Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 84 of 185
Found at i:26070690 original size:37 final size:37
Alignment explanation
Indices: 26070649--26070820 Score: 290
Period size: 37 Copynumber: 4.6 Consensus size: 37
26070639 AGTACTTCTA
26070649 ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
1 ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
*
26070686 ATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTG
1 ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
*
26070723 ATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTG
1 ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
*
26070760 ATCAAGAGACAAAGTGATAAGTGGCTACACTTATCTG
1 ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
** *
26070797 ATCAAGTGATAAAGTGATAAGTGG
1 ATCAAGAAACAAAGTGATAAGTGG
26070821 TAGCTTCAGC
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 130 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (37 bp):
ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
Found at i:26070892 original size:45 final size:46
Alignment explanation
Indices: 26070783--26070906 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
26070773 GTGATAAGTG
* *
26070783 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
26070829 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
26070874 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
26070907 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:26072869 original size:35 final size:33
Alignment explanation
Indices: 26072714--26072905 Score: 106
Period size: 33 Copynumber: 5.7 Consensus size: 33
26072704 AATTGACAGA
* * * *
26072714 TAAGACCATGGTTGGACCATGGCAATGTTTATATG
1 TAAGACCATAGTTGGGCTATGGC-AT-TTTATAAG
*
26072749 TAACACCATAGTTGGGCTATGGCATTTTAATGAA-
1 TAAGACCATAGTTGGGCTATGGCATTTT-AT-AAG
** * * **
26072783 -AAGACCATAACTGGGTTATGGCACTTTGA-ACC
1 TAAGACCATAGTTGGGCTATGGCA-TTTTATAAG
* * *
26072815 TGAGACCA-GGTTGGACTATGGCAGTATTTATAAG
1 TAAGACCATAGTTGGGCTATGGCA-T-TTTATAAG
* *
26072849 TAAGACCATAGTTGGGCTATGGCATTCTGATGA-
1 TAAGACCATAGTTGGGCTATGGCATT-TTATAAG
** *
26072882 TAAGACCATAACTGGGTTATGGCA
1 TAAGACCATAGTTGGGCTATGGCA
26072906 CTACGAATGT
Statistics
Matches: 119, Mismatches: 29, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
31 1 0.01
32 11 0.09
33 54 0.45
34 20 0.17
35 33 0.28
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (33 bp):
TAAGACCATAGTTGGGCTATGGCATTTTATAAG
Found at i:26072891 original size:33 final size:33
Alignment explanation
Indices: 26072753--26072907 Score: 107
Period size: 33 Copynumber: 4.7 Consensus size: 33
26072743 TATATGTAAC
* * *
26072753 ACCATAGTTGGGCTATGGCATTTTAATGAAAAG
1 ACCATAGTTGGGCTATGGCACTTTGATGATAAG
** * *** *
26072786 ACCATAACTGGGTTATGGCACTTTGAACCTGAG
1 ACCATAGTTGGGCTATGGCACTTTGATGATAAG
* * * * *
26072819 ACCA-GGTTGGACTATGGCAGTATTTATAAGTAAG
1 ACCATAGTTGGGCTATGGCACT-TTGATGA-TAAG
26072853 ACCATAGTTGGGCTATGGCA-TTCTGATGATAAG
1 ACCATAGTTGGGCTATGGCACTT-TGATGATAAG
** *
26072886 ACCATAACTGGGTTATGGCACT
1 ACCATAGTTGGGCTATGGCACT
26072908 ACGAATGTAA
Statistics
Matches: 89, Mismatches: 28, Indels: 9
0.71 0.22 0.07
Matches are distributed among these distances:
32 11 0.12
33 52 0.58
34 13 0.15
35 13 0.15
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (33 bp):
ACCATAGTTGGGCTATGGCACTTTGATGATAAG
Found at i:26072896 original size:100 final size:101
Alignment explanation
Indices: 26072716--26072907 Score: 305
Period size: 100 Copynumber: 1.9 Consensus size: 101
26072706 TTGACAGATA
* * *
26072716 AGACCATGGTTGGACCATGGCAATGTTTATATGTAACACCATAGTTGGGCTATGGCATTTTAATG
1 AGACCATGGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATG
26072781 AAAAGACCATAACTGGGTTATGGCACTTTGAACCTG
66 AAAAGACCATAACTGGGTTATGGCACTTTGAACCTG
* * * *
26072817 AGACCA-GGTTGGACTATGGCAGTATTTATAAGTAAGACCATAGTTGGGCTATGGCATTCTGATG
1 AGACCATGGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATG
*
26072881 ATAAGACCATAACTGGGTTATGGCACT
66 AAAAGACCATAACTGGGTTATGGCACT
26072908 ACGAATGTAA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 77 0.93
101 6 0.07
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (101 bp):
AGACCATGGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATG
AAAAGACCATAACTGGGTTATGGCACTTTGAACCTG
Found at i:26072919 original size:33 final size:32
Alignment explanation
Indices: 26072848--26072955 Score: 94
Period size: 33 Copynumber: 3.3 Consensus size: 32
26072838 GTATTTATAA
** * *
26072848 GTAAGACCATAGTTGGGCTATGGCATTCTGAT
1 GTAAGACCATAACTGGGTTATGGCATACTGAT
26072880 GATAAGACCATAACTGGGTTATGGCACTAC-GAAT
1 G-TAAGACCATAACTGGGTTATGGCA-TACTG-AT
* * *
26072914 GTAAGACCATGACTGGGTCATGGCAATGCATG-T
1 GTAAGACCATAACTGGGTTATGGC-ATAC-TGAT
26072947 GTAAGACCA
1 GTAAGACCA
26072956 CAGTTGGACT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
32 1 0.02
33 55 0.87
34 6 0.10
35 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGTTATGGCATACTGAT
Found at i:26077059 original size:53 final size:54
Alignment explanation
Indices: 26076975--26077080 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 54
26076965 TTTAGATGTC
*
26076975 TTTTTGTCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
1 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
26077029 TTTTTGCCATGACATATTGAG-TTACACTTGATATAAACTTGAATTTATATGC
1 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGC
26077081 CATGTTCATC
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 31 0.61
54 20 0.39
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (54 bp):
TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
Found at i:26103402 original size:15 final size:15
Alignment explanation
Indices: 26103382--26103414 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26103372 CTATAAAATA
26103382 TTAACTAAATATTAT
1 TTAACTAAATATTAT
*
26103397 TTAACTAAATATTGT
1 TTAACTAAATATTAT
26103412 TTA
1 TTA
26103415 CCAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (15 bp):
TTAACTAAATATTAT
Found at i:26105470 original size:16 final size:17
Alignment explanation
Indices: 26105451--26105484 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
26105441 ATTAAAATTA
26105451 AATTTTATTA-TTTATT
1 AATTTTATTATTTTATT
*
26105467 AATTTTTTTATTTTATT
1 AATTTTATTATTTTATT
26105484 A
1 A
26105485 TTGTTGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTTATTATTTTATT
Found at i:26105473 original size:17 final size:17
Alignment explanation
Indices: 26105447--26105484 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
26105437 ATATATTAAA
26105447 ATTAAATTTTATTA-TTT
1 ATTAAATTTT-TTATTTT
*
26105464 ATTAATTTTTTTATTTT
1 ATTAAATTTTTTATTTT
26105481 ATTA
1 ATTA
26105485 TTGTTGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTAAATTTTTTATTTT
Found at i:26112744 original size:20 final size:20
Alignment explanation
Indices: 26112719--26112757 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26112709 AGAGTTATTT
26112719 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
26112739 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
26112758 GAAGAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:26119950 original size:50 final size:50
Alignment explanation
Indices: 26119896--26119991 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
26119886 TGAGGTTATG
* * * *
26119896 AGAGGTCACACGTAAGACTATGTCTCGGACATAGCATTGGCACCGAGATC
1 AGAGGTCACACGTAAGACAATATCTAGGACATAGCATGGGCACCGAGATC
* * *
26119946 AGAGGTCCCCCGTAAGACAATATCTAGGACATGGCATGGGCACCGA
1 AGAGGTCACACGTAAGACAATATCTAGGACATAGCATGGGCACCGA
26119992 TATGAGAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (50 bp):
AGAGGTCACACGTAAGACAATATCTAGGACATAGCATGGGCACCGAGATC
Found at i:26120313 original size:20 final size:20
Alignment explanation
Indices: 26120288--26120336 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
26120278 TGAGTTATTT
*
26120288 AAGTAAGCAAGTAATTAAAC
1 AAGTAAGCAAGTAACTAAAC
*
26120308 AAGTAAG-AGAGTAACTAAAG
1 AAGTAAGCA-AGTAACTAAAC
26120328 AAG-AAGCAA
1 AAGTAAGCAA
26120337 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.57, C:0.08, G:0.20, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAACTAAAC
Found at i:26126098 original size:40 final size:40
Alignment explanation
Indices: 26126013--26126252 Score: 200
Period size: 40 Copynumber: 6.0 Consensus size: 40
26126003 AATGTGTGAC
* * *
26126013 CAGGGGCACCAAAGTACAAACAGGGGCA--TAAATGTGCATT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGT-AA-GTGCAAT
* ** *
26126053 TAGGGGTACTGAAGTACAAACAAGGGCACGTAAGTGTAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
* * *
26126093 CAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
* * * * *
26126133 CAGGGGTACCAAAGTATAAACAAGGGCATGCACGTCCAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
* * * *
26126173 CAGGGG-GCCGAAGTAGAAAC-AGGGCAGGTAAGTGCAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
* *** * * *
26126211 TAGGGGTTTTAAAATACAAACAGGGGCATGTAAGTGCAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
26126251 CA
1 CA
26126253 TTCAATAATT
Statistics
Matches: 158, Mismatches: 38, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
38 19 0.12
39 19 0.12
40 117 0.74
41 2 0.01
42 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (40 bp):
CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
Found at i:26126251 original size:78 final size:80
Alignment explanation
Indices: 26126067--26126252 Score: 187
Period size: 78 Copynumber: 2.4 Consensus size: 80
26126057 GGTACTGAAG
* *
26126067 TACAAACAAGGGCACGTAAGTGTAATCAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAA
1 TACAAACAAGGGCATGTAAGTGCAATCAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAA
*
26126132 TCAGGGGTACCAAAG
66 TCAGGGGTACCAAAA
* * * * * * * * * * *
26126147 TATAAACAAGGGCATGCACGTCCAATCAGGGG-GCCGAAGTAGAAAC-AGGGCAGGTAAGTGCAA
