Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 36 of 297
Found at i:12738998 original size:30 final size:30
Alignment explanation
Indices: 12738964--12739022 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
12738954 TTTACGAGCC
* *
12738964 TAGGGGCCAAAGTGAAAATATGTGAAAGTT
1 TAGGGGCCAAAATGAAAATATGTAAAAGTT
* *
12738994 TAGGGGTCAAAATGAAAATTTGTAAAAGT
1 TAGGGGCCAAAATGAAAATATGTAAAAGT
12739023 ATGATTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.05, G:0.27, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATGAAAATATGTAAAAGTT
Found at i:12739770 original size:50 final size:50
Alignment explanation
Indices: 12739641--12739934 Score: 322
Period size: 50 Copynumber: 5.8 Consensus size: 50
12739631 GTTGTGAGAA
* * *
12739641 CACATGTGTAGTACTATGTGCAGGCTAGTACGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGT
* *
12739693 CACATGTGTAGTACCAAGTGCAGGCTACTACATGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * * * *
12739743 CGCATGTGTAGTACTAAGTTCAAGCTACTATGCGTACCCGATAGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * *
12739794 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * *
12739844 CATGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* *
12739894 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
12739935 GAGCTTCAGT
Statistics
Matches: 203, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 128 0.63
51 39 0.19
52 30 0.15
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:12739819 original size:101 final size:101
Alignment explanation
Indices: 12739641--12739923 Score: 316
Period size: 101 Copynumber: 2.8 Consensus size: 101
12739631 GTTGTGAGAA
* * * * * *** *
12739641 CACATGTGTAGTACTATGTGCAGGCTAGTACGTGTTTAAGACAGTTTTAGGTCACATGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAAGCTACTAGGCGTACCAGATAGTTTT-GGTCACATGTGTAGTA
* *
12739706 CCAAGTGCAGGCTACTACATGTACCAGATTGTTAGGT
65 CTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
* * * * * *
12739743 CGCATGTGTAGTACTAAGTTCAAGCTACTATGCGTACCCGATAGTTTTGATCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAAGCTACTAGGCGTACCAGATAGTTTTGGTCACATGTGTAGTAC
* *
12739808 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
66 TAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
** * * * * *
12739844 CATGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTACCAGATTG-ATAGGTCACATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAAGCTACTAGGCGTACCAGATAGTTTTGGTCACATGTGTAGTAC
12739908 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
12739924 TGCGTACCAG
Statistics
Matches: 150, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
100 32 0.21
101 82 0.55
102 36 0.24
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTAGGCGTACCAGATAGTTTTGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
Found at i:12739921 original size:151 final size:153
Alignment explanation
Indices: 12739645--12739931 Score: 425
Period size: 151 Copynumber: 1.9 Consensus size: 153
12739635 TGAGAACACA
* * * *
12739645 TGTGTAGTACTATGTGCAGGCTAGTACGTGTTTAAGACAGTTTTAGGTCACATGTGTAGTACCAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGACAGTGTTAGGTCACATGTGTAGTACCAA
* * *
12739710 GTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTTCAAGCTACTATG
66 GTGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATG
12739775 CGTACCCGATAGTTTTGATCACG
131 CGTACCCGATAGTTTTGATCACG
* * ** *
12739798 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TG-GTTAGGTCATGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGACAGTGTTAGGTCACATGTGTAGTACCAA
** *
12739861 GTGCAGGCTACTAGGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
66 GTGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATG
12739926 CGTACC
131 CGTACC
12739932 AGAGAGCTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 85 0.71
152 1 0.01
153 33 0.28
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (153 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGACAGTGTTAGGTCACATGTGTAGTACCAA
GTGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATG
CGTACCCGATAGTTTTGATCACG
Found at i:12740155 original size:16 final size:16
Alignment explanation
Indices: 12740134--12740165 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12740124 AGAATGGAGT
12740134 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
12740150 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
12740166 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:12744666 original size:14 final size:14
Alignment explanation
Indices: 12744647--12744673 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12744637 TAAATACTTG
12744647 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
12744661 ATTTGTTCTTAAT
1 ATTTGTTCTTAAT
12744674 GCTTGTGTTA
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:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:12745120 original size:13 final size:13
Alignment explanation
Indices: 12745104--12745128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12745094 TTAAATCAGT
12745104 TAATTAGTTTAAA
1 TAATTAGTTTAAA
12745117 TAATTAGTTTAA
1 TAATTAGTTTAA
12745129 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:12750553 original size:17 final size:17
Alignment explanation
Indices: 12750525--12750567 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12750515 TCTTATTTTT
* *
12750525 ATTTTATTTTTCTTTTGA
1 ATTTTA-TTTTCATTTCA
12750543 ATTTTATTTTCATTTCA
1 ATTTTATTTTCATTTCA
*
12750560 GTTTTATT
1 ATTTTATT
12750568 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (17 bp):
ATTTTATTTTCATTTCA
Found at i:12752614 original size:25 final size:24
Alignment explanation
Indices: 12752568--12752621 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
12752558 CGGCCTGGCC
* *
12752568 ATTGAGCCTACACGGCCGTGTGCAA
1 ATTGAGCCTACACGACCATGTGC-A
* *
12752593 ATTGAGCCTACCCGACTATGTGCA
1 ATTGAGCCTACACGACCATGTGCA
12752617 ATTGA
1 ATTGA
12752622 ACAAATCGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (24 bp):
ATTGAGCCTACACGACCATGTGCA
Found at i:12753494 original size:13 final size:13
Alignment explanation
Indices: 12753478--12753502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12753468 TTGAATCAGT
12753478 TAATTAGTTTAAA
1 TAATTAGTTTAAA
12753491 TAATTAGTTTAA
1 TAATTAGTTTAA
12753503 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:12755400 original size:14 final size:15
Alignment explanation
Indices: 12755383--12755411 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12755373 TTATGAAAAT
12755383 TTCACACAT-ATAAA
1 TTCACACATAATAAA
12755397 TTCACACATAATAAA
1 TTCACACATAATAAA
12755412 CACATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:12762291 original size:15 final size:15
Alignment explanation
Indices: 12762271--12762300 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12762261 TAAAAAGGAA
*
12762271 ATTTTTGATAAGATG
1 ATTTTTCATAAGATG
12762286 ATTTTTCATAAGATG
1 ATTTTTCATAAGATG
12762301 TAAAATAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (15 bp):
ATTTTTCATAAGATG
Found at i:12764953 original size:29 final size:29
Alignment explanation
Indices: 12764920--12765171 Score: 256
Period size: 29 Copynumber: 8.7 Consensus size: 29
12764910 CGATCGAAAT
* *
12764920 CATCCCTTTTCATATTCGATGGGT-GTCAC
1 CATCCCTTTTCATATTTGAT-GGTCATCAC
12764949 CATCCCTTTTCATATTTGATGGTCATCAC
1 CATCCCTTTTCATATTTGATGGTCATCAC
* * **
12764978 CTTCCCTTTACATATTTGATGGTCAAAAC
1 CATCCCTTTTCATATTTGATGGTCATCAC
* *
12765007 CTTCCCTTTTCATATTTGATGGTCGTCAC
1 CATCCCTTTTCATATTTGATGGTCATCAC
* * * * *
12765036 TATCCTTTTTCATATTCGATGATCATTAC
1 CATCCCTTTTCATATTTGATGGTCATCAC
**
12765065 CATCCCTTTTCATATTTGATGGTCAAAAC
1 CATCCCTTTTCATATTTGATGGTCATCAC
** * * *
12765094 CATCTATTTGCAGATTTGATGGTCGTCAC
1 CATCCCTTTTCATATTTGATGGTCATCAC
* * *
12765123 TATCCATTTTCATATTTGATGGTCGA-AAC
1 CATCCCTTTTCATATTTGATGGTC-ATCAC
*
12765152 CATCCATTTTCATATTTGAT
1 CATCCCTTTTCATATTTGAT
12765172 CGGCATCGAT
Statistics
Matches: 184, Mismatches: 37, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
28 3 0.02
29 181 0.98
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (29 bp):
CATCCCTTTTCATATTTGATGGTCATCAC
Found at i:12765071 original size:87 final size:87
Alignment explanation
Indices: 12764920--12765171 Score: 328
Period size: 87 Copynumber: 2.9 Consensus size: 87
12764910 CGATCGAAAT
* * * * *
12764920 CATCCCTTTTCATATTCGATGGGT-GTCACCATCCCTTTTCATATTTGATGGTCATCACCTTCCC
1 CATCCCTTTTCATATTTGAT-GGTCGTCACTATCCATTTTCATATTTGATGGTCATAACCATCCC
*
12764984 TTTACATATTTGATGGTCAAAAC
65 TTTTCATATTTGATGGTCAAAAC
* * * * *
12765007 CTTCCCTTTTCATATTTGATGGTCGTCACTATCCTTTTTCATATTCGATGATCATTACCATCCCT
1 CATCCCTTTTCATATTTGATGGTCGTCACTATCCATTTTCATATTTGATGGTCATAACCATCCCT
12765072 TTTCATATTTGATGGTCAAAAC
66 TTTCATATTTGATGGTCAAAAC
** * * *
12765094 CATCTATTTGCAGATTTGATGGTCGTCACTATCCATTTTCATATTTGATGGTCGA-AACCATCCA
1 CATCCCTTTTCATATTTGATGGTCGTCACTATCCATTTTCATATTTGATGGTC-ATAACCATCCC
12765158 TTTTCATATTTGAT
65 TTTTCATATTTGAT
12765172 CGGCATCGAT
Statistics
Matches: 144, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
86 3 0.02
