620885 GGATTCGAATCCAGAACCTCCACACAACACACAGACT
1 GGATTCGAACCCAAAACCTCCACACAACACACAGACT
26620922 GGATTCGAACCCAAAACCTCCACACAACACACAGACT
1 GGATTCGAACCCAAAACCTCCACACAACACACAGACT
26620959 CTTTTACCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.36, G:0.12, T:0.12
Consensus pattern (37 bp):
GGATTCGAACCCAAAACCTCCACACAACACACAGACT
Found at i:26628179 original size:46 final size:46
Alignment explanation
Indices: 26628123--26628251 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
26628113 AGGTTGAGCA
*
26628123 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* *
26628169 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
*
26628215 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
26628252 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
Found at i:26634361 original size:13 final size:13
Alignment explanation
Indices: 26634343--26634372 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
26634333 GTACATGGTT
26634343 AACTCATGATACC
1 AACTCATGATACC
*
26634356 AACTCATGATGCC
1 AACTCATGATACC
26634369 AACT
1 AACT
26634373 TTGACAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.23
Consensus pattern (13 bp):
AACTCATGATACC
Found at i:26635635 original size:14 final size:16
Alignment explanation
Indices: 26635617--26635653 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
26635607 GATTATAATT
*
26635617 TATAAAT-TTTTAAAA
1 TATAAATGTTTCAAAA
26635632 -ATAAATGTTTCAAAA
1 TATAAATGTTTCAAAA
26635647 TATAAAT
1 TATAAAT
26635654 AAATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 7 0.37
16 6 0.32
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
TATAAATGTTTCAAAA
Found at i:26635856 original size:48 final size:48
Alignment explanation
Indices: 26635796--26635902 Score: 205
Period size: 48 Copynumber: 2.2 Consensus size: 48
26635786 CAGATTAAAG
*
26635796 GAATCTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
1 GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
26635844 GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
1 GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
26635892 GAATTTTATAA
1 GAATTTTATAA
26635903 GTGAAAACGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.32
Consensus pattern (48 bp):
GAATTTTATAAAAGATAAGTTGATAATTGAGATGGAAATCTATGAAAA
Found at i:26637842 original size:17 final size:18
Alignment explanation
Indices: 26637810--26637844 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26637800 CCGTGTGATT
*
26637810 CACCCGTGTGGGCCCACA
1 CACCCGTATGGGCCCACA
26637828 CACCCGTAT-GGCCCACA
1 CACCCGTATGGGCCCACA
26637845 TTGCCTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (18 bp):
CACCCGTATGGGCCCACA
Found at i:26638554 original size:2 final size:2
Alignment explanation
Indices: 26638547--26638575 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26638537 TTGACTGAAA
26638547 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
26638576 AACAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:26639591 original size:42 final size:43
Alignment explanation
Indices: 26639501--26639644 Score: 116
Period size: 42 Copynumber: 3.4 Consensus size: 43
26639491 AGACTACGTA
* * ** * *
26639501 TAAGACCATATCTGGGATATGA-CATCGATATGATATTTCT-TA
1 TAAGACCATATCTGGGATATTAGCAGCGATACAAGA-TTCTATG
* *
26639543 TAAGACCATATCTGGGATA-TAGCATCGATACAAGACTT-TGTG
1 TAAGACCATATCTGGGATATTAGCAGCGATACAAGA-TTCTATG
* * * * *
26639585 TCAGACCATAGCTGGGCTATTGGCAGCGATACGAGATTCTATG
1 TAAGACCATATCTGGGATATTAGCAGCGATACAAGATTCTATG
*
26639628 TAAGACTATATCTGGGA
1 TAAGACCATATCTGGGA
26639645 CATGACATTG
Statistics
Matches: 81, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.02
42 50 0.62
43 29 0.36
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (43 bp):
TAAGACCATATCTGGGATATTAGCAGCGATACAAGATTCTATG
Found at i:26639643 original size:43 final size:42
Alignment explanation
Indices: 26639543--26639644 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 42
26639533 ATATTTCTTA
* *
26639543 TAAGACCATATCTGGGATATAGCATCGATACAAGACTTTGTG
1 TAAGACCATATCTGGGATATAGCAGCGATACAAGACTTTATG
* * * * *
26639585 TCAGACCATAGCTGGGCTATTGGCAGCGATACGAGA-TTCTATG
1 TAAGACCATATCTGGGATA-TAGCAGCGATACAAGACTT-TATG
*
26639628 TAAGACTATATCTGGGA
1 TAAGACCATATCTGGGA
26639645 CATGACATTG
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
42 18 0.38
43 29 0.62
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATAGCAGCGATACAAGACTTTATG
Found at i:26640973 original size:35 final size:35
Alignment explanation
Indices: 26640932--26641001 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
26640922 AGAAATATTA
26640932 TTTTAGATAATTAATTGGATTAATGCTCAATTTGG
1 TTTTAGATAATTAATTGGATTAATGCTCAATTTGG
26640967 TTTTAGATAATTAATTGGATTAATGCTCAATTTGG
1 TTTTAGATAATTAATTGGATTAATGCTCAATTTGG
26641002 CCCTCAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (35 bp):
TTTTAGATAATTAATTGGATTAATGCTCAATTTGG
Found at i:26642267 original size:25 final size:25
Alignment explanation
Indices: 26642239--26642289 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
26642229 AGACTCGAAA
*
26642239 GACATCATTTACATTTCTGTATTGT
1 GACATCATTTACATTTCTATATTGT
*
26642264 GACATCATTTACGTTTCTATATTGT
1 GACATCATTTACATTTCTATATTGT
26642289 G
1 G