1 TACAAACAAGGGCATGTAAGTGCAATCAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAA
* ***
26126210 TTAGGGGTTTTAAAA
66 TCAGGGGTACCAAAA
*
26126225 TACAAACAGGGGCATGTAAGTGCAATCA
1 TACAAACAAGGGCATGTAAGTGCAATCA
26126253 TTCAATAATT
Statistics
Matches: 83, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
78 47 0.57
79 10 0.12
80 26 0.31
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.16
Consensus pattern (80 bp):
TACAAACAAGGGCATGTAAGTGCAATCAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAA
TCAGGGGTACCAAAA
Found at i:26143465 original size:182 final size:182
Alignment explanation
Indices: 26143075--26143442 Score: 637
Period size: 182 Copynumber: 2.0 Consensus size: 182
26143065 TTACGGCCGA
*
26143075 ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
1 ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATCGGGAAATTCGTCCAATAAA
26143140 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
66 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
* * * *
26143205 ACGATTTGTTATTGTAGGTTTACAATTTGCTGAAGCTACTCCATATAAAAAT
131 ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
* *
26143257 ATCTGACATGTCACATGAAAGTGTTTTACGAAACCAAAGTCTGATCGGGAAATTCGTTCAATAAA
1 ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATCGGGAAATTCGTCCAATAAA
*
26143322 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAGGTTTTAAAAAACAAACCACACGGTAAA
66 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
* * *
26143387 ACGGTTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATACAGAT
131 ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
26143439 ATCT
1 ATCT
26143443 TTAGGTTGAA
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
182 175 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (182 bp):
ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATCGGGAAATTCGTCCAATAAA
AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
Found at i:26144248 original size:26 final size:28
Alignment explanation
Indices: 26144198--26144259 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
26144188 GGGGATTACA
*
26144198 GTAA-TTTACCCTTCAAGGGTATTTT-G
1 GTAATTTTACCCATCAAGGGTATTTTCG
*
26144224 GTAATTTTACCCATCGAGGGT-TTTTCG
1 GTAATTTTACCCATCAAGGGTATTTTCG
26144251 GTAATTTTA
1 GTAATTTTA
26144260 TCTAGTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 8 0.25
27 24 0.75
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.44
Consensus pattern (28 bp):
GTAATTTTACCCATCAAGGGTATTTTCG
Found at i:26144309 original size:27 final size:27
Alignment explanation
Indices: 26144213--26144309 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
26144203 TTACCCTTCA
* *
26144213 AGGGTATTTTGGTAATTTTACCCATCG
1 AGGGTATTTCGGTAATTTTACCCATTG
* * * * *
26144240 AGGGTTTTTCGGTAATTTTATCTAGTA
1 AGGGTATTTCGGTAATTTTACCCATTG
* **
26144267 AGTGTATTTCAATAATTTTACCCATTG
1 AGGGTATTTCGGTAATTTTACCCATTG
*
26144294 GGGGTATTTCGGTAAT
1 AGGGTATTTCGGTAAT
26144310 GTTAACGACA
Statistics
Matches: 51, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACCCATTG
Found at i:26159013 original size:27 final size:25
Alignment explanation
Indices: 26158974--26159042 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
26158964 TGTTCCGACC
*
26158974 CACAGCTCATGTGAGCAGACCCATTTT
1 CACAGCTCGTGTGAGCAGACCCA--TT
** **
26159001 CACAGCTCGTGTGAGCATTCTGATT
1 CACAGCTCGTGTGAGCAGACCCATT
26159026 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
26159043 TACATGTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 19 0.51
27 18 0.49
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCAGACCCATT
Found at i:26166213 original size:29 final size:29
Alignment explanation
Indices: 26166167--26166294 Score: 175
Period size: 29 Copynumber: 4.4 Consensus size: 29
26166157 CCCTCAGATA
* * *
26166167 ATGAAAAAGGATAGCTTCGGTTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* * *
26166196 ATGAAAAGAGATAACTTCAACTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
*
26166225 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* *
26166254 ATAAAAAGGGATAGCTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
26166283 ATGAAAAGGGAT
1 ATGAAAAGGGAT
26166295 GGTGACGACC
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAAT
Found at i:26166261 original size:58 final size:58
Alignment explanation
Indices: 26166167--26166294 Score: 193
Period size: 58 Copynumber: 2.2 Consensus size: 58
26166157 CCCTCAGATA
* * *
26166167 ATGAAAAAGGATAGCTTCGGTTATCGAATATGAAAAGAGATAACTTCAACTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGAGATAACTTCAACTATCGAAT
* * * *
26166225 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGGGATAGCTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGAGATAACTTCAACTATCGAAT
26166283 ATGAAAAGGGAT
1 ATGAAAAGGGAT
26166295 GGTGACGACC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.25
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGAGATAACTTCAACTATCGAAT
Found at i:26166314 original size:29 final size:29
Alignment explanation
Indices: 26166276--26166355 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
26166266 AGCTTCAGCT
*
26166276 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
**
26166305 ATC-AACTATGAAAAAAGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
*
26166334 ATCGAATATTAAAAGGGATGGT
1 ATCGAATATGAAAAGGGATGGT
26166356 TTCAACTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.02
29 40 0.93
30 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:26169251 original size:23 final size:22
Alignment explanation
Indices: 26169213--26169255 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
26169203 TTATTAATTC
26169213 TAATTATTCTAATTATTTTATT
1 TAATTATTCTAATTATTTTATT
*
26169235 TAATTAATTTTAATTATTTTA
1 TAATT-ATTCTAATTATTTTA
26169256 ATTATCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TAATTATTCTAATTATTTTATT
Found at i:26169978 original size:7 final size:7
Alignment explanation
Indices: 26169966--26170016 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
26169956 ACAAAATTAA
*
26169966 AACTAAC
1 AACTAAG
26169973 AACTAAG
1 AACTAAG
26169980 AACTAAG
1 AACTAAG
26169987 AACT-A-
1 AACTAAG
*
26169992 AATTAA-
1 AACTAAG
*
26169998 AACTAAC
1 AACTAAG
26170005 AACTAAG
1 AACTAAG
26170012 AACTA
1 AACTA
26170017 GTCAAATTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 3 0.08
6 7 0.18
7 28 0.74
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.18
Consensus pattern (7 bp):
AACTAAG
Found at i:26173947 original size:27 final size:27
Alignment explanation
Indices: 26173873--26173948 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
26173863 ATATGGACAA
* * *
26173873 TCCGCCATCATTCTCGCGGGTGGTGAG
1 TCCGCCAACATTCTCGCGGATGGAGAG
* * * * * *
26173900 TTCGTCAACATTATTGAGGATGGAGGG
1 TCCGCCAACATTCTCGCGGATGGAGAG
26173927 TCCGCCAACATTCTCGCGGATG
1 TCCGCCAACATTCTCGCGGATG
26173949 AACAATCTAC
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.26
Consensus pattern (27 bp):
TCCGCCAACATTCTCGCGGATGGAGAG
Found at i:26180906 original size:21 final size:21
Alignment explanation
Indices: 26180880--26180922 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26180870 TCAGAAGAAA
*
26180880 GCCCACAGTATCCAGCTATTT
1 GCCCACACTATCCAGCTATTT
26180901 GCCCACACTATCCAGCTATTT
1 GCCCACACTATCCAGCTATTT
26180922 G
1 G
26180923 GTAGCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (21 bp):
GCCCACACTATCCAGCTATTT
Found at i:26189531 original size:50 final size:50
Alignment explanation
Indices: 26189474--26189573 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
26189464 TTACAGGAAG
26189474 CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
1 CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
26189524 CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
1 CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
26189574 GATCAGTCCG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (50 bp):
CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
Found at i:26197996 original size:25 final size:25
Alignment explanation
Indices: 26197958--26198008 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
26197948 TTGCTTTCCC
*
26197958 ACAGATTTGACTGAACATACATTGG
1 ACAGATTCGACTGAACATACATTGG
*
26197983 ACAGATTCGGCTGAACATACATTGG
1 ACAGATTCGACTGAACATACATTGG
26198008 A
1 A
26198009 GCCAATTAAT
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:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (25 bp):
ACAGATTCGACTGAACATACATTGG
Found at i:26202525 original size:25 final size:25
Alignment explanation
Indices: 26202489--26202537 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
26202479 GCTTTTCTAC
26202489 AGATTCGACTGAACATACATTGGAT
1 AGATTCGACTGAACATACATTGGAT
* *
26202514 AGATTCGGCTGAACTTACATTGGA
1 AGATTCGACTGAACATACATTGGA
26202538 GCCAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
AGATTCGACTGAACATACATTGGAT
Found at i:26203602 original size:37 final size:37
Alignment explanation
Indices: 26203552--26203626 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
26203542 TGTGTTGATC
26203552 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
1 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
26203589 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
1 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
26203626 T
1 T
26203627 GACTTTTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (37 bp):
TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
Found at i:26206511 original size:35 final size:35
Alignment explanation
Indices: 26206465--26206548 Score: 159
Period size: 35 Copynumber: 2.4 Consensus size: 35
26206455 ATAAGTATTT
26206465 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
*
26206500 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