87 140 0.97
88 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (87 bp):
CATCCCTTTTCATATTTGATGGTCGTCACTATCCATTTTCATATTTGATGGTCATAACCATCCCT
TTTCATATTTGATGGTCAAAAC
Found at i:12770082 original size:46 final size:46
Alignment explanation
Indices: 12770033--12770483 Score: 733
Period size: 46 Copynumber: 9.8 Consensus size: 46
12770023 GTTTGGGCAT
* * * * *
12770033 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
* * *** * * * * **
12770079 CCGAACTCGTTGACTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCAT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACGG
12770126 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
12770172 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
12770218 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
12770264 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
12770310 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
12770356 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
12770402 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
12770448 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12770484 GCGGGTTACA
Statistics
Matches: 380, Mismatches: 22, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
46 346 0.91
47 34 0.09
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.27
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
Found at i:12773474 original size:14 final size:15
Alignment explanation
Indices: 12773425--12773474 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
12773415 GTATCTTGGG
*
12773425 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
12773440 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
12773455 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
12773469 TTTCTT
1 TTTCTT
12773475 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:12775453 original size:46 final size:46
Alignment explanation
Indices: 12775403--12775576 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
12775393 TTTGGGCATT
*
12775403 CGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
12775449 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
* * * *
12775495 CGAACTCCTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG--TC
*
12775542 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12775577 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 70 0.63
47 26 0.23
49 1 0.01
50 2 0.02
51 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
Found at i:12787351 original size:47 final size:47
Alignment explanation
Indices: 12787233--12787636 Score: 380
Period size: 46 Copynumber: 8.7 Consensus size: 47
12787223 GGATGGTTGA
* * *
12787233 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
12787281 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
12787326 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
12787374 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
12787419 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
12787467 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
12787512 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
12787560 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
*
12787605 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
12787637 ACTTATGGAT
Statistics
Matches: 296, Mismatches: 28, Indels: 65
0.76 0.07 0.17
Matches are distributed among these distances:
42 8 0.03
43 20 0.07
45 12 0.04
46 113 0.38
47 112 0.38
48 10 0.03
50 15 0.05
51 6 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:12787392 original size:93 final size:93
Alignment explanation
Indices: 12787233--12787683 Score: 866
Period size: 93 Copynumber: 4.8 Consensus size: 93
12787223 GGATGGTTGA
*
12787233 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
12787298 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
12787326 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
12787391 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
12787419 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
12787484 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
12787512 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
12787577 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
12787605 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
12787670 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
12787684 CTTATGGGCG
Statistics
Matches: 354, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 354 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:12790336 original size:40 final size:40
Alignment explanation
Indices: 12790281--12790597 Score: 591
Period size: 40 Copynumber: 7.9 Consensus size: 40
12790271 GATGATAACG
* **
12790281 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAT-TCC
12790321 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
12790361 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
12790401 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
12790441 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
12790481 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
12790521 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
12790561 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAT
1 GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAT
12790598 ATGCGAGTTA
Statistics
Matches: 273, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
40 271 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCC
Found at i:12790602 original size:15 final size:15
Alignment explanation
Indices: 12790582--12790612 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12790572 CGAAGGCATT
12790582 TATGCGAGTTACTAA
1 TATGCGAGTTACTAA
12790597 TATGCGAGTTACTAA
1 TATGCGAGTTACTAA
12790612 T
1 T
12790613 TCCGGGCTAA
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:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (15 bp):
TATGCGAGTTACTAA
Found at i:12790626 original size:55 final size:55
Alignment explanation
Indices: 12790542--12790652 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
12790532 CGAAGGCATT
12790542 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAA
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAA
12790597 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAA
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAA
12790652 T
1 T
12790653 TCCGGGCTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (55 bp):
TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAA
Found at i:12790665 original size:95 final size:95
Alignment explanation
Indices: 12790502--12790692 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
12790492 CGAAGGCATT
12790502 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCCGGGCTA
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCCGGGCTA
12790567 AGTCCCGAAGGCATTTATGCGAGTTACTAA
66 AGTCCCGAAGGCATTTATGCGAGTTACTAA
12790597 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCCGGGCTA
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCCGGGCTA
12790662 AGTCCCGAAGGCATTTATGCGAGTTACTAA
66 AGTCCCGAAGGCATTTATGCGAGTTACTAA
12790692 T
1 T
12790693 TCCGGGCTAA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (95 bp):
TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAATTCCGGGCTA
AGTCCCGAAGGCATTTATGCGAGTTACTAA
Found at i:12791337 original size:40 final size:40
Alignment explanation
Indices: 12790597--12791325 Score: 1227
Period size: 40 Copynumber: 18.2 Consensus size: 40
12790587 GAGTTACTAA
12790597 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790637 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790677 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790717 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790757 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790797 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790837 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790877 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790917 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790957 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12790997 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12791037 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
12791077 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
* **
12791117 TGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATT
* **
12791157 TGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATT
* **
12791197 TGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATT
* **
12791237 TGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATT
* **
12791277 TGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATT
1 TATGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATT
12791317 TGA-GCGAGT
1 T-ATGCGAGT
12791326 AGCTATATCC
Statistics
Matches: 681, Mismatches: 6, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
39 2 0.00
40 679 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
TATGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATT
Found at i:12808384 original size:32 final size:32