26642290 CTAACTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.47
Consensus pattern (25 bp):
GACATCATTTACATTTCTATATTGT
Found at i:26646698 original size:26 final size:26
Alignment explanation
Indices: 26646659--26646713 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
26646649 TATTTTCTCG
26646659 AAATTTTATCAAGGGTAAAATCATCA
1 AAATTTTATCAAGGGTAAAATCATCA
*
26646685 AAATTTTA-CTAAGGGTAAAATTATCA
1 AAATTTTATC-AAGGGTAAAATCATCA
26646711 AAA
1 AAA
26646714 AAAAATTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTTTATCAAGGGTAAAATCATCA
Found at i:26649873 original size:28 final size:28
Alignment explanation
Indices: 26649842--26649909 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
26649832 CTACTTGCAC
26649842 TTCCTTATTTATGGTTTCATTGTATCCT
1 TTCCTTATTTATGGTTTCATTGTATCCT
26649870 TTCCTTATTTATGGTTTCATTGTATCCT
1 TTCCTTATTTATGGTTTCATTGTATCCT
**
26649898 TTCAATATTTAT
1 TTCCTTATTTAT
26649910 TTACTAGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.57
Consensus pattern (28 bp):
TTCCTTATTTATGGTTTCATTGTATCCT
Found at i:26651772 original size:28 final size:28
Alignment explanation
Indices: 26651695--26651787 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 28
26651685 AACTTACCCA
*
26651695 GTGTTTACTGTCCCAACGGACTTACCTT-
1 GTGTTTACTGTCCCAACGGACTT-TCTTC
**** *
26651723 GTGTTTACTGTTTTGATGGACTTTCTTC
1 GTGTTTACTGTCCCAACGGACTTTCTTC
*
26651751 GTGTTTACTGTCCCAACAGACTTT-TCTC
1 GTGTTTACTGTCCCAACGGACTTTCT-TC
26651779 GTGTTTACT
1 GTGTTTACT
26651788 ATATCGACAG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 4 0.08
28 47 0.92
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (28 bp):
GTGTTTACTGTCCCAACGGACTTTCTTC
Found at i:26652427 original size:26 final size:26
Alignment explanation
Indices: 26652389--26652442 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
26652379 TCCTAACTTC
*
26652389 ATCTATCCTATTGAGGTTTTCCCACA
1 ATCTATCCCATTGAGGTTTTCCCACA
26652415 ATCTATCCCATTGAGGTTTTCCCACA
1 ATCTATCCCATTGAGGTTTTCCCACA
26652441 AT
1 AT
26652443 TATACAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (26 bp):
ATCTATCCCATTGAGGTTTTCCCACA
Found at i:26659528 original size:48 final size:49
Alignment explanation
Indices: 26659421--26659637 Score: 153
Period size: 49 Copynumber: 4.5 Consensus size: 49
26659411 TGAGAGTCAA
* * * ** *
26659421 TGTAAGACATGTCAGGGACAT-GCATCGGCA-TTA-AGATGAGAGCTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACCGAGAGATGAAAGCTAG
* *
26659467 TGTAAGACATGTCTGGGACAT-GCATC-AGC-CTCGAGATAT-ACAAGCTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGA-CAC-CGAGAGATGA-AAGCTAG
* * *
26659515 TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACCGAGAGATGAAAGCTAG
* * * * * *
26659564 TGTAAGACCTGTCTGGGACACGTCATCGAC-CTTGATATATGAAAGTTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACAC-CGAGAGATGAAAGCTAG
* * *
26659613 TCTAAAACCATGTTTGGGACATGGC
1 TGTAAGACC-TGTCTGGGACATGGC
26659638 GTCAATGTCT
Statistics
Matches: 137, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
46 26 0.19
47 2 0.01
48 30 0.22
49 64 0.47
50 15 0.11
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACCGAGAGATGAAAGCTAG
Found at i:26659570 original size:49 final size:48
Alignment explanation
Indices: 26659373--26659594 Score: 188
Period size: 46 Copynumber: 4.7 Consensus size: 48
26659363 TATGTGTGCT
* * * *
26659373 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-AT-TATGAGAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGATAGATGAGAGCC
* * * ** *
26659419 AATGTAAGACATGTCAGGGACATGCATCG-GCATTA-AGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGATAGATGAGAGCC
* * * * *
26659465 AGTGTAAGACATGTCTGGGACATGCATC-AGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CCACGATAGATGA-GAGCC
*
26659513 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CACCGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGACCA-CGATAGATGAGAGCC
* *
26659562 AGTGTAAGACCTGTCTGGGACACGTCATCGACC
1 AGTGTAAGACATGTCTGGGACATG-CATCGACC
26659595 TTGATATATG
Statistics
Matches: 141, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 60 0.43
47 3 0.02
48 31 0.22
49 42 0.30
50 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACGATAGATGAGAGCC
Found at i:26670635 original size:19 final size:19
Alignment explanation
Indices: 26670608--26670644 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26670598 TTACATGGCT
* *
26670608 AGAGGACACAGGTGTGTCG
1 AGAGCACACAGGCGTGTCG
26670627 AGAGCACACAGGCGTGTC
1 AGAGCACACAGGCGTGTC
26670645 CCCTGTCTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.22, G:0.38, T:0.14
Consensus pattern (19 bp):
AGAGCACACAGGCGTGTCG
Found at i:26681849 original size:27 final size:27
Alignment explanation
Indices: 26681819--26681873 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
26681809 ATGTTTTTTA
26681819 ATTTTCAAAAAATA-GAAAATAAAAAAT
1 ATTTT-AAAAAATACGAAAATAAAAAAT
** *
26681846 ATTTTTTAAAATACGAAATTAAAAAAT
1 ATTTTAAAAAATACGAAAATAAAAAAT
26681873 A
1 A
26681874 GAAAAAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
ATTTTAAAAAATACGAAAATAAAAAAT
Found at i:26682391 original size:2 final size:2
Alignment explanation
Indices: 26682384--26682418 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26682374 ATAATTTAAA