26206535 AGTTGCTGGAATAA
1 AGTTGCTGGAATAA
26206549 TTTATTGTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (35 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
Found at i:26208734 original size:27 final size:26
Alignment explanation
Indices: 26208631--26208755 Score: 99
Period size: 27 Copynumber: 4.7 Consensus size: 26
26208621 AAAGGTCGAT
**
26208631 AAATGATCAAAATACCCTCGTAGGGTA
1 AAATGATC-AAATACCCTCAAAGGGTA
* * * *
26208658 GAATGACTTAAATACCCTTATAGGGTA
1 AAATGA-TCAAATACCCTCAAAGGGTA
*
26208685 AAATGATCGAATACCCTCAAAGGGTA
1 AAATGATCAAATACCCTCAAAGGGTA
* * *
26208711 AAATTATCAAAATACCC-CTGAAGGGGA
1 AAATGATC-AAATACCCTC-AAAGGGTA
*
26208738 AAATGACCGAAATACCCT
1 AAATGATC-AAATACCCT
26208756 ATGGGATTAA
Statistics
Matches: 78, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
26 24 0.31
27 53 0.68
28 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (26 bp):
AAATGATCAAATACCCTCAAAGGGTA
Found at i:26210012 original size:10 final size:10
Alignment explanation
Indices: 26209999--26210023 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26209989 AAGTTTAGTT
26209999 TGTTTTAATG
1 TGTTTTAATG
26210009 TGTTTTAATG
1 TGTTTTAATG
26210019 TGTTT
1 TGTTT
26210024 GTTAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (10 bp):
TGTTTTAATG
Found at i:26210030 original size:74 final size:76
Alignment explanation
Indices: 26209907--26210056 Score: 223
Period size: 74 Copynumber: 2.0 Consensus size: 76
26209897 ATTAATTAAA
* *
26209907 CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTCATGTGTTTGTTAATAAATGCTTGCAGGTGA
1 CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATACTTGCAGGTGA
26209972 CTATTTAGTTG
66 CTATTTAGTTG
* * * * *
26209983 CTTATTAAGTTTAGT-T-TGTTTTAATGTGTTTTAATGTGTTTGTTAATAAATATTTGCAGGTGC
1 CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATACTTGCAGGTGA
26210046 CTATTTAGTTG
66 CTATTTAGTTG
26210057 GGATCAGTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 53 0.79
75 1 0.01
76 13 0.19
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (76 bp):
CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATACTTGCAGGTGA
CTATTTAGTTG
Found at i:26212066 original size:21 final size:18
Alignment explanation
Indices: 26212020--26212081 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
26212010 AAAGGAAGCG
*
26212020 AGAAAAAGAAAGTGAAAA
1 AGAAAAAGAGAGTGAAAA
26212038 AGAAAAAGAGAGTGAAAGA
1 AGAAAAAGAGAGTGAAA-A
*
26212057 ATGCAAAAAGAGATTGAAAA
1 A-G-AAAAAGAGAGTGAAAA
*
26212077 TGAAA
1 AGAAA
26212082 TAAAAAGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 19 0.50
19 3 0.08
20 2 0.05
21 14 0.37
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.10
Consensus pattern (18 bp):
AGAAAAAGAGAGTGAAAA
Found at i:26213820 original size:19 final size:19
Alignment explanation
Indices: 26213796--26213853 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
26213786 AATAAATTTC
*
26213796 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
26213815 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
26213834 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
26213853 T
1 T
26213854 GCCGGAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:26213834 original size:9 final size:9
Alignment explanation
Indices: 26213801--26213853 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
26213791 ATTTCTCATC
26213801 TTAGTTAAT
1 TTAGTTAAT
* *
26213810 TGAGTTCAT
1 TTAGTTAAT
26213819 CTTAGTTAAT
1 -TTAGTTAAT
* *
26213829 TAAGTTCAT
1 TTAGTTAAT
26213838 CTTAGTTAAT
1 -TTAGTTAAT
26213848 TTAGTT
1 TTAGTT
26213854 GCCGGAATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (9 bp):
TTAGTTAAT
Found at i:26213969 original size:10 final size:10
Alignment explanation
Indices: 26213951--26213997 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
26213941 TAAGTCTAAT
26213951 ATGTGTTTAA
1 ATGTGTTTAA
*
26213961 ATGTATTT-A
1 ATGTGTTTAA
26213970 ATGTGTTTAA
1 ATGTGTTTAA
*
26213980 ATGTGTTTTA
1 ATGTGTTTAA
26213990 ATGTGTTT
1 ATGTGTTT
26213998 GCTAATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 8 0.24
10 25 0.76
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (10 bp):
ATGTGTTTAA
Found at i:26213975 original size:19 final size:20
Alignment explanation
Indices: 26213951--26213997 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
26213941 TAAGTCTAAT
26213951 ATGTGTTTAAATGT-ATTTA
1 ATGTGTTTAAATGTGATTTA
*
26213970 ATGTGTTTAAATGTGTTTTA
1 ATGTGTTTAAATGTGATTTA
26213990 ATGTGTTT
1 ATGTGTTT
26213998 GCTAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (20 bp):
ATGTGTTTAAATGTGATTTA
Found at i:26214058 original size:74 final size:74
Alignment explanation
Indices: 26213966--26214104 Score: 233
Period size: 74 Copynumber: 1.9 Consensus size: 74
26213956 TTTAAATGTA
* *
26213966 TTTAATGTGTTTAAATGTGTTTTAATGTGTTTGCTAATAAATGCTTGCAGGTGACTATTTAGTTG
1 TTTAATGTGTTTAAATGTGTTTAAATGTGTTTGCTAATAAATACTTGCAGGTGACTATTTAGTTG
26214031 CTTATCAAG
66 CTTATCAAG
* * *
26214040 TTTAGTGTGTTTAAATGTGTTTAAATGTGTTTGTTAATAAATATTTGCAGGTGACTATTTAGTTG
1 TTTAATGTGTTTAAATGTGTTTAAATGTGTTTGCTAATAAATACTTGCAGGTGACTATTTAGTTG
26214105 GAATCAGTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (74 bp):
TTTAATGTGTTTAAATGTGTTTAAATGTGTTTGCTAATAAATACTTGCAGGTGACTATTTAGTTG
CTTATCAAG
Found at i:26214060 original size:10 final size:10
Alignment explanation
Indices: 26214045--26214071 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
26214035 TCAAGTTTAG
26214045 TGTGTTTAAA
1 TGTGTTTAAA
26214055 TGTGTTTAAA
1 TGTGTTTAAA
26214065 TGTGTTT
1 TGTGTTT
26214072 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (10 bp):
TGTGTTTAAA
Found at i:26222965 original size:13 final size:14
Alignment explanation
Indices: 26222940--26222968 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
26222930 GTTCAATAGT
26222940 AATCCACAAAATAA
1 AATCCACAAAATAA
26222954 AATCCA-AAAATAA
1 AATCCACAAAATAA
26222967 AA
1 AA
26222969 GTTAAAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (14 bp):
AATCCACAAAATAA
Found at i:26230779 original size:40 final size:41
Alignment explanation
Indices: 26230694--26230809 Score: 153
Period size: 40 Copynumber: 2.9 Consensus size: 41
26230684 ATAATTAATT
*
26230694 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTCG
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCG
* * * * *
26230735 ATACCCCTGAATTACACATATATGCCCC-GTTTGTACTTTG
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCG
* *
26230775 ATACCCCTAAATTGCACATACATGCCCCTTTTTGT
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGT
26230810 GCATCGGTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 34 0.53
41 30 0.47
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (41 bp):
ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCG
Found at i:26231278 original size:20 final size:21
Alignment explanation
Indices: 26231255--26231294 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26231245 GCCACATTCT
*
26231255 TTCAT-TTTTTTCTCATTTAC
1 TTCATCTTCTTTCTCATTTAC
*
26231275 TTCATCTTCTTTCTCTTTTA
1 TTCATCTTCTTTCTCATTTA
26231295 GTTGTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (21 bp):
TTCATCTTCTTTCTCATTTAC
Found at i:26238857 original size:35 final size:34
Alignment explanation
Indices: 26238811--26238914 Score: 136
Period size: 34 Copynumber: 3.0 Consensus size: 34
26238801 ATGGGAACAC
*
26238811 TCACGGAACGATAGACAGCCGCACGAAATGAGGAA
1 TCACGAAACGATAGAC-GCCGCACGAAATGAGGAA
* ** *
26238846 TCACGAAACGATAGACGCTGCATAAAATAAGGAA
1 TCACGAAACGATAGACGCCGCACGAAATGAGGAA
* *
26238880 TCACAAAACGATAGATGCCGCACGAAATGAGGAA
1 TCACGAAACGATAGACGCCGCACGAAATGAGGAA
26238914 T
1 T
26238915 TCAACGAATT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 43 0.74
35 15 0.26
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (34 bp):
TCACGAAACGATAGACGCCGCACGAAATGAGGAA
Found at i:26246489 original size:5 final size:5
Alignment explanation
Indices: 26246479--26246526 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
26246469 ATATATATAT
* * *
26246479 ATTCC ATTCC ATACC ATTCC ATTTC ATACC ATTCC ATTCC ATTCC ATT
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATT
26246527 TCATCAAGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCC
Found at i:26246499 original size:15 final size:15
Alignment explanation
Indices: 26246479--26246526 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
26246469 ATATATATAT
26246479 ATTCCATTCCATACC
1 ATTCCATTCCATACC
*
26246494 ATTCCATTTCATACC
1 ATTCCATTCCATACC
*
26246509 ATTCCATTCCATTCC
1 ATTCCATTCCATACC
26246524 ATT
1 ATT
26246527 TCATCAAGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTCCATTCCATACC
Found at i:26247465 original size:23 final size:23
Alignment explanation
Indices: 26247435--26247483 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
26247425 TATCATTCGA
26247435 TACACGTAGTAGCCTTCACATAG
1 TACACGTAGTAGCCTTCACATAG
26247458 TACACGTAGTAGCCTTCACATAG
1 TACACGTAGTAGCCTTCACATAG
26247481 TAC
1 TAC
26247484 TACACACGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (23 bp):
TACACGTAGTAGCCTTCACATAG
Found at i:26247774 original size:153 final size:149
Alignment explanation
Indices: 26247458--26247801 Score: 404
Period size: 153 Copynumber: 2.3 Consensus size: 149
26247448 CTTCACATAG
* * **
26247458 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTTATGGTTCACGTAATAGCCT
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATATTTATAATTCACGTAATAGCCT
* * * * *
26247523 TCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACACAGTACTACA
65 TCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCCTTCACACAGTACTACA
* * *
26247588 TATGTGACTAAAGCTTTTCGG
130 CATGTGACCAAA-CTTTTCGA
* * * *
26247609 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAT-ATTTAT-AATTCACGTAATAGCC