Alignment explanation
Indices: 12808344--12808407 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
12808334 TATTGAACTT
12808344 GGCCGAATAGAAAAAAGAAAAAGAAGGGAAAG
1 GGCCGAATAGAAAAAAGAAAAAGAAGGGAAAG
*
12808376 GGCCGAATAGAAGAAAGAAAAAGAAGGGAAAG
1 GGCCGAATAGAAAAAAGAAAAAGAAGGGAAAG
12808408 AGCTTGGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.58, C:0.06, G:0.33, T:0.03
Consensus pattern (32 bp):
GGCCGAATAGAAAAAAGAAAAAGAAGGGAAAG
Found at i:12808945 original size:46 final size:46
Alignment explanation
Indices: 12808878--12808970 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
12808868 TGTATATATG
*
12808878 TGTATTAGCTGAGTTTCGAACTTGAAACAAAATGGTATGTAGTCAA
1 TGTATTAGCCGAGTTTCGAACTTGAAACAAAATGGTATGTAGTCAA
12808924 TGTATTAGCCGAGTTTCGAACTTGAAACAAAATGGTATGTAGTCAA
1 TGTATTAGCCGAGTTTCGAACTTGAAACAAAATGGTATGTAGTCAA
12808970 T
1 T
12808971 ACAAGTAACC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (46 bp):
TGTATTAGCCGAGTTTCGAACTTGAAACAAAATGGTATGTAGTCAA
Found at i:12809717 original size:40 final size:40
Alignment explanation
Indices: 12809661--12810116 Score: 826
Period size: 40 Copynumber: 11.4 Consensus size: 40
12809651 GATGATAACG
* **
12809661 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
*
12809701 GGGCTAAGTCCTGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
12809741 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
12809781 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
12809821 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
12809861 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
12809901 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
12809941 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
12809981 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
12810021 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
*
12810061 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTA-CTATATCC
* *
12810101 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
12810117 TACTTGGTTT
Statistics
Matches: 407, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
39 17 0.04
40 390 0.96
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
Found at i:12814740 original size:29 final size:29
Alignment explanation
Indices: 12814690--12814818 Score: 134
Period size: 29 Copynumber: 4.4 Consensus size: 29
12814680 CCCTTAAATA
* * *
12814690 ATGAAAGGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAACTTTAGCTATCGAAT
* *
12814719 TTGGAAAGGGATAACTTTAGCTATCGAAT
1 ATGAAAAGGGATAACTTTAGCTATCGAAT
* * * *
12814748 ATGAAAAGGAATAGCTTTGGTTATCGAAT
1 ATGAAAAGGGATAACTTTAGCTATCGAAT
* *
12814777 ATGAAAAAGGGAT-AGTTTCAGCTATCGATT
1 ATG-AAAAGGGATAACTTT-AGCTATCGAAT
12814807 ATGAAAAGGGAT
1 ATGAAAAGGGAT
12814819 GGTGACGACC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
29 62 0.77
30 19 0.23
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (29 bp):
ATGAAAAGGGATAACTTTAGCTATCGAAT
Found at i:12814838 original size:29 final size:29
Alignment explanation
Indices: 12814800--12814877 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
12814790 AGTTTCAGCT
*
12814800 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
*
12814829 ATC-AACTATGAAAAGGGACGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
* *
12814858 ATCGAATACGAAAATGGATG
1 ATCGAATATGAAAAGGGATG
12814878 CTTTCGACCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 1 0.02
29 39 0.93
30 2 0.05
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.18
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:12822852 original size:21 final size:22
Alignment explanation
Indices: 12822828--12822884 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
12822818 TAACAAAAAA
12822828 AATA-TTAATTCTAATT-ATTTT
1 AATATTTAATT-TAATTAATTTT
*
12822849 AATATTTTATTTAATTAATTTT
1 AATATTTAATTTAATTAATTTT
12822871 AAT-TTT--TTTAATTA
1 AATATTTAATTTAATTA
12822885 TCTAACCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.24
21 12 0.36
22 13 0.39
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
AATATTTAATTTAATTAATTTT
Found at i:12843953 original size:40 final size:40
Alignment explanation
Indices: 12843861--12843999 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 40
12843851 CATGATTGCT
* * * *
12843861 CTTCGGGATTTAGCACGGATATA-TCAC-TAGCACGAATGC
1 CTTC-GGACTTAGCCCGGATATAGTAACTTAGCACCAATGC
* * *
12843900 TCTTTGGAACTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
1 -CTTCGG-ACTTAGCCCGGATATAGTAACTTAGCACCAATGC
* * * *
12843941 CTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC
1 CTTCGGA-CTTAGCCCGGATATAGTAACTTAGCACCAATGC
12843981 CTTCGGGACTTAGCCCGGA
1 CTTC-GGACTTAGCCCGGA
12844000 CATCCTTCAA
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
39 3 0.04
40 56 0.71
41 20 0.25
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGACTTAGCCCGGATATAGTAACTTAGCACCAATGC
Found at i:12844342 original size:29 final size:29
Alignment explanation
Indices: 12844303--12844381 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
12844293 CTTAATAATC
* *
12844303 AACCACGCACACTTTGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
12844333 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
12844362 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
12844382 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:12862403 original size:79 final size:81
Alignment explanation
Indices: 12862294--12862476 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
12862284 TACTCGTTCA
* *
12862294 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
12862357 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
12862374 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
12862437 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
12862453 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
12862477 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:12862476 original size:40 final size:40
Alignment explanation
Indices: 12862273--12862476 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
12862263 CGGAATTTAA
** *
12862273 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12862313 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12862353 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
12862392 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
12862432 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
12862472 CCGGA
1 CCGGA
12862477 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:12876583 original size:40 final size:40
Alignment explanation
Indices: 12876484--12876629 Score: 127
Period size: 40 Copynumber: 3.6 Consensus size: 40
12876474 GCTCCTCGTT
* * *
12876484 CAAATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * ** *
12876524 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * *
12876564 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCA
*
12876605 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
12876630 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.03
40 72 0.84
41 11 0.13
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:12885507 original size:36 final size:36
Alignment explanation
Indices: 12885456--12885524 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
12885446 GACAAGTTAT
*
12885456 AGCCAAGGCAGAATCACAGATTGAGACCTCTACCGA
1 AGCCAAGGCACAATCACAGATTGAGACCTCTACCGA
*
12885492 AGCCAGGGCACAATCACAGATTGAGACCTCTAC
1 AGCCAAGGCACAATCACAGATTGAGACCTCTAC
12885525 GGAATAGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.14
Consensus pattern (36 bp):
AGCCAAGGCACAATCACAGATTGAGACCTCTACCGA
Found at i:12887774 original size:40 final size:44
Alignment explanation
Indices: 12887720--12887942 Score: 223
Period size: 49 Copynumber: 4.7 Consensus size: 44
12887710 ATATACACTT
12887720 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATATA-A
12887766 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATATA-A
* *
12887815 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATATA--A
* * *
12887865 TCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATACACT-T
1 TCACATT-ATCACATCGGCCATTAGGCCTTAT--CACATATATA-TAA
*
12887912 TCGCATTCATCACATCGGCCATTAGGCCTTA
1 TCACATT-ATCACATCGGCCATTAGGCCTTA
12887943 CTATCATTTC
Statistics
Matches: 162, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
47 61 0.38
49 101 0.62
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (44 bp):
TCACATTATCACATCGGCCATTAGGCCTTATCACATATATATAA
Found at i:12887778 original size:49 final size:47
Alignment explanation
Indices: 12887653--12887942 Score: 436
Period size: 47 Copynumber: 6.1 Consensus size: 47
12887643 CCCTTCGGGA
* * * * * *
12887653 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
12887700 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12887747 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12887796 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12887845 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
12887892 CTTATCGCACATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12887939 CTTA
1 CTTA
12887943 CTATCATTTC