26682384 AT AT 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 AT AT A
26682419 AATTCAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26683526 original size:13 final size:14
Alignment explanation
Indices: 26683508--26683546 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
26683498 TAATAAATAA
26683508 ATTTTTATAAT-TT
1 ATTTTTATAATATT
26683521 ATTTTTATAATATT
1 ATTTTTATAATATT
* *
26683535 CTATTTATAATA
1 ATTTTTATAATA
26683547 ATAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTATAATATT
Found at i:26690401 original size:109 final size:110
Alignment explanation
Indices: 26690251--26690470 Score: 424
Period size: 109 Copynumber: 2.0 Consensus size: 110
26690241 TCTCACTGCT
26690251 ACCTATCAAAAAAAAAAAAAACACTCTCACTAGCCATTGCTTCATACATTCTCAACGAATATCTT
1 ACCTATC-AAAAAAAAAAAAACACTCTCACTAGCCATTGCTTCATACATTCTCAACGAATATCTT
26690316 TAAAGTTTGGATAAATTATACTAGTAGTCACCTAATTATTAGTAAA
65 TAAAGTTTGGATAAATTATACTAGTAGTCACCTAATTATTAGTAAA
26690362 ACCTATC-AAAAAAAAAAAACACTCTCACTAGCCATTGCTTCATACATTCTCAACGAATATCTTT
1 ACCTATCAAAAAAAAAAAAACACTCTCACTAGCCATTGCTTCATACATTCTCAACGAATATCTTT
26690426 AAAGTTTGGATAAATTATACTAGTAGTCACCTAATTATTAGTAAA
66 AAAGTTTGGATAAATTATACTAGTAGTCACCTAATTATTAGTAAA
26690471 TTTCTTTTTT
Statistics
Matches: 109, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
109 102 0.94
111 7 0.06
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (110 bp):
ACCTATCAAAAAAAAAAAAACACTCTCACTAGCCATTGCTTCATACATTCTCAACGAATATCTTT
AAAGTTTGGATAAATTATACTAGTAGTCACCTAATTATTAGTAAA
Found at i:26696736 original size:22 final size:23
Alignment explanation
Indices: 26696709--26696753 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
26696699 AGGTATCTAC
*
26696709 AAATCAAATC-TCTAATATTACA
1 AAATCAAATCTTCTAAGATTACA
*
26696731 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
26696754 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:26696757 original size:17 final size:17
Alignment explanation
Indices: 26696735--26696787 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
26696725 ATTACAAAAT
26696735 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
26696752 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
* *
26696771 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
26696788 TGTTTCTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:26696758 original size:22 final size:22
Alignment explanation
Indices: 26696706--26696763 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
26696696 AAAAGGTATC
* *
26696706 TACAAATCAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
26696727 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
26696750 TACATATCATATCT
1 TACAAATCATATCT
26696764 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:26700577 original size:39 final size:39
Alignment explanation
Indices: 26700534--26700612 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
26700524 CCTTTGGGTT
*
26700534 TCGACTTGGGCTTAGAACACTTACTATTATCAAACTTTC
1 TCGACTTAGGCTTAGAACACTTACTATTATCAAACTTTC
*
26700573 TCGACTTAGGCTTAGAAGACTTACTATTATCAAACTTTC
1 TCGACTTAGGCTTAGAACACTTACTATTATCAAACTTTC
26700612 T
1 T
26700613 TCCCCCAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (39 bp):
TCGACTTAGGCTTAGAACACTTACTATTATCAAACTTTC
Found at i:26701914 original size:22 final size:23
Alignment explanation
Indices: 26701887--26701931 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
26701877 AGGTATCTAC
26701887 AAATCAAAT-ATCTAAGATTACA
1 AAATCAAATCATCTAAGATTACA
* *
26701909 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCATCTAAGATTACA
26701932 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCATCTAAGATTACA
Found at i:26701925 original size:23 final size:22
Alignment explanation
Indices: 26701884--26701941 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
26701874 AAAAGGTATC
* *
26701884 TACAAATCAAAT-ATCTAAGAT
1 TACAAATCATATCTTCTAAGAT
26701905 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
26701928 TACATATCATATCT
1 TACAAATCATATCT
26701942 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:26701935 original size:17 final size:17
Alignment explanation
Indices: 26701913--26701965 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
26701903 ATTACAAAAT
26701913 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
26701930 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
* *
26701949 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
26701966 TGTTTCCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:26701939 original size:22 final size:23
Alignment explanation
Indices: 26701897--26701941 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
26701887 AAATCAAATA
26701897 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
26701920 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
26701942 ACGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:26702956 original size:27 final size:27
Alignment explanation
Indices: 26702891--26702988 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
26702881 TTGGTTATGG
*
26702891 AAAGTGGGATAGTTTGA-TGGGACATTA
1 AAAGTGGGATAGTCT-ATTGGGACATTA
* **