* * *
26247674 TTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACATATTGTAGCCTTCACATAGTACT
64 TTCACACAGTACTACACACGTGACC-AAG-TTCTACGGTACACATAGTAGCCTTCACACAGTACT
*
26247738 ACACATGTGACCATTA-TTTATCGA
127 ACACATGTGACCA-AACTTT-TCGA
* *
26247762 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
26247802 ACACTTTCAC
Statistics
Matches: 162, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
150 3 0.02
151 39 0.24
152 39 0.24
153 77 0.48
154 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (149 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATATTTATAATTCACGTAATAGCCTT
CACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCCTTCACACAGTACTACAC
ATGTGACCAAACTTTTCGA
Found at i:26247800 original size:51 final size:51
Alignment explanation
Indices: 26247460--26247801 Score: 347
Period size: 51 Copynumber: 6.7 Consensus size: 51
26247450 TCACATAGTA
*
26247460 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATT-TTTAT-GGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTATCGGTT
* * *
26247510 CACGTAATAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTATCGGTT
* * * * * *
26247560 CACGTAGTAGCCTTCACACAGTACTACATATGTGACTA-AAGCTTT-TCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTA--TTTATCGGTT
* * * * **
26247611 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTATCGGTT
* * * * *
26247662 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTA-TTTATCGGTT
** * * *
26247713 CATATTGTAGCCTTCACATAGTACTACACATGTGACCATTATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTATCGGTT
*
26247764 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
26247802 ACACTTTCAC
Statistics
Matches: 240, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.01
50 82 0.34
51 154 0.64
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTATCGGTT
Found at i:26247800 original size:102 final size:102
Alignment explanation
Indices: 26247460--26247802 Score: 458
Period size: 102 Copynumber: 3.4 Consensus size: 102
26247450 TCACATAGTA
* * *** * * *
26247460 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTTAT-GGTTCACGTAATAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
* * * *
26247524 CACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
66 CACATAGTACTACACATGTGA-CCATTATTTATCGATT
* * * *
26247560 CACGTAGTAGCCTTCACACAGTACTACATATGTGACTAAAGCTTTTCGGTACACATAGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
* * *
26247625 CACTTAGTACTACACATGTGACCATCATTTATCAATT
66 CACATAGTACTACACATGTGACCATTATTTATCGATT
* * *
26247662 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
26247727 CACATAGTACTACACATGTGACCATTATTTATCGATT
66 CACATAGTACTACACATGTGACCATTATTTATCGATT
26247764 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
26247803 CACTTTCACT
Statistics
Matches: 212, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
100 39 0.18
101 38 0.18
102 135 0.64
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
CACATAGTACTACACATGTGACCATTATTTATCGATT
Found at i:26252609 original size:40 final size:41
Alignment explanation
Indices: 26252551--26252715 Score: 174
Period size: 41 Copynumber: 4.1 Consensus size: 41
26252541 AAAATGCCGT
* * *
26252551 AAAAGGTAAAGTATTAGCGGCATTTTT-TCATAAACGCCGC
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
* * * * *
26252591 AAAAAGTAACGCAATAGCGGCGTTTTTCTCGTAAACACCGT
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
* * *
26252632 AAAAGGTAAATCAATAGCGG-AGTTTTTCTCATAAACGCTGC
1 AAAAGGTAAAGCAATAGCGGCA-TTTTTCTCATAAACACCGC
* * *
26252673 TAAAGGCAAAGCAATAGCGGCATTTTT-ACATAAACACCGC
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
26252713 AAA
1 AAA
26252716 TATTTTTTGC
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
40 34 0.34
41 64 0.65
42 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (41 bp):
AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
Found at i:26252699 original size:82 final size:81
Alignment explanation
Indices: 26252547--26252699 Score: 202
Period size: 82 Copynumber: 1.9 Consensus size: 81
26252537 ATTGAAAATG
* * *
26252547 CCGTAAAAGGTAAAGTATTAGCGGCATTTTTTCATAAACGCCGCAAAAAGTAACGCAATAGCGGC
1 CCGTAAAAGGTAAAGTAATAGCGGCATTTTTTCATAAACGCCGCAAAAAGCAAAGCAATAGCGGC
*
26252612 GTTTTTCTCGTAAACA
66 ATTTTTCTCGTAAACA
* * *
26252628 CCGTAAAAGGTAAA-TCAATAGCGG-AGTTTTTCTCATAAACGCTGCTAAAGGCAAAGCAATAGC
1 CCGTAAAAGGTAAAGT-AATAGCGGCA-TTTTT-TCATAAACGCCGCAAAAAGCAAAGCAATAGC
26252691 GGCATTTTT
63 GGCATTTTT
26252700 ACATAAACAC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
80 2 0.03
81 26 0.42
82 34 0.55
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (81 bp):
CCGTAAAAGGTAAAGTAATAGCGGCATTTTTTCATAAACGCCGCAAAAAGCAAAGCAATAGCGGC
ATTTTTCTCGTAAACA
Found at i:26252707 original size:81 final size:81
Alignment explanation
Indices: 26252547--26252711 Score: 201
Period size: 81 Copynumber: 2.0 Consensus size: 81
26252537 ATTGAAAATG
* * *
26252547 CCGTAAAAGGTAAAGTATTAGCGGCATTTTTTCATAAACGCCGCAAAAAGTAACGCAATAGCGGC
1 CCGTAAAAGGTAAAGTAATAGCGGCATTTTTTCATAAACGCCGCAAAAAGCAAAGCAATAGCGGC
* * *
26252612 GTTTTTCTCGTAAACA
66 ATTTTTCACATAAACA
* * *
26252628 CCGTAAAAGGTAAA-TCAATAGCGG-AGTTTTTCTCATAAACGCTGCTAAAGGCAAAGCAATAGC
1 CCGTAAAAGGTAAAGT-AATAGCGGCA-TTTTT-TCATAAACGCCGCAAAAAGCAAAGCAATAGC
26252691 GGCATTTTT-ACATAAACA
63 GGCATTTTTCACATAAACA
26252709 CCG
1 CCG
26252712 CAAATATTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 2 0.03
81 36 0.50
82 34 0.47
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (81 bp):
CCGTAAAAGGTAAAGTAATAGCGGCATTTTTTCATAAACGCCGCAAAAAGCAAAGCAATAGCGGC
ATTTTTCACATAAACA
Found at i:26275887 original size:17 final size:17
Alignment explanation
Indices: 26275865--26275919 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
26275855 AAAAGGGTCC
*
26275865 GCCAAACCCTAGAGTTT
1 GCCAAACCTTAGAGTTT
26275882 GCCAAACCTTAGAGTTT
1 GCCAAACCTTAGAGTTT
* *
26275899 TCCAAACCTTAGAGTTC
1 GCCAAACCTTAGAGTTT
26275916 GCCA
1 GCCA
26275920 GATCATCTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (17 bp):
GCCAAACCTTAGAGTTT
Found at i:26284505 original size:8 final size:8
Alignment explanation
Indices: 26284494--26284532 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
26284484 GAAAAAGTGA
26284494 AAAAATAG
1 AAAAATAG
26284502 AAAAATAGG
1 AAAAATA-G
*
26284511 AAAAAAAG
1 AAAAATAG
26284519 AAAAATA-
1 AAAAATAG
26284526 AAAAATA
1 AAAAATA
26284533 TTATATGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAATAG
Found at i:26284506 original size:17 final size:16
Alignment explanation
Indices: 26284484--26284532 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
26284474 AAAAGTGATC
26284484 GAAAAAGTGAAAAAATA
1 GAAAAA-TGAAAAAATA
26284501 GAAAAATAGGAAAAAA-A
1 GAAAAAT--GAAAAAATA
26284518 GAAAAAT-AAAAAATA
1 GAAAAATGAAAAAATA
26284533 TTATATGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.21
15 1 0.03
16 1 0.03
17 14 0.48
18 7 0.24
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (16 bp):
GAAAAATGAAAAAATA
Found at i:26286949 original size:18 final size:19
Alignment explanation
Indices: 26286920--26286955 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26286910 TGAAATGGCC
*
26286920 AAAATCACTTTTTCACTTA
1 AAAATCACTTTTACACTTA
26286939 AAAATCA-TTTTACACTT
1 AAAATCACTTTTACACTT
26286956 TGGCATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATCACTTTTACACTTA
Found at i:26289177 original size:13 final size:13
Alignment explanation
Indices: 26289159--26289183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26289149 AGATTATCTA
26289159 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
26289172 AAAAAAAAAAAA
1 AAAAAAAAAAAA
26289184 AACACCCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:26289177 original size:14 final size:14
Alignment explanation
Indices: 26289158--26289184 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26289148 TAGATTATCT
26289158 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
26289172 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
26289185 ACACCCAAAA
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:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:26289194 original size:15 final size:15
Alignment explanation
Indices: 26289158--26289187 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26289148 TAGATTATCT
26289158 AAAAAAAAAAAAACA
1 AAAAAAAAAAAAACA
26289173 AAAAAAAAAAAAACA
1 AAAAAAAAAAAAACA
26289188 CCCAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAACA
Found at i:26306650 original size:18 final size:18
Alignment explanation
Indices: 26306618--26306667 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
26306608 CTTTGTTCGA
* *
26306618 ACTCTCTCTTGTTCT-TC
1 ACTCTTTCTTTTTCTATC
26306635 ACTCGTTTCTTTTTCTATC
1 ACTC-TTTCTTTTTCTATC
*
26306654 TCTCTTTCTTTTTC
1 ACTCTTTCTTTTTC
26306668 CATTCTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 19 0.68
19 5 0.18
ACGTcount: A:0.06, C:0.30, G:0.04, T:0.60
Consensus pattern (18 bp):
ACTCTTTCTTTTTCTATC
Found at i:26306678 original size:19 final size:18
Alignment explanation
Indices: 26306640--26306681 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
26306630 TCTTCACTCG
*
26306640 TTTCTTTTTCTATCTCTC
1 TTTCTTTTTCCATCTCTC
26306658 TTTCTTTTTCCA--T-TC
1 TTTCTTTTTCCATCTCTC
26306673 TTTCTTTTT
1 TTTCTTTTT
26306682 TGACAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
18 11 0.48
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTCCATCTCTC
Found at i:26307840 original size:17 final size:17
Alignment explanation
Indices: 26307814--26307846 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26307804 TTCAGAATTG
26307814 TAATTGCAATTTTTTTT
1 TAATTGCAATTTTTTTT
*
26307831 TAATTTCAATTTTTTT
1 TAATTGCAATTTTTTT