Statistics
Matches: 226, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 130 0.58
49 96 0.42
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:12887857 original size:96 final size:94
Alignment explanation
Indices: 12887653--12887942 Score: 436
Period size: 96 Copynumber: 3.0 Consensus size: 94
12887643 CCCTTCGGGA
* * * * * * * *
12887653 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
12887718 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
12887747 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
12887812 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
12887845 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
12887910 TTTCGCATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
12887939 CTTA
1 CTTA
12887943 CTATCATTTC
Statistics
Matches: 180, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
94 49 0.27
96 84 0.47
98 47 0.26
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:12890484 original size:18 final size:19
Alignment explanation
Indices: 12890456--12890491 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
12890446 CCAAAAAATT
12890456 AAAATTATTTTCTTTCAGA
1 AAAATTATTTTCTTTCAGA
12890475 AAAATT-TTTTCTTTCAG
1 AAAATTATTTTCTTTCAG
12890492 TTATTATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (19 bp):
AAAATTATTTTCTTTCAGA
Found at i:12893230 original size:300 final size:299
Alignment explanation
Indices: 12892689--12893285 Score: 1025
Period size: 300 Copynumber: 2.0 Consensus size: 299
12892679 CATATAAGCA
*
12892689 TAACAAATAAACGGTGATATAATGATTCTACTTGAATTATATATCGAGGTAATTAGTTATACTTA
1 TAACAAATAAACGGTGATATAATGATTCTACTTGAATTATATATCAAGGTAATTAGTTATACTTA
* *
12892754 TGACTGGTAGCCGAATGTGTATAGAGATCATGTTACAAAGCCAATCAAAATCATGCTCTTTGTAT
66 TGACTGGTAGCCGAATGTGTATAGAGATCATGTCACAAAGCAAATCAAAATCATGCTCTTTGTAT
*
12892819 GTGGCTATTGAGCCGAAAATGGTAAAGGTTGATAAGTGTCTTGTGTTTGAGTTTTAGTAATGAAA
131 GTGGCTATTGAGCCGAAAATGGTAAAGGTTGATAAGTGTCTTGTGTTTGAGTTCTAGTAATGAAA
*
12892884 ATGAAATATAAATGTGTTATGATTTATTGATATATGTGCATGATTATACGGATGATAACCGGACT
196 ATGAAATATAAATGTGTTATGATTTATTCATATATGTGCATGATTATACGGATGATAACCGGACT
12892949 AAGATC-CGAAGGCATTTGTGCTAGTGACTATATCCGGTG
261 AAG-TCTCGAAGGCATTTGTGCTAGTGACTATATCCGGTG
*
12892988 TAACAAATAAACGGTGATATAATGATTCTACTTGAATTATATGTCAAGGTAATTAGTTTATACTT
1 TAACAAATAAACGGTGATATAATGATTCTACTTGAATTATATATCAAGGTAATTAG-TTATACTT
* * *
12893053 ATGACTGGTAGCCGAATGTGTATGGGGATCATGTCATAAAGCAAATCAAAATCATGCTCTTTGTA
65 ATGACTGGTAGCCGAATGTGTATAGAGATCATGTCACAAAGCAAATCAAAATCATGCTCTTTGTA
12893118 TGTGGCTATTGAGCCGAAAATGGTAAAGGTTGATAAGTGTCTTGTGTTTGAGTTCTAGTAATGAA
130 TGTGGCTATTGAGCCGAAAATGGTAAAGGTTGATAAGTGTCTTGTGTTTGAGTTCTAGTAATGAA
* ** * *
12893183 AATGAAATATAAATGTGTTATGATTTATTCATATATGTGCATGATTATTCGGATGATGTCTGGGC
195 AATGAAATATAAATGTGTTATGATTTATTCATATATGTGCATGATTATACGGATGATAACCGGAC
* *
12893248 TACGTCTCGGAGGCATTTGTGCTAGTGACTATATCCGG
260 TAAGTCTCGAAGGCATTTGTGCTAGTGACTATATCCGG
12893286 GCTAAGTCCC
Statistics
Matches: 280, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
299 56 0.20
300 224 0.80
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (299 bp):
TAACAAATAAACGGTGATATAATGATTCTACTTGAATTATATATCAAGGTAATTAGTTATACTTA
TGACTGGTAGCCGAATGTGTATAGAGATCATGTCACAAAGCAAATCAAAATCATGCTCTTTGTAT
GTGGCTATTGAGCCGAAAATGGTAAAGGTTGATAAGTGTCTTGTGTTTGAGTTCTAGTAATGAAA
ATGAAATATAAATGTGTTATGATTTATTCATATATGTGCATGATTATACGGATGATAACCGGACT
AAGTCTCGAAGGCATTTGTGCTAGTGACTATATCCGGTG
Found at i:12893302 original size:40 final size:40
Alignment explanation
Indices: 12893244--12893339 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
12893234 GATGATGTCT
* * * *
12893244 GGGCTACGTCTCGGAGGCATTTGTGCTAG-TGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC
12893284 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC
*
12893324 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
12893340 TACTTGGGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 15 0.30
40 33 0.66
41 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC
Found at i:12899872 original size:13 final size:13
Alignment explanation
Indices: 12899854--12899880 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12899844 GCATATTATA
12899854 AACATTTTGTGTT
1 AACATTTTGTGTT
12899867 AACATTTTGTGTT
1 AACATTTTGTGTT
12899880 A
1 A
12899881 GAAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (13 bp):
AACATTTTGTGTT
Found at i:12901183 original size:40 final size:40
Alignment explanation
Indices: 12901098--12901302 Score: 344
Period size: 40 Copynumber: 5.2 Consensus size: 40
12901088 GGACTAAGAT
12901098 CCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
12901137 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
12901177 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
12901217 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
12901257 CCGAAAGCATTTGTGCTAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
12901296 CCGAAGG
1 CCGAAGG
12901303 TACTTCGGTT
Statistics
Matches: 157, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 43 0.27
40 112 0.71
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:12902870 original size:31 final size:31
Alignment explanation
Indices: 12902829--12902912 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
12902819 CTAGTCTTGA
12902829 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* * *
12902859 CATATCACTGGGTCGCAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
12902890 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
12902913 ATGTAAACGG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:12902982 original size:42 final size:42
Alignment explanation
Indices: 12902935--12903026 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
12902925 TAGCCCTTAG
*
12902935 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
12902977 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
12903019 GCCCATTT
1 GCCCATTT
12903027 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:12903232 original size:25 final size:26
Alignment explanation
Indices: 12903174--12903244 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
12903164 CTCTTTTAAT
*
12903174 AACTGGGGCAAAGCCCTTTTCTGTTA
1 AACTGGGGCAAAGCCCTTTTCTGGTA
*
12903200 AATTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGGTA
* *
12903225 AACTGGGGCAGATCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
12903245 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 20 0.50
26 20 0.50
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGGTA
Found at i:12904084 original size:27 final size:26
Alignment explanation
Indices: 12904054--12904131 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
12904044 GGGCATATTC
*
12904054 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TATAAGGGTATTACG
* *
12904081 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTA-CCTATAAGGG-TATTACG
*
12904108 GTCTTTTTACCTATTAAGGGTATT
1 GTCATTTTACCTA-TAAGGGTATT
12904132 TTAGTTACGG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 5 0.12
27 33 0.80
28 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAAGGGTATTACG
Found at i:12904140 original size:33 final size:33
Alignment explanation
Indices: 12904103--12904169 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
12904093 TATAGGGGCT
12904103 TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
1 TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
*
12904136 TTACGGTCTTTTTACCTATTAGGGGTATTTTAG
1 TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
12904169 T
1 T
12904170 CATTTCATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.49
Consensus pattern (33 bp):
TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
Found at i:12904343 original size:27 final size:27
Alignment explanation
Indices: 12904183--12904418 Score: 208
Period size: 27 Copynumber: 8.7 Consensus size: 27
12904173 TTCATCCTAC
* * * * *
12904183 AAGGGTGTTTTCGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* **
12904210 AAGGGTATTTTAGTAATTTTGTAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
12904237 AATGGTATTTCT-ATAATTTTTAGAAAGTT
1 AAGGGTATTT-TGGTAA-TTTTACAAA-CT
** *
12904266 AAGGGTATTTCT-GTAATTTTGTAAACC
1 AAGGGTATTT-TGGTAATTTTACAAACT
* *
12904293 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
12904320 AAGGGTATTTCGGTAATTTCACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
12904347 -AGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
*
12904374 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
12904401 AGGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
12904419 CTATCCTATA
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 139 0.80
28 16 0.09
29 15 0.09
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:12904354 original size:54 final size:54
Alignment explanation
Indices: 12904254--12904451 Score: 218
Period size: 54 Copynumber: 3.6 Consensus size: 54
12904244 TTTCTATAAT
* * *** *
12904254 TTTTAGAAAGTTAAGGGTATTTCTGTAATTTTGTAAACCAGGGGTATTTTGGTAA
1 TTTTACAAA-TTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