26702918 AAAGCGATATAGTCTATTGGGACATTA
1 AAAGTGGGATAGTCTATTGGGACATTA
* ** *
26702945 AAAGTGGGATAGTCCATTAAGAAATTA
1 AAAGTGGGATAGTCTATTGGGACATTA
* *
26702972 AAAATGGGATTGTCTAT
1 AAAGTGGGATAGTCTAT
26702989 CTAGAAATTT
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 1 0.02
27 55 0.98
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (27 bp):
AAAGTGGGATAGTCTATTGGGACATTA
Found at i:26707192 original size:28 final size:26
Alignment explanation
Indices: 26707161--26707227 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
26707151 ATTTATATGC
26707161 AATTTATGATTTTTTA-TATTTTATAATT
1 AATTTAT-ATTTTTTATTA-TTT-TAATT
**
26707189 AATTTATAAATTTTATTATTTTAATT
1 AATTTATATTTTTTATTATTTTAATT
*
26707215 CATTTATATTTTT
1 AATTTATATTTTT
26707228 AATAATGTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 15 0.45
27 9 0.27
28 9 0.27
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (26 bp):
AATTTATATTTTTTATTATTTTAATT
Found at i:26708956 original size:31 final size:31
Alignment explanation
Indices: 26708921--26708992 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
26708911 AAAAAATAAC
* * *
26708921 AATTCAACTCTTTTTAAAAGGTTGATGGCCA
1 AATTCAACTCTTTTTAAAAAGTTAAAGGCCA
**
26708952 AATTCCTCTCTTTTTAAAAAGTTAAAGGCCA
1 AATTCAACTCTTTTTAAAAAGTTAAAGGCCA
*
26708983 AATTTAACTC
1 AATTCAACTC
26708993 AAAAAATTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (31 bp):
AATTCAACTCTTTTTAAAAAGTTAAAGGCCA
Found at i:26709729 original size:2 final size:2
Alignment explanation
Indices: 26709722--26709759 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
26709712 TGTGTTATTA
26709722 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26709760 GATTAGTGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26710857 original size:6 final size:6
Alignment explanation
Indices: 26710842--26710872 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
26710832 AGAAAGACGT
*
26710842 TGGCTA TGGCTG TGGCTA TGGCTA TGGCTA T
1 TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA T
26710873 TAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.16, G:0.35, T:0.35
Consensus pattern (6 bp):
TGGCTA
Found at i:26713625 original size:19 final size:18
Alignment explanation
Indices: 26713597--26713635 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
26713587 CTCAACATTC
26713597 TTTTTATTTTATTT-TTAT
1 TTTTTATTTT-TTTCTTAT
26713615 TTTTATATTTTTTTCTTAT
1 TTTT-TATTTTTTTCTTAT
26713634 TT
1 TT
26713636 CTTTGATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTATTTTTTTCTTAT
Found at i:26714257 original size:36 final size:36
Alignment explanation
Indices: 26714216--26714304 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
26714206 TTGAAAGAGG
*
26714216 TTGAAGCGGGAAGTGAAGTTAAGAGGGACGAGACAA
1 TTGAAGCGGGAAGTGAAGTTAAGAGGGACAAGACAA
* * * **
26714252 TTGAAGTGGGAAGTGGAGTTAATAGGGACAAGATGA
1 TTGAAGCGGGAAGTGAAGTTAAGAGGGACAAGACAA
26714288 TTGAAGCGGGAAGTGAA
1 TTGAAGCGGGAAGTGAA
26714305 AATGGCCGAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.37, C:0.06, G:0.39, T:0.18
Consensus pattern (36 bp):
TTGAAGCGGGAAGTGAAGTTAAGAGGGACAAGACAA
Found at i:26715649 original size:11 final size:11
Alignment explanation
Indices: 26715626--26715658 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
26715616 CAAATAGAGG
26715626 TATAACAAA-AT
1 TATAA-AAATAT
26715637 TATAAAAATAT
1 TATAAAAATAT
26715648 TATAAAAATAT
1 TATAAAAATAT
26715659 GATATTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 3 0.14
11 18 0.86
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
TATAAAAATAT
Found at i:26715850 original size:51 final size:52
Alignment explanation
Indices: 26715794--26715900 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
26715784 ATGATTTAAT
*
26715794 AAAAATATAACAACCTTAT-AAAAACAGAAAAGGAAAGAAAAGAACAATGTA
1 AAAAATATAACAACCTTATAAAAAACAGAAAAGAAAAGAAAAGAACAATGTA
*
26715845 AAAAATATAACAACCTTATAAAAAATAGAAAAGAAAAGAAAAGAACAATGTA
1 AAAAATATAACAACCTTATAAAAAACAGAAAAGAAAAGAAAAGAACAATGTA
26715897 AAAA
1 AAAA
26715901 GTGACAATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 19 0.36
52 34 0.64
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.14
Consensus pattern (52 bp):
AAAAATATAACAACCTTATAAAAAACAGAAAAGAAAAGAAAAGAACAATGTA
Found at i:26717490 original size:21 final size:21
Alignment explanation
Indices: 26717466--26717511 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
26717456 CAGACATGGT
* *
26717466 CGTGTGGCTACTCCACATGCC
1 CGTGTGACTACTCCAAATGCC
26717487 CGTGTGACTACTCCAAATGCC
1 CGTGTGACTACTCCAAATGCC
26717508 CGTG
1 CGTG
26717512 CGCTCACCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.35, G:0.24, T:0.24
Consensus pattern (21 bp):
CGTGTGACTACTCCAAATGCC
Found at i:26718694 original size:13 final size:13
Alignment explanation
Indices: 26718658--26718695 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
26718648 TTTTCACATA
*
26718658 ACCATTTCATATG
1 ACCATTTCATTTG
*
26718671 ACCATTTCATTTT
1 ACCATTTCATTTG
26718684 ACCATTTCATTT
1 ACCATTTCATTT
26718696 ACATATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (13 bp):
ACCATTTCATTTG
Found at i:26719469 original size:15 final size:16
Alignment explanation