26307847 CTTTTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (17 bp):
TAATTGCAATTTTTTTT
Found at i:26309504 original size:8 final size:8
Alignment explanation
Indices: 26309491--26309517 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
26309481 TTATGAAACT
26309491 TAATTAAC
1 TAATTAAC
26309499 TAATTAAC
1 TAATTAAC
26309507 TAATTAAC
1 TAATTAAC
26309515 TAA
1 TAA
26309518 GTTGCTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
TAATTAAC
Found at i:26314855 original size:15 final size:15
Alignment explanation
Indices: 26314835--26314877 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
26314825 GACAGGAAAT
26314835 TATAATATGTTATCA
1 TATAATATGTTATCA
26314850 TATAATATGTTATCA
1 TATAATATGTTATCA
*
26314865 TAAAATA-GTTATC
1 TATAATATGTTATC
26314878 TCTTTTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (15 bp):
TATAATATGTTATCA
Found at i:26318896 original size:50 final size:50
Alignment explanation
Indices: 26318780--26318922 Score: 214
Period size: 50 Copynumber: 2.8 Consensus size: 50
26318770 GATCATAACA
* * ** *
26318780 TGCCAAAGCCATGTCCCAGACATGGTCTTGCATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* *
26318831 TGCCCATGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
26318881 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
26318923 TTACCCAAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 49 0.59
51 34 0.41
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:26319295 original size:30 final size:30
Alignment explanation
Indices: 26319259--26319316 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
26319249 CCTCGACTCT
*
26319259 AACTTTTTCAAAATTACGA-TTTTGCCCCTA
1 AACTTTTGCAAAATTAC-ATTTTTGCCCCTA
*
26319289 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACATTTTTGCCCC
26319317 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACATTTTTGCCCCTA
Found at i:26323605 original size:18 final size:18
Alignment explanation
Indices: 26323582--26323619 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26323572 ATGTTAATCG
*
26323582 AAGCTCCAATTTTGACTC
1 AAGCTCCAATTTTAACTC
*
26323600 AAGCTCCAGTTTTAACTC
1 AAGCTCCAATTTTAACTC
26323618 AA
1 AA
26323620 CTTGAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (18 bp):
AAGCTCCAATTTTAACTC
Found at i:26327058 original size:35 final size:36
Alignment explanation
Indices: 26326996--26327084 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
26326986 CTCTATTTTT
26326996 GTGTGTTTCGGATGGA-TAGCTCTTATGAGCAT-TG
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATCTG
*
26327030 GTGTGTTTTGGATGGATTAGCTCTTATGAGCATCTG
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATCTG
* *
26327066 GTGTCTTTCGGTTGGATTA
1 GTGTGTTTCGGATGGATTA
26327085 TCGGTATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 15 0.31
35 16 0.33
36 18 0.37
ACGTcount: A:0.16, C:0.11, G:0.31, T:0.42
Consensus pattern (36 bp):
GTGTGTTTCGGATGGATTAGCTCTTATGAGCATCTG
Found at i:26329993 original size:20 final size:19
Alignment explanation
Indices: 26329919--26330054 Score: 94
Period size: 20 Copynumber: 6.8 Consensus size: 19
26329909 TTGTATGAGA
*
26329919 TTTGCACTTCGGTGCCACTG
1 TTTGCACTTC-GTGCCTCTG
*
26329939 TTTGCACTTTGATGCCTCTG
1 TTTGCACTTCG-TGCCTCTG
* ** *
26329959 ATCACATATTCGTGCCTCTG
1 TTTGCA-CTTCGTGCCTCTG
26329979 TTTGCACTTCAGTGCCT-TCG
1 TTTGCACTTC-GTGCCTCT-G
* * *
26329999 GTCGCACATTCATGCCTCTG
1 TTTGCAC-TTCGTGCCTCTG
*
26330019 TTTGCACTTCGTGCCTTTG
1 TTTGCACTTCGTGCCTCTG
* *
26330038 CTTGCACATTTGTGCCT
1 TTTGCAC-TTCGTGCCT
26330055 TTGTCTGCAA
Statistics
Matches: 89, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
19 21 0.24
20 61 0.69
21 7 0.08
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.39
Consensus pattern (19 bp):
TTTGCACTTCGTGCCTCTG
Found at i:26330054 original size:39 final size:38
Alignment explanation
Indices: 26329930--26330063 Score: 117
Period size: 40 Copynumber: 3.4 Consensus size: 38
26329920 TTGCACTTCG
* * * *
26329930 GTGCCACTGTTTGCACTTTGATGCCTCTGAT-CACATATT
1 GTGCCTCTGTTTGCACTTCG-TGCCTTTGTTGCACAT-TT
* * *
26329969 CGTGCCTCTGTTTGCACTTCAGTGCCTTCGGTCGCACATTC
1 -GTGCCTCTGTTTGCACTTC-GTGCCTT-TGTTGCACATTT
*
26330010 ATGCCTCTGTTTGCACTTCGTGCCTTTGCTTGCACATTT
1 GTGCCTCTGTTTGCACTTCGTGCCTTTG-TTGCACATTT
* *
26330049 GTGCCTTTGTCTGCA
1 GTGCCTCTGTTTGCA
26330064 ATTTGGTGCC
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 27 0.36
40 40 0.53
41 3 0.04
42 5 0.07
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.39
Consensus pattern (38 bp):
GTGCCTCTGTTTGCACTTCGTGCCTTTGTTGCACATTT
Found at i:26330055 original size:20 final size:19
Alignment explanation
Indices: 26330020--26330074 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
26330010 ATGCCTCTGT
*
26330020 TTGCAC-TTCGTGCCTTTG
1 TTGCACATTTGTGCCTTTG
26330038 CTTGCACATTTGTGCCTTTG
1 -TTGCACATTTGTGCCTTTG
26330058 TCTGCA-ATTTGGTGCCT
1 T-TGCACATTT-GTGCCT
26330075 CTATTATGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 11 0.34
20 21 0.66
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.44
Consensus pattern (19 bp):
TTGCACATTTGTGCCTTTG
Found at i:26338379 original size:3 final size:3
Alignment explanation
Indices: 26338371--26338398 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
26338361 GAGGTTACAG
26338371 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
26338399 ATACCTGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:26340692 original size:67 final size:68
Alignment explanation
Indices: 26340587--26340741 Score: 172
Period size: 67 Copynumber: 2.3 Consensus size: 68
26340577 TTTAAACTTA
* *
26340587 TTTTTATGAAAATATTGAATAAGTGAGCTATGAAAGTATTGTCTAGTT-AATGCGAGATCAAAAT
1 TTTTTATGAAAATAATGAATAAGTGAGCTATGAAAGTATTCTCTA-TTCAATGCGAGATCAAAAT
26340651 T-AT
65 TAAT
* * *** * * *
26340654 TTTTTATTAAAAATAGTGAA-AAGTGAGCTATTCGAGTATTCTCTATTCAATGTGGGATTAAAAT
1 TTTTTA-TGAAAATAATGAATAAGTGAGCTATGAAAGTATTCTCTATTCAATGCGAGATCAAAAT
26340718 TAAT
65 TAAT
26340722 TTTTTAGTGAAAATAATGAA
1 TTTTTA-TGAAAATAATGAA
26340742 GAAATTGACA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
66 2 0.03
67 41 0.56
68 30 0.41
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (68 bp):
TTTTTATGAAAATAATGAATAAGTGAGCTATGAAAGTATTCTCTATTCAATGCGAGATCAAAATT
AAT
Found at i:26340956 original size:70 final size:68
Alignment explanation
Indices: 26340826--26340960 Score: 157
Period size: 70 Copynumber: 2.0 Consensus size: 68
26340816 TTTTAAGGAG
* * * *
26340826 TTAAAATTAATTTTTAATGAAAACAGTGAAGAAGTGAGCTCTGAGAGTACTTTCTAGTCAATGTG
1 TTAAAATTAATTTTTAATAAAAACAGTGAAGAAGTGAACTATGAGAGTACTCTCTAGTCAATGTG
26340891 GGA
66 GGA
* * *
26340894 TTAAAATTAACTTTTATAATAAAAATAGTGAA-AAGATGAACTATTAGAGTA-TCCTCTCGTCAA
1 TTAAAATTAA-TTTT-TAATAAAAACAGTGAAGAAG-TGAACTATGAGAGTACT-CTCTAGTCAA
26340957 TGTG
62 TGTG
26340961 CTTATTTATA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
68 10 0.18
69 8 0.14
70 38 0.68
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (68 bp):
TTAAAATTAATTTTTAATAAAAACAGTGAAGAAGTGAACTATGAGAGTACTCTCTAGTCAATGTG
GGA
Found at i:26341264 original size:70 final size:70
Alignment explanation
Indices: 26341127--26341265 Score: 176
Period size: 70 Copynumber: 2.0 Consensus size: 70
26341117 ACTAAGTGAA
* ** *
26341127 CTATGAGAGTATTCTCTAGTTAATGTGTGATTAAAATTAACCTTTTTAATGAAAATAGTGAATAA
1 CTATGAGAGTATTCTCTAGTCAATGTGTGATTAAAATTAACCTTTTTAATGAAAATAACGAAAAA
26341192 TTGAG
66 TTGAG
* *
26341197 CTATGAGAGTATTCTTTGGTCAATGTAG-GATTAAAATTAA-CTTTTTAAT-AAAACTAACGAAG
1 CTATGAGAGTATTCTCTAGTCAATGT-GTGATTAAAATTAACCTTTTTAATGAAAA-TAACGAA-
26341259 AAATTGA
63 AAATTGA
26341266 CACTTATTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
68 4 0.07
69 14 0.23
70 41 0.68
71 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.37
Consensus pattern (70 bp):
CTATGAGAGTATTCTCTAGTCAATGTGTGATTAAAATTAACCTTTTTAATGAAAATAACGAAAAA
TTGAG
Found at i:26341324 original size:94 final size:95
Alignment explanation
Indices: 26341209--26341383 Score: 262
Period size: 95 Copynumber: 1.9 Consensus size: 95
26341199 ATGAGAGTAT
* * * *
26341209 TCTTTGGTCAATGTAGGATTAAAATTAACTTTTT-AATAAAACTAACGAAGAAATTGACACTTAT
1 TCTTTAGTCAATCTAGGATTAAAATGAACTTTTTAAATAAAAATAACGAAGAAATTGACACTTAT
*
26341273 TTATAAGGTAAATGTGAGATATAAGAGTGC
66 TTATAAGATAAATGTGAGATATAAGAGTGC
* * *
26341303 TCTTTAGTCAATCTGGGATTAAAATGAACTTTTTAAATAAAAATAATGAAGAAATTGACATTTAT
1 TCTTTAGTCAATCTAGGATTAAAATGAACTTTTTAAATAAAAATAACGAAGAAATTGACACTTAT
*
26341368 TTATAAGATAAGTGTG
66 TTATAAGATAAATGTG
26341384 GCATGAGAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 30 0.42
95 41 0.58
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.35
Consensus pattern (95 bp):
TCTTTAGTCAATCTAGGATTAAAATGAACTTTTTAAATAAAAATAACGAAGAAATTGACACTTAT
TTATAAGATAAATGTGAGATATAAGAGTGC
Found at i:26343858 original size:31 final size:31
Alignment explanation
Indices: 26343823--26343888 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
26343813 TCATGCATGC
* * * *
26343823 ACCTTGCTAAATGGATCTCCACATTCGGCTA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
26343854 ACCTTGCTAAATGAACCCCCACATTCGGCCA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
26343885 ACCT
1 ACCT
26343889 ACATAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (31 bp):
ACCTTGCTAAATGAACCCCCACATTCGGCCA
Found at i:26358604 original size:183 final size:183
Alignment explanation
Indices: 26358296--26358670 Score: 723
Period size: 183 Copynumber: 2.0 Consensus size: 183
26358286 GATGCAACAA
26358296 AAACATGAGTAATTAACATTAAACGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
1 AAACATGAGTAATTAACATTAAACGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
26358361 AATTGAGTGTCATTTTATAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
66 AATTGAGTGTCATTTTATAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