* *
12904309 TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTCGGTAA
1 TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
* * * *
12904363 TTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAA
1 TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
* ** * *
12904417 TTCTATCCTA-TAGGGGTATTTCAGTAATTTCACAA
1 TTTTA-CAAATTAAGGGTATTTCGGTAATTTCACAA
12904452 TCGAGGGTAA
Statistics
Matches: 122, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
54 112 0.92
55 10 0.08
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
Found at i:12904386 original size:81 final size:81
Alignment explanation
Indices: 12904202--12904418 Score: 247
Period size: 81 Copynumber: 2.7 Consensus size: 81
12904192 TTCGTAAATC
* * ** * ** * * *
12904202 TACAAACCAAGGGTATTTTAGTAATTTTGTAAACTAATGGTATTTCTATAATTTTTAGAAAGTTA
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAA-TTTCACAAA-CT-
*
12904267 AG-GGTATTTCTGTAATTT
63 AGTGGTATTTCGGTAATTT
** *
12904285 TGTAAACCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGT
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGT
12904350 GGTATTTCGGTAATTT
66 GGTATTTCGGTAATTT
* * *
12904366 TACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATT
12904419 CTATCCTATA
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 2 0.02
81 63 0.56
82 7 0.06
83 41 0.36
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (81 bp):
TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGT
GGTATTTCGGTAATTT
Found at i:12904435 original size:81 final size:81
Alignment explanation
Indices: 12904202--12904451 Score: 243
Period size: 81 Copynumber: 3.1 Consensus size: 81
12904192 TTCGTAAATC
* * ** * ** * * *
12904202 TACAAACCAAGGGTATTTTAGTAATTTTGTAAACTAATGGTATTTCTATAATTTTTAGAAAGTTA
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAA-TTTCACAAA-CTA
* *
12904267 AGGGTATTTCTGTAATTT
64 GGGGTATTTCAGTAATTT
** * *
12904285 TGTAAACCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGT
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGG
*
12904350 GGTATTTCGGTAATTT
66 GGTATTTCAGTAATTT
* * * **
12904366 TACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTCTATCCTA-TA
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTC-A-CAAACTA
12904429 GGGGTATTTCAGTAATTT
64 GGGGTATTTCAGTAATTT
*
12904447 CACAA
1 TACAA
12904452 TCGAGGGTAA
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
80 3 0.02
81 85 0.62
82 9 0.07
83 41 0.30
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGG
GGTATTTCAGTAATTT
Found at i:12904458 original size:27 final size:27
Alignment explanation
Indices: 12904268--12904451 Score: 183
Period size: 27 Copynumber: 6.8 Consensus size: 27
12904258 AGAAAGTTAA
* *** *
12904268 GGGTATTTCTGTAATTTTGTAAACCAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* * * *
12904295 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTCGGTAATTTCACAAACTAG
12904322 GGGTATTTCGGTAATTTCACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
12904349 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
12904376 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* **
12904403 GGGTATTTTGGTAA-TTCTATCCTA-TAG
1 GGGTATTTCGGTAATTTC-A-CAAACTAG
*
12904430 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
12904452 TCGAGGGTAA
Statistics
Matches: 132, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.02
27 124 0.94
28 5 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACTAG
Found at i:12904470 original size:26 final size:25
Alignment explanation
Indices: 12904441--12904541 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 25
12904431 GGTATTTCAG
*
12904441 TAATTTCACAATCGAGGGTAAAACGA
1 TAATTTTA-AATCGAGGGTAAAACGA
* *
12904467 TAATTTTGTAAA-CTGAGGGTAAAATGG
1 TAA-TTT-TAAATC-GAGGGTAAAACGA
12904494 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAA-TTT-TAAATCGAGGGTAAAACGA
*
12904521 TAATTCTATAAATTGAGGGTA
1 TAATT-T-TAAATCGAGGGTA
12904542 CTTTGGTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.10
27 55 0.87
28 2 0.03
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (25 bp):
TAATTTTAAATCGAGGGTAAAACGA
Found at i:12904484 original size:27 final size:26
Alignment explanation
Indices: 12904454--12904541 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
12904444 TTTCACAATC
12904454 GAGGGTAAAACGATAATTTTGTAAACT
1 GAGGGTAAAACGATAATTTTGTAAA-T
* *
12904481 GAGGGTAAAATGGTAATTTTGTAAAT
1 GAGGGTAAAACGATAATTTTGTAAAT
* *
12904507 CGAGGGTAAAACGATAATTCTATAAATT
1 -GAGGGTAAAACGATAATTTTGTAAA-T
12904535 GAGGGTA
1 GAGGGTA
12904542 CTTTGGTAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.30
Consensus pattern (26 bp):
GAGGGTAAAACGATAATTTTGTAAAT
Found at i:12904564 original size:54 final size:53
Alignment explanation
Indices: 12904440--12904566 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 53
12904430 GGGTATTTCA
* * *
12904440 GTAATTTCACAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
* ***
12904493 GTAATTTTGTA-AATCGAGGGTAAAACGATAATTCTATAAATTGAGGGTACTTTG
1 GTAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
12904547 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAA-TCGAGGG
12904567 CATTTCAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
52 2 0.03
53 9 0.14
54 51 0.81
55 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (53 bp):
GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
Found at i:12921295 original size:50 final size:49
Alignment explanation
Indices: 12921121--12921362 Score: 195
Period size: 50 Copynumber: 4.9 Consensus size: 49
12921111 ATTGTGAGTA
* ** * *
12921121 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTGCCATACTGTTAAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGT-AGAT
* * * * *
12921172 GCA--TGTGTAGTACTAAGTGCATGCTACTATGCGTATTCA-ATGACTTCGAT
1 -CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG--GTAGAT
* *
12921222 CACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT-AGAT
* * *
12921272 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATTGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-GATGGTAGAT
* * * * * *
12921321 CGCATGTGTACTACTAAGTGCAGGCTACCATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
12921363 AGCTTCGGCT
Statistics
Matches: 158, Mismatches: 23, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
49 43 0.27
50 78 0.49
51 35 0.22
52 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGAT
Found at i:12928664 original size:50 final size:50
Alignment explanation
Indices: 12928589--12928825 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
12928579 TGAGTACACG
* *
12928589 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * * **
12928639 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATTCAATGACT-TCGA-TCACA
1 TGTGTAGTACTAAGTGCAGGCTACTA--CGTGTACCA-GACTGTTAAGTCACA
* * * * * **
12928690 TGTGTAGTACTAACTGCAGGCTACTACATGTATCAGA-TGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * * *
12928740 TGTGTAGTATTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* *
12928789 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
12928826 TAGCTTCGGC
Statistics
Matches: 149, Mismatches: 31, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 42 0.28
50 63 0.42
51 30 0.20
52 8 0.05
53 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:12934272 original size:48 final size:48
Alignment explanation
Indices: 12934201--12934572 Score: 507
Period size: 48 Copynumber: 7.8 Consensus size: 48
12934191 ACTGTATTAA
**
12934201 ATGTGCCTA-TGTAAGACCATGTCTGGGACATGGCATCAACGATGATAT
1 ATGTGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
12934249 ATGTGCCAGTGTAAGACTATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
12934297 ATGTGCCTGTGTAAGACCATGTCTGGGGCATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
12934345 GTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
12934393 ATGTTCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
12934441 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGACAATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
12934489 GTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
12934537 GTG-GATTCA-TGTAAGACCATGTCGGGGATATGGCAT
1 ATGTG--CCAGTGTAAGACCATGTCTGGGACATGGCAT
12934573 TGGTACTTTA
Statistics
Matches: 290, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
47 2 0.01
48 287 0.99
49 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:12938609 original size:27 final size:27
Alignment explanation
Indices: 12938579--12938756 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12938569 ATATTGAGTC
* * * *
12938579 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12938606 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12938633 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12938661 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12938688 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12938715 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12938742 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12938757 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12938718 original size:82 final size:81