Indices: 26719439--26719472 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
26719429 AATATTTACT
26719439 ATACAAGCAAAATTAA
1 ATACAAGCAAAATTAA
*
26719455 ATACAA-CATAATTAA
1 ATACAAGCAAAATTAA
26719470 ATA
1 ATA
26719473 GTTAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
ATACAAGCAAAATTAA
Found at i:26719872 original size:16 final size:16
Alignment explanation
Indices: 26719851--26719885 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
26719841 AGTCCTTGTA
26719851 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
26719867 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
26719883 ATT
1 ATT
26719886 AAAATTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:26723648 original size:9 final size:9
Alignment explanation
Indices: 26723634--26723665 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
26723624 TCAAAAGAAC
26723634 CGAGTTATT
1 CGAGTTATT
*
26723643 CGAGTTAAT
1 CGAGTTATT
26723652 CGAGTTATT
1 CGAGTTATT
26723661 CGAGT
1 CGAGT
26723666 CAACTCGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (9 bp):
CGAGTTATT
Found at i:26723746 original size:9 final size:9
Alignment explanation
Indices: 26723717--26723753 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26723707 TGAGTTTTCG
26723717 AATTCGAAT
1 AATTCGAAT
*
26723726 AACTCGAAT
1 AATTCGAAT
26723735 AATTCGAAT
1 AATTCGAAT
*
26723744 AATTTGAAT
1 AATTCGAAT
26723753 A
1 A
26723754 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26724143 original size:17 final size:17
Alignment explanation
Indices: 26724116--26724177 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
26724106 ACTCCCCCTA
*
26724116 TTTACTTCCCCTCAAACT
1 TTTACTTCCCC-AAAACT
26724134 TTTA-TTCCCCAAAACTT
1 TTTACTTCCCCAAAAC-T
* *
26724151 TTTATTTTTCCCCTAAACT
1 TTTA--CTTCCCCAAAACT
26724170 TTTACTTC
1 TTTACTTC
26724178 TCATCCTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 4 0.11
17 14 0.38
18 4 0.11
19 5 0.14
20 10 0.27
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTACTTCCCCAAAACT
Found at i:26732493 original size:26 final size:25
Alignment explanation
Indices: 26732451--26732499 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
26732441 TAATAAAAAT
* *
26732451 AATAATAATATTGTTTGAGAGTTGA
1 AATAAAAATATTGTTTGACAGTTGA
*
26732476 AATAAAAAGTATTTTTTGACAGTT
1 AATAAAAA-TATTGTTTGACAGTT
26732500 AAGAAAGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (25 bp):
AATAAAAATATTGTTTGACAGTTGA
Found at i:26736640 original size:25 final size:25
Alignment explanation
Indices: 26736612--26736663 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
26736602 CTCTCACGTA
*
26736612 TACATACTTTAATAACTCACAAGTC
1 TACATACTTTAATAACTCACAACTC
26736637 TACATACTTTAATAACTCACAACTC
1 TACATACTTTAATAACTCACAACTC
26736662 TA
1 TA
26736664 GCTTATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.25, G:0.02, T:0.33
Consensus pattern (25 bp):
TACATACTTTAATAACTCACAACTC
Found at i:26738436 original size:48 final size:47
Alignment explanation
Indices: 26738223--26738495 Score: 197
Period size: 48 Copynumber: 5.7 Consensus size: 47
26738213 AGAGTAAATA
* *
26738223 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCC-ATCA-AGT-
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACA-CCTAT-ATAGTG
* * * * * *
26738271 -CGATGTCATGTCCCAAACATGGTCTTACATTGACTATCGAAATTGAG-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTATA-T-AGTG
* * * * *
26738319 CCGACGCCATGTCCCAGACTTGGTCTTACACT-AGCTCTCACATATCCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-C-TATAT-AGTG
* *
26738369 CCGATGCCATGTCCTAGACATGGTCTTACACTGACACCTTTATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTATATA-GTG
*
26738417 CCGATGCCATGTCCCAGACATGGTCTTACACTGACA-C-ATTTAGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTATATAGT-G
* *
26738463 TCGATG-CATGTCCTAGACAT-GTCTTACACTGAC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC
26738496 TTACATCTCG
Statistics
Matches: 183, Mismatches: 28, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
44 13 0.07
45 18 0.10
46 12 0.07
47 30 0.16
48 44 0.24
49 31 0.17
50 34 0.19
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTATATAGTG
Found at i:26738530 original size:46 final size:44
Alignment explanation
Indices: 26738376--26738538 Score: 141
Period size: 46 Copynumber: 3.5 Consensus size: 44
26738366 GTGCCGATGC
* * * *
26738376 CATGTCCTAGACATGGTCTTACACTGACACCTTTA-TACGTGCCGATGC
1 CATGTCCCAGACAT-GTCTTACACTGACACATCTAGTA---GCCGAT-A
* * *
26738424 CATGTCCCAGACATGGTCTTACACTGACACATTTAGTAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACACATCTAGTAGCCGATA
* *
26738469 CATGTCCTAGACATGTCTTACACTGACTTACATCTCG-AGGCCGATA
1 CATGTCCCAGACATGTCTTACACTGAC--ACATCTAGTA-GCCGATA
*
26738515 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
26738539 AGCTCTTGTT
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
44 13 0.13
45 14 0.14
46 38 0.38
48 33 0.33
49 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTAGTAGCCGATA
Found at i:26746083 original size:46 final size:45
Alignment explanation
Indices: 26746000--26746120 Score: 156
Period size: 46 Copynumber: 2.6 Consensus size: 45
26745990 TTATATGTGC
* *
26746000 CGATGCCATGTGCCAAACATGGTCTTACAC-TGATACATCTCGTA-GT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTTGATACATCTCG-AGGT