26358426 TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
131 TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
*
26358479 AAACATGAGTAATTAACATTAAATGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
1 AAACATGAGTAATTAACATTAAACGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
26358544 AATTGAGTGTCATTTTATAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
66 AATTGAGTGTCATTTTATAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
26358609 TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
131 TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
* *
26358662 GAACTTGAG
1 AAACATGAG
26358671 AGAATAACAT
Statistics
Matches: 189, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 189 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (183 bp):
AAACATGAGTAATTAACATTAAACGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
AATTGAGTGTCATTTTATAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
Found at i:26361685 original size:62 final size:62
Alignment explanation
Indices: 26361610--26361757 Score: 287
Period size: 62 Copynumber: 2.4 Consensus size: 62
26361600 CTTCTGGGTC
*
26361610 TGTTACAGAAAACAAAGGAAGAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCGGTA
1 TGTTACAGAAAACAAAGAAAGAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCGGTA
26361672 TGTTACAGAAAACAAAGAAAGAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCGGTA
1 TGTTACAGAAAACAAAGAAAGAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCGGTA
26361734 TGTTACAGAAAACAAAGAAAGAAA
1 TGTTACAGAAAACAAAGAAAGAAA
26361758 AACAGAAGCA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 85 1.00
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.21
Consensus pattern (62 bp):
TGTTACAGAAAACAAAGAAAGAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCGGTA
Found at i:26364429 original size:18 final size:20
Alignment explanation
Indices: 26364402--26364443 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
26364392 TTCACATGAA
26364402 TGATAGAATAAGAA-ATAT-
1 TGATAGAATAAGAATATATG
* *
26364420 TGATATAATATGAATATATG
1 TGATAGAATAAGAATATATG
26364440 TGAT
1 TGAT
26364444 TTGCATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.36
Consensus pattern (20 bp):
TGATAGAATAAGAATATATG
Found at i:26364540 original size:20 final size:18
Alignment explanation
Indices: 26364511--26364548 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 18
26364501 TTACATGCCA
26364511 AAGTAAAAAATTGATTTTT
1 AAGTAAAAAA-TGATTTTT
26364530 AAGTGAAAAAATGATTTTT
1 AAGT-AAAAAATGATTTTT
26364549 GTGGCCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
AAGTAAAAAATGATTTTT
Found at i:26367534 original size:47 final size:48
Alignment explanation
Indices: 26367454--26367566 Score: 142
Period size: 47 Copynumber: 2.4 Consensus size: 48
26367444 AAAGTAGAAG
* * *
26367454 ATGTGGCAGTTTATCTG-AAACTGAGGTGCCTTGTCCACT-ATATTTTT
1 ATGTGGCAGTTTATTTGCAAACAGAGGTGCCTTGTCCA-TAATATTATT
* *
26367501 ATGTGGCAGTTTATTTGCAAA-AGTGGTGGCTTGTCCATAATATTATT
1 ATGTGGCAGTTTATTTGCAAACAGAGGTGCCTTGTCCATAATATTATT
*
26367548 AAGTGGCAGTTTATTTGCA
1 ATGTGGCAGTTTATTTGCA
26367567 TTATTGGTGG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 54 0.93
48 3 0.05
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (48 bp):
ATGTGGCAGTTTATTTGCAAACAGAGGTGCCTTGTCCATAATATTATT
Found at i:26374666 original size:18 final size:18
Alignment explanation
Indices: 26374645--26374679 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26374635 TTATTCGTCA
26374645 TCTTTGACCTCTTCGTTC
1 TCTTTGACCTCTTCGTTC
**
26374663 TCTTTTCCCTCTTCGTT
1 TCTTTGACCTCTTCGTT
26374680 ATCAACCTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.34, G:0.09, T:0.54
Consensus pattern (18 bp):
TCTTTGACCTCTTCGTTC
Found at i:26375978 original size:434 final size:434
Alignment explanation
Indices: 26375170--26376011 Score: 1386
Period size: 434 Copynumber: 1.9 Consensus size: 434
26375160 TCCCACTAGA
* *
26375170 ACAATGGGATTCGATCACCTGCTCTAGATCATTGTCTCGCTTGATCTAAAAAAATGGCATATCTA
1 ACAATGGGATTCAATCACCTGCTCCAGATCATTGTCTCGCTTGATCTAAAAAAATGGCATATCTA
* * *
26375235 TTGGGTTCCAATGATGAAAGATATCTACATTTGAAGCTCGAAATTCTTCTCTAGATCCCTACTTT
66 GTGGGTTCCAATGATGAAAGATATCTACATTTGAAGCTCAAAATTCTTCTCCAGATCCCTACTTT
* * * *
26375300 ACGCTTAATCCTTGTCCAAAGCTCCTTCAACTGGTCCGGTTGAATGCCAGATCTGCGGTTTGTGC
131 ACGCCTAATCCTTGTCCAAAGCTCCTTCAACTGGTCCGGTTGAATGCCAGATCTACGGATTGCGC
*
26375365 TAATACAAAAACAGGGCCAATTTTGGTCTCACAAATTTAAGCATTGTAATGGATAAAAGTTCACA
196 TAATACAAAAACAGGGCCAATTTTGGTCTCACAAATTTAACCATTGTAATGGATAAAAGTTCACA
*
26375430 CTCGTCTTCTCATCTTGAACGAAATAGCATGTTCCACATGTTTAAAATAGAGAAAATAGTAAAAA
261 CTCGTCTTCTCATCTTCAACGAAATAGCATGTTCCACATGTTTAAAATAGAGAAAATAGTAAAAA
*
26375495 AATAGTATTCATCAACCAAACCCTAAATCTATACGTAAATTAATGAATTATCTTTGCTTT-AACA
326 AATAGTATTCATCAACCAAACCCTAAATCTACACGTAAATTAATGAATTATCTTTG-TTTCAACA
26375559 ATAATGTAGGGGCGAAATTCAAGTTTTCACGACAACGTCGGTCTC
390 ATAATGTAGGGGCGAAATTCAAGTTTTCACGACAACGTCGGTCTC
* * *
26375604 ACAATGGGATTCAATCACCTGCTCCAGATCGTTGTCTTGCTTGATCTAAAAAAATGGCATATGTA
1 ACAATGGGATTCAATCACCTGCTCCAGATCATTGTCTCGCTTGATCTAAAAAAATGGCATATCTA
26375669 GTGGGTTCCAATGATGAAAGATATCTACATTTGAAGCTCAAAATTCTTCTCCAGATCCCTACTTT
66 GTGGGTTCCAATGATGAAAGATATCTACATTTGAAGCTCAAAATTCTTCTCCAGATCCCTACTTT
*
26375734 ACGCCTAATCCTTGTCCGAAGCTCCGTT-AACTGGTCCGGTTGAATGCCAGATCTACGGATTGCG
131 ACGCCTAATCCTTGTCCAAAGCTCC-TTCAACTGGTCCGGTTGAATGCCAGATCTACGGATTGCG
* *
26375798 CTAATACAAAAAC-GGAGCCAATTTTGGTCTCACAAATTTGACCATTGTAATGGATAAAATTTCA
195 CTAATACAAAAACAGG-GCCAATTTTGGTCTCACAAATTTAACCATTGTAATGGATAAAAGTTCA
* * *
26375862 CACTCGT-TTGCTCATCTTCAACGGAATAGTATGTTCTACATGTTTAAAATAGAGAAAATAGTAA
259 CACTCGTCTT-CTCATCTTCAACGAAATAGCATGTTCCACATGTTTAAAATAGAGAAAATAGTAA
* ** * *
26375926 AAAAATAGTATTCATCAACCAAACCTTAAATCTACGTGTTAATTAATGAATTATCTTTGTTTCGA
323 AAAAATAGTATTCATCAACCAAACCCTAAATCTACACGTAAATTAATGAATTATCTTTGTTTCAA
26375991 CAATAATGTAGGGGCGAAATT
388 CAATAATGTAGGGGCGAAATT
26376012 GTTGTCGCGA
Statistics
Matches: 378, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
433 7 0.02
434 369 0.98
435 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (434 bp):
ACAATGGGATTCAATCACCTGCTCCAGATCATTGTCTCGCTTGATCTAAAAAAATGGCATATCTA
GTGGGTTCCAATGATGAAAGATATCTACATTTGAAGCTCAAAATTCTTCTCCAGATCCCTACTTT
ACGCCTAATCCTTGTCCAAAGCTCCTTCAACTGGTCCGGTTGAATGCCAGATCTACGGATTGCGC
TAATACAAAAACAGGGCCAATTTTGGTCTCACAAATTTAACCATTGTAATGGATAAAAGTTCACA
CTCGTCTTCTCATCTTCAACGAAATAGCATGTTCCACATGTTTAAAATAGAGAAAATAGTAAAAA
AATAGTATTCATCAACCAAACCCTAAATCTACACGTAAATTAATGAATTATCTTTGTTTCAACAA
TAATGTAGGGGCGAAATTCAAGTTTTCACGACAACGTCGGTCTC
Found at i:26380334 original size:18 final size:18
Alignment explanation
Indices: 26380311--26380355 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
26380301 AAAATGGAAG
26380311 AATGTATATGTAT-TATAA
1 AATGTATATGTATATAT-A
*
26380329 AATGTAAATGTATATATA
1 AATGTATATGTATATATA
*
26380347 TATGTATAT
1 AATGTATAT
26380356 ATAAACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (18 bp):
AATGTATATGTATATATA
Found at i:26381507 original size:14 final size:14
Alignment explanation
Indices: 26381488--26381514 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26381478 GTGGAAGCGC
26381488 GCGACGAGTGCGGA
1 GCGACGAGTGCGGA
26381502 GCGACGAGTGCGG
1 GCGACGAGTGCGG
26381515 CGTGTGGGCG
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:0.19, C:0.22, G:0.52, T:0.07
Consensus pattern (14 bp):
GCGACGAGTGCGGA
Found at i:26382226 original size:44 final size:45
Alignment explanation
Indices: 26382138--26382231 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
26382128 TAGACTTGTA
* **
26382138 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTT
* *
26382183 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTT
26382227 TCTTC
1 TCTTC
26382232 AATCGATTCG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 28 0.64
45 16 0.36
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTT
Found at i:26382423 original size:132 final size:132
Alignment explanation
Indices: 26382257--26382631 Score: 554
Period size: 132 Copynumber: 2.8 Consensus size: 132
26382247 CGATCGGGGG
* * ** *
26382257 ATAGAATTCCTGGCTTCAATATACTCCACTGCAACTTCAAGGAGGTAAGATCTGCCATCTTTGAT
1 ATAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAAGGAGGTAAAATCTGCCATCTTTGAT
* *
26382322 CTGCTCCACTACTGCTTAGGGAGATAAGATATGTCATCTTTAATCTATTCCGCTGCTGTCCAGGG
66 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCGCTGCTGTCCAGGG
26382387 AA
131 AA
* *
26382389 ATAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAAT-TCACCATCTTTGA
1 ATAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAAGGAGGTAAAATCT-GCCATCTTTGA
* * * * *
26382453 TCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAATCTTGAATCTATTCTGCTGCTGTCCAGG
65 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCGCTGCTGTCCAGG
26382518 GAA
130 GAA
* * * * *
26382521 GTGGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCTGCCGTCTTTGAC
1 ATAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAAGGAGGTAAAATCTGCCATCTTTGAT
*
26382586 CTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATCTTTAATCT
66 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCT
26382632 GTTCAACTAC
Statistics
Matches: 215, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
131 1 0.00
132 213 0.99
133 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (132 bp):
ATAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAAGGAGGTAAAATCTGCCATCTTTGAT
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCGCTGCTGTCCAGGG
AA
Found at i:26382774 original size:100 final size:100
Alignment explanation
Indices: 26382649--26383524 Score: 1288
Period size: 100 Copynumber: 8.8 Consensus size: 100
26382639 TACAATGTCG
* * * * *