Alignment explanation
Indices: 12938600--12938755 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12938590 TGCTATATAA
* *
12938600 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12938665 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12938682 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12938746 CACTTAGTGC
65 CACTTAGTGC
12938756 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12947869 original size:24 final size:24
Alignment explanation
Indices: 12947842--12947914 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
12947832 TGCAATCGAT
*
12947842 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
* *
12947866 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
12947890 AGGGTGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
12947914 A
1 A
12947915 ATGTCTTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.47, T:0.12
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCTGTGGAA
Found at i:12953360 original size:35 final size:35
Alignment explanation
Indices: 12953320--12953496 Score: 151
Period size: 35 Copynumber: 5.0 Consensus size: 35
12953310 GTGTGTACAT
12953320 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
12953355 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
12953390 ATGTGATGTTTTATTGAGCTTGTATATCCT-GTCAT
1 ATGTGATGATATATTGAACTTGTATAT-TTGGCCAC
* * * *
12953425 ATATGATGATATATTGTACTTGTATAGTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
12953460 ATCTGATGATATAATGAACCTTG-AGTATTCGGCCAC
1 ATGTGATGATATATTGAA-CTTGTA-TATTTGGCCAC
12953496 A
1 A
12953497 CAAGTAAGTA
Statistics
Matches: 110, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
34 1 0.01
35 95 0.86
36 14 0.13
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:12958450 original size:46 final size:46
Alignment explanation
Indices: 12958389--12958522 Score: 162
Period size: 46 Copynumber: 2.9 Consensus size: 46
12958379 AGGATATTTG
* *
12958389 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-ACGA
* *** * *
12958436 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGAACGA
*
12958482 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12958523 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
46 36 0.51
47 35 0.49
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAACGA
Found at i:12961484 original size:15 final size:15
Alignment explanation
Indices: 12961445--12961524 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
12961435 ATATCTTGGG
*
12961445 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
12961460 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
12961475 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
12961490 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
12961505 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
12961519 TTTCTT
1 TTTCTT
12961525 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:12961514 original size:30 final size:30
Alignment explanation
Indices: 12961436--12961523 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
12961426 CATAGTATCA
* * *
12961436 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
12961466 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
12961496 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
12961524 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:12963252 original size:25 final size:25
Alignment explanation
Indices: 12963224--12963274 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
12963214 TTTTGGTATT
12963224 TTATGATAGAATATGAAGTTTTAAA
1 TTATGATAGAATATGAAGTTTTAAA
12963249 TTATGATAGAATATGAAGTTTTAAA
1 TTATGATAGAATATGAAGTTTTAAA
12963274 T
1 T
12963275 AATTATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (25 bp):
TTATGATAGAATATGAAGTTTTAAA
Found at i:12965238 original size:47 final size:43
Alignment explanation
Indices: 12965156--12965288 Score: 131
Period size: 46 Copynumber: 2.9 Consensus size: 43
12965146 GTAACCCGCC
* * *
12965156 CATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTA
1 CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A--TA
** * *
12965202 CATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CATAACT-GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CATA
*
12965249 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
12965289 CAAATATCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.04
46 32 0.44
47 31 0.43
49 4 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
CATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCATA
Found at i:12965303 original size:46 final size:44
Alignment explanation
Indices: 12965160--12965303 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
12965150 CCCGCCCATA
* * *
12965160 AGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
12965209 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
12965252 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
12965299 AGTGA
1 AGTGA
12965304 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:12967529 original size:40 final size:40
Alignment explanation
Indices: 12967485--12967675 Score: 176
Period size: 40 Copynumber: 4.8 Consensus size: 40
12967475 GGATATAGCT
* * *
12967485 ACTCGCTCGAATGCCTTCGGGACATAGCCTGGATATAGTA
1 ACTCGCACGAATGCCTTCGGGACATAGCCCGGATATAATA
* * * *
12967525 ACTCGCACCAATGCCTTCGGCACTTAGCCCGGACATAATA
1 ACTCGCACGAATGCCTTCGGGACATAGCCCGGATATAATA
*
12967565 ACTCAG-ACGAATGCCTTCGGGA-ATTAGCCCGGGTATAATA
1 ACTC-GCACGAATGCCTTCGGGACA-TAGCCCGGATATAATA
* * *
12967605 ACTCGCAC-AATTGCCTTCGGG-CTTAGCCCGGA-ATTAGTC
1 ACTCGCACGAA-TGCCTTCGGGACATAGCCCGGATA-TAATA
* * * *
12967644 ACTAGCACAAATGCCTTTGGGACTTAGCCCGG
1 ACTCGCACGAATGCCTTCGGGACATAGCCCGG
12967676 TTATCATCCG
Statistics
Matches: 125, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 30 0.24
40 93 0.74
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACATAGCCCGGATATAATA
Found at i:12967607 original size:80 final size:79
Alignment explanation
Indices: 12967492--12967675 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 79
12967482 GCTACTCGCT
* *
12967492 CGAATGCCTTCGGGACA-TAGCCTGGATATAGTAACTCGCACCAA-TGCCTTCGGCACTTAGCCC
1 CGAATGCCTTCGGGA-ATTAGCCCGGATATAATAACTCGCA-CAATTGCCTTCGG-ACTTAGCCC
12967555 GGACA-TAATAACTCAG-A
63 GGA-ATTAATAACT-AGCA
* *
12967572 CGAATGCCTTCGGGAATTAGCCCGGGTATAATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGA
1 CGAATGCCTTCGGGAATTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGACTTAGCCCGGA
* *
12967637 ATTAGTCACTAGCA
66 ATTAATAACTAGCA
* * *
12967651 CAAATGCCTTTGGGACTTAGCCCGG
1 CGAATGCCTTCGGGAATTAGCCCGG
12967676 TTATCATCCG
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 44 0.48
80 44 0.48
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CGAATGCCTTCGGGAATTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGACTTAGCCCGGA
ATTAATAACTAGCA
Found at i:12975647 original size:40 final size:40
Alignment explanation
Indices: 12975577--12975793 Score: 219
Period size: 40 Copynumber: 5.5 Consensus size: 40
12975567 AAGCCAAGTA
* * *
12975577 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
* * *
12975616 CCTTCGGGACATAGCCTGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
12975656 CCTTCGGCACTTAGCCCGGACATAATAACTCGCCCGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
12975696 CCTTCAGGAATTAGCCCGGGTATAATAACTCGCAC-AATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAA-TG
* * *
12975736 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
12975775 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
12975794 TTATCATCCG
Statistics
Matches: 147, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 43 0.29
40 103 0.70
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:12979953 original size:29 final size:30
Alignment explanation
Indices: 12979900--12979957 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
12979890 CAGAAGTTTT
12979900 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
12979930 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
12979958 CGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:12982739 original size:40 final size:40
Alignment explanation
Indices: 12982641--12982903 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
12982631 TCCTCGTTCA
* * * ** *
12982641 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
12982680 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
12982720 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
12982760 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
12982800 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
12982840 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
12982880 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
12982904 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:12991119 original size:37 final size:38
Alignment explanation
Indices: 12991037--12991119 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
12991027 GCAGAGGATA
* * *
12991037 GCTCAACCCTTTGAAGCATCCCAATGGTGGGAAGATTT