*
26746046 CGATGCATGTCCCAGACATGTCTTACACTTGCTTACATCTCGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTTG-ATACATCTCGAGGT
*
26746092 CGATGCATGTCCCAGATATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
26746121 AGCTATCGTC
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
44 9 0.13
45 15 0.22
46 44 0.65
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTTGATACATCTCGAGGT
Found at i:26749044 original size:37 final size:37
Alignment explanation
Indices: 26748991--26749081 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
26748981 TATAAAAGAA
26748991 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
26749028 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
26749065 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
26749082 TTCCAAGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:26749215 original size:40 final size:41
Alignment explanation
Indices: 26749171--26749306 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 41
26749161 CATATATTTT
26749171 ACATT-AGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
* * *
26749211 ACATTCA-CCACATCGGCCATTAGGC-C-T-TACATACACTTTC
1 ACATTCAGCCA-TTAGGCC-TTA-TCACATATACATACACTTTC
26749251 ACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATT-----CA---GCCATTAGGCCTTATCACATATACATACACTTTC
26749300 ACATTCA
1 ACATTCA
26749307 TCGCATTGGC
Statistics
Matches: 74, Mismatches: 6, Indels: 28
0.69 0.06 0.26
Matches are distributed among these distances:
40 26 0.35
41 7 0.09
42 4 0.05
43 1 0.01
44 2 0.03
45 2 0.03
46 1 0.01
47 4 0.05
48 6 0.08
49 21 0.28
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (41 bp):
ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
Found at i:26749232 original size:49 final size:49
Alignment explanation
Indices: 26749177--26749333 Score: 215
Period size: 49 Copynumber: 3.4 Consensus size: 49
26749167 TTTTACATTA
26749177 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
26749226 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
26749266 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
26749315 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
26749334 CACATATGTA
Statistics
Matches: 95, Mismatches: 4, Indels: 18
0.81 0.03 0.15
Matches are distributed among these distances:
40 37 0.39
41 1 0.01
42 1 0.01
43 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 52 0.55
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:26755727 original size:7 final size:7
Alignment explanation
Indices: 26755715--26755741 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
26755705 GGGCTTACAA
26755715 AAAGGTG
1 AAAGGTG
26755722 AAAGGTG
1 AAAGGTG
26755729 AAAGGTG
1 AAAGGTG
26755736 AAAGGT
1 AAAGGT
26755742 TAATTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (7 bp):
AAAGGTG
Found at i:26755947 original size:21 final size:21
Alignment explanation
Indices: 26755921--26755961 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26755911 AATAATTTAA
26755921 AAATTATAAAA-ATAAAAAATC
1 AAATTA-AAAATATAAAAAATC
*
26755942 AAATTAAAAATTTAAAAAAT
1 AAATTAAAAATATAAAAAAT
26755962 TTAAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATTAAAAATATAAAAAATC
Found at i:26756320 original size:2 final size:2
Alignment explanation
Indices: 26756309--26756338 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
26756299 CTACATATGT
26756309 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26756339 GTATGAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26770800 original size:21 final size:21
Alignment explanation
Indices: 26770762--26770801 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26770752 ACTTGAAACT
*
26770762 ATGTTTATATATGATTTAGTA
1 ATGTTTATAAATGATTTAGTA
* *
26770783 ATGTTTTTAAATGTTTTAG
1 ATGTTTATAAATGATTTAG
26770802 AACCTAGGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (21 bp):
ATGTTTATAAATGATTTAGTA
Found at i:26771579 original size:19 final size:18
Alignment explanation
Indices: 26771531--26771584 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
26771521 TTTTATTGCA
26771531 TTTTATTTTATTTT-TAT
1 TTTTATTTTATTTTCTAT
26771548 TTTTAATTCTTATTTTCTAAT
1 TTTT-ATT-TTATTTTCT-AT
*
26771569 TTTTCTTTTATTTTCT
1 TTTTATTTTATTTTCT
26771585 TCTGGCAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
19 16 0.50
20 3 0.09
21 6 0.19
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATTTTATTTTCTAT
Found at i:26781406 original size:40 final size:40
Alignment explanation
Indices: 26781361--26781527 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
26781351 CGGAATATAA
26781361 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
26781401 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
26781441 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
26781481 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
26781520 CCGGATAT
1 CCGGATAT
26781528 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:26789415 original size:40 final size:40
Alignment explanation
Indices: 26789370--26789536 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
26789360 CGGAATATAA
26789370 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