26382649 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGGAAGTAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCT-AAGGAAGTAAGATCT
* *
26382713 GTCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * * **
26382749 GGGAAACCAGATCCGCCGTCATAGCTTTAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCA
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
* *
26382814 CCGTTGTGGCTTCAATCTTATTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * * *
26382849 GGGAAACCAGATCCACAGTCGTAGCTTCAATCTGTTCCGCTACACTGCTAAGGAAATAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
*
26382914 TCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * * * * *
26382949 GGGAAACCACATCCGCCGTCGTAGCTTCAATTTATTCTGCTGCACTACTAAGGAAATAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
26383014 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * **
26383049 GGGAAACCAGACCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCA
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
* * *
26383114 CTGTTGTGGCTTCAATATTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* *
26383149 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAATATA-ATCT
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTA-AGATCT
26383213 GCCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* *
26383249 GGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAATAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
*
26383314 TCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * *
26383349 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCCAAGGAAGTAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
* *
26383414 TCGTTGTGGCTTCAACCTTTTTAATCGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * * * * *
26383449 GAGAAACCAGATCCGCCGTCGTAGCTTCAATCTGCTCCACTGTACTGCCAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
26383514 CCGTTGTGGCT
66 CCGTTGTGGCT
26383525 NNNNNNNNNN
Statistics
Matches: 709, Mismatches: 64, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
99 1 0.00
100 706 1.00
101 2 0.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (100 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
Found at i:26383411 original size:50 final size:50
Alignment explanation
Indices: 26383357--26383517 Score: 132
Period size: 50 Copynumber: 3.2 Consensus size: 50
26383347 CAGGGAAACC
26383357 AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCCAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCCAAGGAAGTA
* * * * * ** * ** ***
26383407 AGATCTGTCGTTGTGGCTTCAACCTTTTTAATCGCAATA-T--C-AGAGAAACC
1 AGATCCGCCGTCGTAGCTTCAATC-TGCT--CCGCTGTACTGCCAAG-GAAGTA
*
26383457 AGATCCGCCGTCGTAGCTTCAATCTGCTCCACTGTACTGCCAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCCAAGGAAGTA
26383507 AGATCCGCCGT
1 AGATCCGCCGT
26383518 TGTGGCTNNN
Statistics
Matches: 76, Mismatches: 27, Indels: 16
0.64 0.23 0.13
Matches are distributed among these distances:
47 4 0.05
48 1 0.01
49 4 0.05
50 57 0.75
51 4 0.05
52 1 0.01
53 5 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCCAAGGAAGTA
Found at i:26394801 original size:8 final size:7
Alignment explanation
Indices: 26394767--26394808 Score: 54
Period size: 6 Copynumber: 6.3 Consensus size: 7
26394757 TTAGCCTCTC
26394767 CATTTTT
1 CATTTTT
26394774 CA-TTTT
1 CATTTTT
26394780 CA-TTTT
1 CATTTTT
26394786 CA-TTTT
1 CATTTTT
26394792 CATCTTTT
1 CAT-TTTT
26394800 CATTTTT
1 CATTTTT
26394807 CA
1 CA
26394809 CATCACTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 18 0.55
7 8 0.24
8 7 0.21
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (7 bp):
CATTTTT
Found at i:26402757 original size:19 final size:17
Alignment explanation
Indices: 26402721--26402763 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
26402711 TATTTTATAT
*
26402721 AATTTTTAATTAAATTA
1 AATTTTTAAATAAATTA
26402738 AATTATTTAAATATAATTA
1 AATT-TTTAAATA-AATTA
26402757 AATTTTT
1 AATTTTT
26402764 TGAGGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 10 0.43
19 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTTAAATAAATTA
Found at i:26403067 original size:45 final size:44
Alignment explanation
Indices: 26402985--26403069 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 44
26402975 CTTTTATTTT
**
26402985 AGTTTTTTTTTCATTTTTAATTTTTTTTCTTATGCTTTTTTATC
1 AGTTTTTTTTTCATTTTTAATTTTGATTCTTATGCTTTTTTATC
26403029 AGTTTCTTTTTTCAATTTTTAATTATTGATT-TTA-GCTTTTT
1 AGTTT-TTTTTTC-ATTTTTAATT-TTGATTCTTATGCTTTTT
26403070 CAAATCTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
44 5 0.14
45 14 0.39
46 13 0.36
47 4 0.11
ACGTcount: A:0.16, C:0.08, G:0.06, T:0.69
Consensus pattern (44 bp):
AGTTTTTTTTTCATTTTTAATTTTGATTCTTATGCTTTTTTATC
Found at i:26403222 original size:15 final size:15
Alignment explanation
Indices: 26403202--26403232 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26403192 ATAAAATTTA
26403202 TATTTATTTAAAAAG
1 TATTTATTTAAAAAG
26403217 TATTTATTTAAAAAG
1 TATTTATTTAAAAAG
26403232 T
1 T
26403233 GAAGATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TATTTATTTAAAAAG
Found at i:26420259 original size:19 final size:20
Alignment explanation
Indices: 26420235--26420272 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
26420225 TGAGCTGGTT
26420235 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
26420254 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
26420273 AATCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:26423982 original size:28 final size:27
Alignment explanation
Indices: 26423919--26424070 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
26423909 ATATTAAGTC
* * *
26423919 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
26423946 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
26423974 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
26424001 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
26424029 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
26424056 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26424071 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:26424003 original size:55 final size:55
Alignment explanation
Indices: 26423919--26424070 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
26423909 ATATTAAGTC
* * *
26423919 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
26423974 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
26424029 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
26424071 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:26427813 original size:9 final size:9
Alignment explanation
Indices: 26427799--26427824 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
26427789 TATTTGAAAA
26427799 GGTTCACAC
1 GGTTCACAC
26427808 GGTTCACAC
1 GGTTCACAC
26427817 GGTTCACA
1 GGTTCACA
26427825 AAGTTGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (9 bp):
GGTTCACAC
Found at i:26428411 original size:145 final size:145
Alignment explanation
Indices: 26428148--26428438 Score: 519
Period size: 145 Copynumber: 2.0 Consensus size: 145
26428138 CGAAGCTCTG
*
26428148 TTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAACTGTTTAAGG
1 TTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAACCGTTTAAGG
*
26428213 CACGAATATAATTTGAAAAAAAATTTGGCAAATTTCGTTACCTTATTCAAAAACCAAGTATCAAA
66 CACGAATATAAATTGAAAAAAAATTTGGCAAATTTCGTTACCTTATTCAAAAACCAAGTATCAAA
26428278 ACAATAAAAAGTATT
131 ACAATAAAAAGTATT
26428293 TTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAACCGTTTAAGG
1 TTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAACCGTTTAAGG
****
26428358 CACGAATATAAATTGAAAATTTTTTTGGCAAATTTCGTTACCTTATTCAAAAACCAAGTATCAAA
66 CACGAATATAAATTGAAAAAAAATTTGGCAAATTTCGTTACCTTATTCAAAAACCAAGTATCAAA
*
26428423 ACAATAGAAAGTATT
131 ACAATAAAAAGTATT
26428438 T
1 T
26428439 GGACACAATA
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 139 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.31
Consensus pattern (145 bp):
TTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAACCGTTTAAGG
CACGAATATAAATTGAAAAAAAATTTGGCAAATTTCGTTACCTTATTCAAAAACCAAGTATCAAA
ACAATAAAAAGTATT
Found at i:26454595 original size:28 final size:28
Alignment explanation
Indices: 26454532--26454741 Score: 316
Period size: 28 Copynumber: 7.5 Consensus size: 28
26454522 ATATTAAGTC
* *
26454532 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
26454559 CGCACACTTCGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
26454587 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
26454615 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
26454643 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
26454671 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
26454699 CGCACACTTAGTGCTGTACA-ATTTAAACC
1 CGCACACTTAGTGC--TACATAATCAAACT
26454728 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26454742 CAATCTCATG
Statistics
Matches: 172, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
27 21 0.12
28 127 0.74
29 20 0.12
30 4 0.02
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:26462864 original size:28 final size:28
Alignment explanation
Indices: 26462801--26462980 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
26462791 ATATTAAGTC
* *
26462801 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
26462828 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
26462856 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
26462884 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
26462912 CGCACACTTAGTGCTACATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
26462939 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
26462966 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26462981 GTACAATTTA
Statistics
Matches: 149, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
27 67 0.45