1 GCTCAACCCTGTGAAGCATCCAAATGATGGGAAGATTT
*
12991075 GCTCAACCCTGTGGAGCAT-CAAGATGATGGG-AGATTT
1 GCTCAACCCTGTGAAGCATCCAA-ATGATGGGAAGATTT
12991112 GCTCAACC
1 GCTCAACC
12991120 TTTCGGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 16 0.40
38 24 0.60
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (38 bp):
GCTCAACCCTGTGAAGCATCCAAATGATGGGAAGATTT
Found at i:12992763 original size:19 final size:19
Alignment explanation
Indices: 12992735--12992771 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12992725 AGTTGTGATA
*
12992735 TTAAAATTTATAATTCGAG
1 TTAAAATTTACAATTCGAG
*
12992754 TTAAATTTTACAATTCGA
1 TTAAAATTTACAATTCGA
12992772 ATAACTCGAA
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:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (19 bp):
TTAAAATTTACAATTCGAG
Found at i:12994045 original size:32 final size:31
Alignment explanation
Indices: 12993976--12994045 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
12993966 CTCCCTTTTC
12993976 TCTCTT-TTGCTACCGATTTCCCTTCGCCTA
1 TCTCTTGTTGCTACCGATTTCCCTTCGCCTA
*
12994006 T-TTTTGTTGCTACCGAAATTTCCCTT-GCCT-
1 TCTCTTGTTGCTACCG--ATTTCCCTTCGCCTA
12994036 TCCTCTTGTT
1 T-CTCTTGTT
12994046 TGTTTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
29 3 0.09
30 11 0.33
31 4 0.12
32 15 0.45
ACGTcount: A:0.10, C:0.31, G:0.11, T:0.47
Consensus pattern (31 bp):
TCTCTTGTTGCTACCGATTTCCCTTCGCCTA
Found at i:12997196 original size:21 final size:21
Alignment explanation
Indices: 12997172--12997236 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
12997162 CACATAAGTG
12997172 CCCCTATTTGTACTTCGATAC
1 CCCCTATTTGTACTTCGATAC
* * * *
12997193 CCCCGAATTGCACATAC-ATA-
1 CCCCTATTTGTAC-TTCGATAC
* *
12997213 CCCCTATTTGTACTTTGGTAC
1 CCCCTATTTGTACTTCGATAC
12997234 CCC
1 CCC
12997237 TGAATAGCAC
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
19 1 0.03
20 12 0.39
21 16 0.52
22 2 0.06
ACGTcount: A:0.22, C:0.35, G:0.11, T:0.32
Consensus pattern (21 bp):
CCCCTATTTGTACTTCGATAC
Found at i:12997205 original size:41 final size:41
Alignment explanation
Indices: 12997157--12997252 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
12997147 TTATACCCTA
*
12997157 AATTGCACATA-AGTGCCCCTATTTGTACTTCGATACCCCCG
1 AATTGCACATACA-TACCCCTATTTGTACTTCGATACCCCCG
* * *
12997198 AATTGCACATACATACCCCTATTTGTACTTTGGTACCCCTG
1 AATTGCACATACATACCCCTATTTGTACTTCGATACCCCCG
*
12997239 AATAGCACATACAT
1 AATTGCACATACAT
12997253 GCACTATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 48 0.98
42 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.30
Consensus pattern (41 bp):
AATTGCACATACATACCCCTATTTGTACTTCGATACCCCCG
Found at i:13009627 original size:40 final size:40
Alignment explanation
Indices: 13009549--13009628 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
13009539 TGGATAGTAC
** *
13009549 TTGAGTAAGGGACGAGATGTATAAAGTATGTATGAATGAA
1 TTGAGTAAGGGACGAGATGTATAAAGTATACATAAATGAA
13009589 TTGAGTAAGGGACGAGATGTATAAAGTATACATAAATGAA
1 TTGAGTAAGGGACGAGATGTATAAAGTATACATAAATGAA
13009629 AGGAAGAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.26
Consensus pattern (40 bp):
TTGAGTAAGGGACGAGATGTATAAAGTATACATAAATGAA
Found at i:13010624 original size:22 final size:21
Alignment explanation
Indices: 13010599--13010640 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
13010589 GCCTAAATGG
13010599 TCACACAGGCGTGTTGCCCCTC
1 TCACACAGGCGTG-TGCCCCTC
13010621 TCACACAGGCGTGTGCCCCT
1 TCACACAGGCGTGTGCCCCT
13010641 ATGTTAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.14, C:0.40, G:0.24, T:0.21
Consensus pattern (21 bp):
TCACACAGGCGTGTGCCCCTC
Found at i:13011555 original size:20 final size:20
Alignment explanation
Indices: 13011532--13011579 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
13011522 TGATAAAAGT
13011532 TGCATTGGAAGAACAAAAAC
1 TGCATTGGAAGAACAAAAAC
13011552 TGCATTGGAAGAACAAAAAC
1 TGCATTGGAAGAACAAAAAC
13011572 TGCATTGG
1 TGCATTGG
13011580 TGATAAACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.19
Consensus pattern (20 bp):
TGCATTGGAAGAACAAAAAC
Found at i:13012704 original size:31 final size:31
Alignment explanation
Indices: 13012669--13012728 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
13012659 AACAGCCTAT
13012669 TGACTTAAATAG-AAACGTTT-GAATAGTTTGG
1 TGACTT-AATAGAAAAC-TTTCGAATAGTTTGG
*
13012700 TGACTTAATTGAAAACTTTCGAATAGTTT
1 TGACTTAATAGAAAACTTTCGAATAGTTT
13012729 AATGATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (31 bp):
TGACTTAATAGAAAACTTTCGAATAGTTTGG
Found at i:13017238 original size:39 final size:40
Alignment explanation
Indices: 13017193--13017360 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
13017183 CGGGGTTTAG
* * *
13017193 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
13017232 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
13017272 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
13017312 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
13017353 CCGGATAT
1 CCGGATAT
13017361 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:13017343 original size:41 final size:40
Alignment explanation
Indices: 13017216--13017360 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
13017206 CTCGCACAAG
* * * * *
13017216 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
13017256 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
13017296 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
13017337 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
13017361 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:13021178 original size:51 final size:51
Alignment explanation
Indices: 13021092--13021207 Score: 119
Period size: 51 Copynumber: 2.3 Consensus size: 51
13021082 CGGTGCCCTA
* * * * *
13021092 CACATAGTACCACCCTTGTAGTCAAAGCTACCTTTTTCACAAATTGGCCTT-
1 CACATAGTACCACACTTGTAGCCAAAGATACCTTTTACACAAAGTGG-CTTG
* * *
13021143 CACATAGTACCACACTTGT-GACCCAAGATATCTTTTACACATAGTGGCTTG
1 CACATAGTACCACACTTGTAG-CCAAAGATACCTTTTACACAAAGTGGCTTG
*
13021194 CACTTAGTACCACA
1 CACATAGTACCACA
13021208 TATGTGATCG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 4 0.07
51 50 0.93
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (51 bp):
CACATAGTACCACACTTGTAGCCAAAGATACCTTTTACACAAAGTGGCTTG
Found at i:13021214 original size:51 final size:51
Alignment explanation
Indices: 13021147--13021259 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
13021137 GGCCTTCACA
*** *
13021147 TAGTACCACACTTGTGACCCAAGATATCTTTTACACATAGTGGCTTGCACT
1 TAGTACCACACTTGTGACCCAAGATATCGGGTACACATAGTAGCTTGCACT
* * * *
13021198 TAGTACCACA-TATGTGATCGAAGCTATCGGGTACACATCGTAGCTTGCACT
1 TAGTACCACACT-TGTGACCCAAGATATCGGGTACACATAGTAGCTTGCACT
*
13021249 TAGTACTACAC
1 TAGTACCACAC
13021260 ATGCGACCTA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 1 0.02
51 50 0.98
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (51 bp):
TAGTACCACACTTGTGACCCAAGATATCGGGTACACATAGTAGCTTGCACT
Found at i:13027984 original size:28 final size:24
Alignment explanation
Indices: 13027957--13028003 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
13027947 CTTAATAAGT
13027957 AAGTACGTAAATAATTATCAATAA
1 AAGTACGTAAATAATTATCAATAA
13027981 AAGTACGTAAATAATTATCAATA
1 AAGTACGTAAATAATTATCAATA
13028004 TATTAACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.30
Consensus pattern (24 bp):
AAGTACGTAAATAATTATCAATAA
Found at i:13028845 original size:51 final size:50
Alignment explanation
Indices: 13028790--13028963 Score: 161
Period size: 50 Copynumber: 3.4 Consensus size: 50
13028780 ATAGTGGTTA
* * * * *
13028790 GCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAGTAGCCT
1 GCACTTAGTACTACACATGTGACCGAA-CCATCGAGTACACATAGTAGCCT
* * * * *
13028841 GCACTTAGTATTACACATGCGACCTAACCATCTAGTACACGTAGTAGCCT
1 GCACTTAGTACTACACATGTGACCGAACCATCGAGTACACATAGTAGCCT
* ** *
13028891 ACACTTAGTACTACACATGTGACCGAAAACCATTTTA-AACACATAGTAGCCT
1 GCACTTAGTACTACACATGTGACCG--AACCA-TCGAGTACACATAGTAGCCT
* *
13028943 GCACATAGTACTACCCATGTG
1 GCACTTAGTACTACACATGTG
13028964 TTCTCACAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 39 0.39
51 22 0.22
52 36 0.36
53 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
GCACTTAGTACTACACATGTGACCGAACCATCGAGTACACATAGTAGCCT
Found at i:13028952 original size:52 final size:50
Alignment explanation
Indices: 13028830--13028963 Score: 153
Period size: 52 Copynumber: 2.6 Consensus size: 50
13028820 ATCGGGTACG
* * * *
13028830 CATAGTAGCCTGCACTTAGTATTACACATGCGACCTAACCATCTAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAAACCATCTAGAACA
* * *
13028880 CGTAGTAGCCTACACTTAGTACTACACATGTGACCGAAAACCATTTTA-AACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACC--AAACCA-TCTAGAACA
* *
13028932 CATAGTAGCCTGCACATAGTACTACCCATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
13028964 TTCTCACAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 31 0.44
52 36 0.51
53 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCAAACCATCTAGAACA
Found at i:13031878 original size:6 final size:6
Alignment explanation
Indices: 13031869--13031927 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