26789410 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
26789450 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
26789490 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
26789529 CCGGATAT
1 CCGGATAT
26789537 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:26791381 original size:6 final size:6
Alignment explanation
Indices: 26791372--26791416 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
26791362 TTTTATTTCC
* * *
26791372 TTTTAT TTTTAT TTTTAT TTTTAT TTTTCT ATTTAT TTGTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
26791417 CCTAGACTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:26794590 original size:13 final size:12
Alignment explanation
Indices: 26794572--26794620 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
26794562 CGTTTCCTTA
26794572 TTATTTTAATCTT
1 TTATTTTAAT-TT
*
26794585 TTA-TTTATTATT
1 TTATTTTAAT-TT
26794597 TTATTTTAATTAT
1 TTATTTTAATT-T
26794610 TTATTTTAATT
1 TTATTTTAATT
26794621 GTTTTATCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 11 0.35
13 20 0.65
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTTAATTT
Found at i:26794603 original size:17 final size:18
Alignment explanation
Indices: 26794569--26794617 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
26794559 ATTCGTTTCC
*
26794569 TTATTATTTTAATCTTTTAT
1 TTATTATTTT-A-CTTTTAA
26794589 TTATTATTTTA-TTTTAA
1 TTATTATTTTACTTTTAA
26794606 TTATTTATTTTA
1 TTA-TTATTTTA
26794618 ATTGTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 1 0.04
20 10 0.37
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTATTTTACTTTTAA
Found at i:26800343 original size:15 final size:16
Alignment explanation
Indices: 26800323--26800352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26800313 CAACTTGATC
26800323 GCCATC-CATTTTTTT
1 GCCATCTCATTTTTTT
26800338 GCCATCTCATTTTTT
1 GCCATCTCATTTTTT
26800353 CCGCATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.27, G:0.07, T:0.53
Consensus pattern (16 bp):
GCCATCTCATTTTTTT
Found at i:26809475 original size:32 final size:32
Alignment explanation
Indices: 26809434--26809499 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
26809424 TTTCGCAAAC
26809434 TTACTCATATATACCCCACTAGCATTATATCT
1 TTACTCATATATACCCCACTAGCATTATATCT
26809466 TTACTCATATATACCCCACTAGCATTATATCT
1 TTACTCATATATACCCCACTAGCATTATATCT
26809498 TT
1 TT
26809500 TACTGTTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.39
Consensus pattern (32 bp):
TTACTCATATATACCCCACTAGCATTATATCT
Found at i:26812681 original size:17 final size:18
Alignment explanation
Indices: 26812659--26812701 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
26812649 ATGGAAATAT
26812659 AATCTT-TAAGGATATGC
1 AATCTTATAAGGATATGC
* *
26812676 AATCTTAGTTATGATATGC
1 AATCTTA-TAAGGATATGC
26812695 AATCTTA
1 AATCTTA
26812702 GATATGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
19 16 0.73
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (18 bp):
AATCTTATAAGGATATGC
Found at i:26812693 original size:19 final size:19
Alignment explanation
Indices: 26812669--26812712 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
26812659 AATCTTTAAG
*
26812669 GATATGCAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
26812688 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26812707 GATATG
1 GATATG
26812713 ATATGATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:26820641 original size:132 final size:132
Alignment explanation
Indices: 26820403--26820846 Score: 701
Period size: 132 Copynumber: 3.4 Consensus size: 132
26820393 CAAAGAAACA
* * * *
26820403 AGATTTGGCACCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTATGCTT
*
26820468 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
26820533 GC
131 GC
* *
26820535 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAATAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTATGCTT
* * *
26820600 ACAGCAAAGCTGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
*
26820665 GT
131 GC
* *
26820667 AGATTTGGCATCTCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTATGCTT
26820732 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
26820797 GC
131 GC
* * * * * *
26820799 AGATTTGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGAT
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGAT
26820847 TTGGCATCTC
Statistics
Matches: 286, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
132 285 1.00
133 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTATGCTT
ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:26820838 original size:44 final size:44
Alignment explanation
Indices: 26820790--26820897 Score: 162
Period size: 44 Copynumber: 2.4 Consensus size: 44
26820780 GGAACAAGTT
*
26820790 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
* *
26820834 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
*
26820878 GAAGACATAGCTGATTTGGC
1 GAAG--ATAGCAGATTTGGC
26820898 TTTCACGTGT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 45 0.79
46 12 0.21
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (44 bp):
GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:26821511 original size:205 final size:205