28 82 0.55
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:26477343 original size:6 final size:6
Alignment explanation
Indices: 26477332--26477367 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
26477322 GCCTCTCCAT
26477332 TTTTCA TTTTCA TTTTCA TTTTCA TCTTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA --TTTTCA TTTT
26477368 TTCACATCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 22 0.79
8 6 0.21
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:26485348 original size:19 final size:17
Alignment explanation
Indices: 26485312--26485354 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
26485302 TATTTTATAT
*
26485312 AATTTTTAATTAAATTA
1 AATTTTTAAATAAATTA
26485329 AATTATTTAAATATAATTA
1 AATT-TTTAAATA-AATTA
26485348 AATTTTT
1 AATTTTT
26485355 GAGGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 10 0.43
19 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTTAAATAAATTA
Found at i:26485653 original size:44 final size:43
Alignment explanation
Indices: 26485572--26485655 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 43
26485562 TCTTTTATTT
**
26485572 AGTTTTTTTTTCATTTTTAATTTTTTTTCTTATGCTTTTTATC
1 AGTTTTTTTTTCATTTTTAATTTTGATTCTTATGCTTTTTATC
26485615 AGTTTCTTTTTTCAATTTTTAATTATTGATT-TTA-GCTTTTT
1 AGTTT-TTTTTTC-ATTTTTAATT-TTGATTCTTATGCTTTTT
26485656 CAAATCTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
43 5 0.14
44 14 0.39
45 13 0.36
46 4 0.11
ACGTcount: A:0.17, C:0.08, G:0.06, T:0.69
Consensus pattern (43 bp):
AGTTTTTTTTTCATTTTTAATTTTGATTCTTATGCTTTTTATC
Found at i:26485807 original size:15 final size:15
Alignment explanation
Indices: 26485787--26485817 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26485777 ATAAAATTTA
26485787 TATTTATTTAAAAAG
1 TATTTATTTAAAAAG
26485802 TATTTATTTAAAAAG
1 TATTTATTTAAAAAG
26485817 T
1 T
26485818 GAAGATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TATTTATTTAAAAAG
Found at i:26510122 original size:14 final size:14
Alignment explanation
Indices: 26510103--26510139 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
26510093 AAATTGGTTC
26510103 GTTAAACCAATCAA
1 GTTAAACCAATCAA
26510117 GTTAAACCAATCAA
1 GTTAAACCAATCAA
26510131 GTTAAACCA
1 GTTAAACCA
26510140 TGAGGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.22
Consensus pattern (14 bp):
GTTAAACCAATCAA
Found at i:26516464 original size:12 final size:12
Alignment explanation
Indices: 26516439--26516477 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26516429 ACTCGCTTCT
* *
26516439 TTACTTTCTCAC
1 TTACTTGCTTAC
*
26516451 TTACTTGTTTAC
1 TTACTTGCTTAC
26516463 TTACTTGCTTAC
1 TTACTTGCTTAC
26516475 TTA
1 TTA
26516478 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:26523910 original size:12 final size:12
Alignment explanation
Indices: 26523885--26523923 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26523875 ACTCGCTTCT
* *
26523885 TTACTTACTCAC
1 TTACTTGCTTAC
*
26523897 TTACTTGTTTAC
1 TTACTTGCTTAC
26523909 TTACTTGCTTAC
1 TTACTTGCTTAC
26523921 TTA
1 TTA
26523924 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:26524246 original size:49 final size:51
Alignment explanation
Indices: 26524172--26524312 Score: 139
Period size: 49 Copynumber: 2.8 Consensus size: 51
26524162 TTTTTTGTAC
* * * **
26524172 TGCCAATGTCATATCCCAGA-TATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATATCCCAGACAATGGTCTTACATGGGACCTCTCATATCGG
* * * * * *
26524222 TGCCCATGCCATGTCCCA-A-AATGGTTTTA-AGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATATCCCAGACAATGGTCTTACA-TGGGACCTCTCATATCGG
26524271 TGCCAACGCCATATCCCAGACAA-GGTCTTACATGGGACCTCT
1 TGCCAACGCCATATCCCAGACAATGGTCTTACATGGGACCTCT
26524313 GATGATCTCA
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 38 0.52
50 31 0.42
51 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (51 bp):
TGCCAACGCCATATCCCAGACAATGGTCTTACATGGGACCTCTCATATCGG
Found at i:26528467 original size:12 final size:12
Alignment explanation
Indices: 26528450--26528475 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26528440 CAAAACAGGC
26528450 TTTTAGCGGCGT
1 TTTTAGCGGCGT
26528462 TTTTAGCGGCGT
1 TTTTAGCGGCGT
26528474 TT
1 TT
26528476 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:26528572 original size:40 final size:40
Alignment explanation
Indices: 26528478--26528588 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
26528468 CGGCGTTTGG
* * *
26528478 ATAAAAAACGCCGCTAAAGATCGATCATTAGCGGCGCTTT
1 ATAAAAAACGCCGCTAAAGATCGAGCATTAGCAGCGATTT
* ** *
26528518 TTGGAAAACACCGCTAAAGATCGAGCATTAGCAGCGATTT
1 ATAAAAAACGCCGCTAAAGATCGAGCATTAGCAGCGATTT
* * *
26528558 ATAAAAAATGCCGCTAAAAAT-AAGCATTAGC
1 ATAAAAAACGCCGCTAAAGATCGAGCATTAGC
26528589 GGCGTTTTCC
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
39 9 0.16
40 48 0.84
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (40 bp):
ATAAAAAACGCCGCTAAAGATCGAGCATTAGCAGCGATTT
Found at i:26528709 original size:40 final size:41
Alignment explanation
Indices: 26528652--26528805 Score: 211
Period size: 41 Copynumber: 3.8 Consensus size: 41
26528642 GAGTTTTCGG
* *
26528652 GGGCTTTAGCGGCGTTTTTTAGAAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* *
26528693 GGGC-TTAGCGGTGTTTTTGAGAAAGCGACGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
** *
26528733 GGGCTTTAGCTACGTTTTCGAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * *
26528774 AGGCTTTAGCAGCGTTTTTGATAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC
26528806 GAATTCTCTA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 36 0.37
41 62 0.63
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
Found at i:26528822 original size:81 final size:80
Alignment explanation
Indices: 26528653--26528852 Score: 204
Period size: 81 Copynumber: 2.5 Consensus size: 80
26528643 AGTTTTCGGG
** ** * * * *
26528653 GGCTTTAGCGGCGTTTTTTAGAAAGTGCCGCTAATGCTCAGGGCTTAGCGGTGTTTTTGAGAAAG
1 GGCTTTAGCTACGTTTTCGAGAAAGCGCCGCTAATGCTCAAGGCTTAGCAGCGTTTTTGAGAAAG
*
26528718 CGACGCTAATGCTCA
66 CGACGCGAATGCTCA
*
26528733 GGGCTTTAGCTACGTTTTCGAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCAGCGTTTTTGATAA
1 -GGCTTTAGCTACGTTTTCGAGAAAGCGCCGCTAATGCTCAAGGC-TTAGCAGCGTTTTTGAGAA
* *
26528798 AGCGCCGCGAATTCTCTA
64 AGCGACGCGAATGCTC-A
** * * * *
26528816 -TTTTTAGCTGCGTTTTCTAAAAAGCTCCGCTAATGCT
1 GGCTTTAGCTACGTTTTCGAGAAAGCGCCGCTAATGCT
26528853 AAGAGATTTA
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
81 69 0.70
82 29 0.29
83 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (80 bp):
GGCTTTAGCTACGTTTTCGAGAAAGCGCCGCTAATGCTCAAGGCTTAGCAGCGTTTTTGAGAAAG
CGACGCGAATGCTCA
Found at i:26528840 original size:40 final size:41
Alignment explanation
Indices: 26528653--26528852 Score: 138
Period size: 41 Copynumber: 4.9 Consensus size: 41
26528643 AGTTTTCGGG
* * * * * *
26528653 GGCTTTAGCGGCGTTTTTTAGAAAGTGCCGCTAATGCTCAG
1 GGCTTTAGCTGCGTTTTCTAAAAAGCGCCGCGAATGCTCAA
* * * * * *
26528694 GGC-TTAGCGGTGTTTT-TGAGAAAGCGACGCTAATGCTCAG
1 GGCTTTAGCTGCGTTTTCT-AAAAAGCGCCGCGAATGCTCAA
* * * *
26528734 GGCTTTAGCTACGTTTTCGAGAAAGCGCCGCTAATGCTCAA
1 GGCTTTAGCTGCGTTTTCTAAAAAGCGCCGCGAATGCTCAA
* * * *
26528775 GGCTTTAGCAGCGTTTT-TGATAAAGCGCCGCGAATTCTCTA
1 GGCTTTAGCTGCGTTTTCT-AAAAAGCGCCGCGAATGCTCAA
** * *
26528816 -TTTTTAGCTGCGTTTTCTAAAAAGCTCCGCTAATGCT
1 GGCTTTAGCTGCGTTTTCTAAAAAGCGCCGCGAATGCT
26528853 AAGAGATTTA
Statistics
Matches: 131, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 63 0.48
41 67 0.51
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (41 bp):
GGCTTTAGCTGCGTTTTCTAAAAAGCGCCGCGAATGCTCAA
Found at i:26529099 original size:7 final size:7
Alignment explanation
Indices: 26529081--26529134 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
26529071 GTGTTACCAT
*
26529081 TTTAAGG
1 TTTATGG
26529088 TTTATGG
1 TTTATGG
*
26529095 ATTATGGG
1 TTTAT-GG
26529103 TTTAGTGG
1 TTTA-TGG
26529111 -TTATGG
1 TTTATGG
26529117 TTTATGG
1 TTTATGG
*
26529124 CTTATGG
1 TTTATGG
26529131 TTTA
1 TTTA
26529135 AAGTCTGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 3 0.08
7 28 0.72
8 7 0.18
9 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:26529120 original size:14 final size:14
Alignment explanation
Indices: 26529086--26529134 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
26529076 ACCATTTTAA
26529086 GGTTTATGGATTAT
1 GGTTTATGGATTAT
26529100 GGGTTTAGTGG-TTAT
1 -GGTTTA-TGGATTAT
*
26529115 GGTTTATGGCTTAT
1 GGTTTATGGATTAT
26529129 GGTTTA
1 GGTTTA
26529135 AAGTCTGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.09
14 16 0.50
15 10 0.31
16 3 0.09
ACGTcount: A:0.16, C:0.02, G:0.33, T:0.49
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:26529375 original size:21 final size:17
Alignment explanation
Indices: 26529349--26529399 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 17
26529339 TCCTATCTCG
26529349 GTTCAGTATTTTTAGTGCTCA
1 GTTCAGT-TTTTTA-T-C-CA
26529370 GTTCAGTTTTTTTATCCA
1 GTTCAG-TTTTTTATCCA
26529388 GTTCAGTTTTTT
1 GTTCAGTTTTTT
26529400 GCGTGTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.21
18 8 0.28
19 1 0.03
20 1 0.03
21 12 0.41
22 1 0.03
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.55
Consensus pattern (17 bp):
GTTCAGTTTTTTATCCA
Found at i:26529389 original size:18 final size:21
Alignment explanation
Indices: 26529349--26529399 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 21
26529339 TCCTATCTCG
*
26529349 GTTCAGTATTTTTAGTGCTCA
1 GTTCAGTTTTTTTAGTGCTCA
26529370 GTTCAGTTTTTTTA-T-C-CA
1 GTTCAGTTTTTTTAGTGCTCA
26529388 GTTCAGTTTTTT
1 GTTCAGTTTTTT
26529400 GCGTGTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 14 0.48
19 1 0.03
20 1 0.03
21 13 0.45
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.55
Consensus pattern (21 bp):
GTTCAGTTTTTTTAGTGCTCA
Done.