Alignment explanation
Indices: 26820869--26821579 Score: 1230
Period size: 205 Copynumber: 3.5 Consensus size: 205
26820859 TATTGGCGGA
* *
26820869 GAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
* *
26820934 TTGGCATCTTTGTATTGTCAGAGAACAAATCGAAGTCTGCCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
*
26820999 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCTAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
26821064 TGCTTACAAG
196 TGCTTACAAG
* *
26821074 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCATGTGCTTACGTTGAAACAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
* *
26821139 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCT---CTTTGACGGAGTGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
* *
26821201 CACATAGCAGATCCAAACTTCAAATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
26821266 TGCTTACAAG
196 TGCTTACAAG
*
26821276 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCGTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
26821341 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
* **
26821406 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATAATTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
26821471 TGCTTACAAG
196 TGCTTACAAG
* *
26821481 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTATGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
* *
26821546 TTGGCATCTCTGTATTGCCAGGGAACAAATCGAA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAA
26821580 AAAGCAGATT
Statistics
Matches: 477, Mismatches: 26, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
202 194 0.41
205 283 0.59
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:26821749 original size:45 final size:45
Alignment explanation
Indices: 26821680--26821765 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
26821670 GCAAATTTAG
26821680 CGTCCCTGTATTAGACGGGGAGCAGATAAAAGATAACAGATTTGA
1 CGTCCCTGTATTAGACGGGGAGCAGATAAAAGATAACAGATTTGA
* * *
26821725 CGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGAT
1 CGTCCCTGTATTAGACGGGGAGCAGATAAAAGATAACAGAT
26821766 ATCGCCTTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (45 bp):
CGTCCCTGTATTAGACGGGGAGCAGATAAAAGATAACAGATTTGA
Found at i:26822179 original size:29 final size:30
Alignment explanation
Indices: 26822135--26822192 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
26822125 TGCAATCTTA
* *
26822135 GATATGATTTGTAATCTT-AGATATGATAT
1 GATATGATATGCAATCTTAAGATATGATAT
26822164 GATATGATATGCAATCTTGAAGATATGAT
1 GATATGATATGCAATCTT-AAGATATGAT
26822193 TTTGTAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
31 9 0.36
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (30 bp):
GATATGATATGCAATCTTAAGATATGATAT
Found at i:26824381 original size:4 final size:4
Alignment explanation
Indices: 26824372--26824418 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
26824362 AAATTTAACA
** *
26824372 TAAT TAAT TAAT T--T TAAT TAAT TAAT TAAT TTTT TAAT TAAA TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
26824418 T
1 T
26824419 TTCTCAACCC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
4 33 0.94
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (4 bp):
TAAT
Found at i:26824389 original size:14 final size:14
Alignment explanation
Indices: 26824372--26824398 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26824362 AAATTTAACA
26824372 TAATTAATTAATTT
1 TAATTAATTAATTT
26824386 TAATTAATTAATT
1 TAATTAATTAATT
26824399 AATTTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATTAATTAATTT
Found at i:26824596 original size:31 final size:31
Alignment explanation
Indices: 26824561--26824630 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
26824551 TCAATTAATT
26824561 AATTAATTAATTAATAATTCAAAAAACCATA
1 AATTAATTAATTAATAATTCAAAAAACCATA
26824592 AATTAATTAATTAATAATTCAAAAAACCATA
1 AATTAATTAATTAATAATTCAAAAAACCATA
26824623 AATTAATT
1 AATTAATT
26824631 CTCAAGTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (31 bp):
AATTAATTAATTAATAATTCAAAAAACCATA
Found at i:26827374 original size:24 final size:22
Alignment explanation
Indices: 26827328--26827374 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
26827318 CAATATTTTT
**
26827328 TTTATTTTTATATATTTTTAAA
1 TTTATTTTTATATATTTGAAAA
26827350 TTTATTATTATATATATTTGAAAA
1 TTTATT-TT-TATATATTTGAAAA
26827374 T
1 T
26827375 ATTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTATTTTTATATATTTGAAAA
Found at i:26827377 original size:22 final size:22
Alignment explanation
Indices: 26827330--26827377 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
26827320 ATATTTTTTT
* * *
26827330 TATTTTTATATATTTTTAAATT
1 TATTATTATATATTTTGAAATA
26827352 TATTATTATATATATTTGAAA-A
1 TATTATTATATAT-TTTGAAATA
26827374 TATT
1 TATT
26827378 TATGTATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTATTATATATTTTGAAATA
Found at i:26828649 original size:2 final size:2
Alignment explanation
Indices: 26828637--26828667 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
26828627 GAGGTCGTAA
*
26828637 AT AT GT 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
26828668 ATGTGTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Done.