13031859 TTGAAATTGA
* *
13031869 TATATG TATATA TATATG TATA-- TATATG TATATA TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
13031915 --TATG TATATG TAT
1 TATATG TATATG TAT
13031928 GTTTGAGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 8 0.18
6 37 0.82
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:13031883 original size:10 final size:10
Alignment explanation
Indices: 13031877--13031927 Score: 70
Period size: 10 Copynumber: 5.3 Consensus size: 10
13031867 GATATATGTA
13031877 TATATATATG
1 TATATATATG
13031887 TATATATATG
1 TATATATATG
13031897 TATATATA--
1 TATATATATG
*
13031905 TATGTATATG
1 TATATATATG
*
13031915 TATGTATATG
1 TATATATATG
13031925 TAT
1 TAT
13031928 GTTTGAGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
8 7 0.18
10 31 0.82
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (10 bp):
TATATATATG
Found at i:13031893 original size:22 final size:22
Alignment explanation
Indices: 13031868--13031923 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
13031858 ATTGAAATTG
13031868 ATATATGTATATATATATGTAT
1 ATATATGTATATATATATGTAT
13031890 ATATATGTATATATATATGTAT
1 ATATATGTATATATATATGTAT
*
13031912 ATGTATGTATAT
1 ATATATGTATAT
13031924 GTATGTTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
ATATATGTATATATATATGTAT
Found at i:13033601 original size:25 final size:25
Alignment explanation
Indices: 13033573--13033755 Score: 123
Period size: 25 Copynumber: 7.3 Consensus size: 25
13033563 ATCTAGGAAA
*
13033573 CCTTTATGGCTAATCTTGTGAAAAG
1 CCTTTGTGGCTAATCTTGTGAAAAG
* *
13033598 CCTTTGTGACGTATTATCTAG-G--AAG
1 CCTTTGTGGC-TA--ATCTTGTGAAAAG
13033623 CCTTTGTGGCTAATCTTGTGAAAAG
1 CCTTTGTGGCTAATCTTGTGAAAAG
*
13033648 CCCTTGTTGTG-TATTATCTTG-G--AAG
1 CCTTTG-TG-GCTA--ATCTTGTGAAAAG
* *
13033673 CCATTGTGGCTAATCTTGT-AAGAAA
1 CCTTTGTGGCTAATCTTGTGAA-AAG
* **
13033698 CCTTTGTGGCGTATTCTT-TGGCAAG
1 CCTTTGTGGC-TAATCTTGTGAAAAG
* *
13033723 CCTTTGTGGCTAATGTTGTGGAAAG
1 CCTTTGTGGCTAATCTTGTGAAAAG
13033748 CCTTTGTG
1 CCTTTGTG
13033756 CCATATTATT
Statistics
Matches: 124, Mismatches: 16, Indels: 36
0.70 0.09 0.20
Matches are distributed among these distances:
22 11 0.09
23 2 0.02
24 11 0.09
25 74 0.60
26 12 0.10
27 3 0.02
28 11 0.09
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (25 bp):
CCTTTGTGGCTAATCTTGTGAAAAG
Found at i:13033620 original size:50 final size:50
Alignment explanation
Indices: 13033562--13033836 Score: 252
Period size: 50 Copynumber: 5.5 Consensus size: 50
13033552 AACATGACAC
* *
13033562 TATCTAGGAAACCTTTATGGCTAATCTTGTGAAAAGCCTTTGTGACGTAT
1 TATCTAGGAAACCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTAT
* * * *
13033612 TATCTAGGAAGCCTTTGTGGCTAATCTTGTGAAAAGCCCTTGTTGTGTAT
1 TATCTAGGAAACCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTAT
* * * *
13033662 TATCTTGGAAGCCATTGTGGCTAATCTTGT-AAGAAACCTTTGTGGCGTAT
1 TATCTAGGAAACCTTTGTGGCTAATCTTGTGAA-AAGCCTTTGTGGCGTAT
* * * * * * *
13033712 TCT-TTGGCAAGCCTTTGTGGCTAATGTTGTGGAAAGCCTTTGTGCCATAT
1 TATCTAGG-AAACCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTAT
* * * * * * **
13033762 TAT-T-TGACAATTCTTTGTGACTTATCTTATGAAAAGCCCTTGTGGTATAT
1 TATCTAGGA-AA-CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTAT
*
13033812 TATCTAGGAAACCTTTGTGTCTAAT
1 TATCTAGGAAACCTTTGTGGCTAAT
13033837 TTTTTAAGAA
Statistics
Matches: 183, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 8 0.04
50 168 0.92
51 4 0.02
52 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (50 bp):
TATCTAGGAAACCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTAT
Found at i:13035473 original size:18 final size:18
Alignment explanation
Indices: 13035436--13035475 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13035426 TTGGAAATCA
*
13035436 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
13035454 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
13035472 AAAT
1 AAAT
13035476 ATCATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:13037301 original size:18 final size:18
Alignment explanation
Indices: 13037278--13037313 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13037268 ACCTCAAAAT
13037278 AGAATGAATGGTAAGTTA
1 AGAATGAATGGTAAGTTA
13037296 AGAATGAATGGTAAGTTA
1 AGAATGAATGGTAAGTTA
13037314 CGTACCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (18 bp):
AGAATGAATGGTAAGTTA
Found at i:13043513 original size:28 final size:28
Alignment explanation
Indices: 13043473--13043536 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
13043463 TGTACTAGAG
*
13043473 TACCCCTATGTATGCAAAATTACCAT-TA
1 TACCCCTATGTATGCAAAATGACC-TCTA
*
13043501 TACCCCTCTGTATGCAAAATGACCTCTA
1 TACCCCTATGTATGCAAAATGACCTCTA
13043529 TACCCCTA
1 TACCCCTA
13043537 GGGGTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCTCTA
Found at i:13043742 original size:29 final size:28
Alignment explanation
Indices: 13043662--13043742 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 28
13043652 TGTCACACAT
* * * **
13043662 TATCTGTTCTAGTGGCCCTGCCAC-GTA
1 TATCTGTTCTGGTGACACTGCCACAAAA
*
13043689 TATCTGTTCTGGTGGCACTGCCACAAAA
1 TATCTGTTCTGGTGACACTGCCACAAAA
* *
13043717 TATCTGTATCTGGTGACTCTGTCACA
1 TATCTGT-TCTGGTGACACTGCCACA
13043743 TTTTCTGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 22 0.49
28 8 0.18
29 15 0.33
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (28 bp):
TATCTGTTCTGGTGACACTGCCACAAAA
Found at i:13044219 original size:19 final size:19
Alignment explanation
Indices: 13044195--13044233 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13044185 TTTTAATTAT
* *
13044195 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
13044214 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
13044233 T
1 T
13044234 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:13044657 original size:38 final size:38
Alignment explanation
Indices: 13044606--13044681 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
13044596 CTAAGTAATA
*
13044606 CGGAATGTTTTGTACGCATCAATGTGGCGCACCGGATC
1 CGGAATGTTTTGTACGCATCAATGTGGCACACCGGATC
*
13044644 CGGAATGTTTTGTACGCATCAATGTGGCATACCGGATC
1 CGGAATGTTTTGTACGCATCAATGTGGCACACCGGATC
13044682 TGGTCGTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (38 bp):
CGGAATGTTTTGTACGCATCAATGTGGCACACCGGATC
Found at i:13050582 original size:28 final size:28
Alignment explanation
Indices: 13050524--13050587 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
13050514 TGTACTAGAG
* *
13050524 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATGACCATCA
*
13050552 TACCCCTCTGTATGCAAAATGACC-TCCA
1 TACCCCTATGTATGCAAAATGACCAT-CA
13050580 TACCCCTA
1 TACCCCTA
13050588 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCATCA
Found at i:13050751 original size:27 final size:28
Alignment explanation
Indices: 13050693--13050782 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
13050683 AGGAAGCGTC
*
13050693 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
13050721 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
13050748 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
13050777 CTGGTG
1 CTGGTG
13050783 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:13050793 original size:29 final size:28
Alignment explanation
Indices: 13050703--13050793 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
13050693 CTGGTGGCTA
* * *
13050703 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
13050731 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
13050758 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
13050787 TGTCACA
1 TGCCACA
13050794 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:13050801 original size:55 final size:56
Alignment explanation
Indices: 13050693--13050807 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
13050683 AGGAAGCGTC
* * *
13050693 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
13050748 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
13050804 CTGG
1 CTGG
13050808 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:13054077 original size:48 final size:48
Alignment explanation
Indices: 13053973--13054241 Score: 186
Period size: 48 Copynumber: 5.6 Consensus size: 48
13053963 AATGTAAGCT
* * *
13053973 AGTGTAAGA-CATGTCCGGGACAT-GCAT---CA-GCTATGAGATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACACGATATGAG--GTGTC
13054017 AGTGTAAGACCATGTCTGGGACATGGCATCGACAC-ATATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACACGATAT-GAGGTGTC
* * * * *
13054065 AGTGTAATACCATGTCTGGGACATCGCATCGGCACGGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAC-GATATGAG-GTGTC
* * * * *
13054114 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGA--TAGTT
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-GACACGATAT-GAGGT-GTC
** *
13054164 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGA-G-CT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACACGAT--ATGAGGTGTC
* *
13054211 AGTGTAAGACCATGTTTGGGACATGACATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
13054242 GCATCATACT
Statistics
Matches: 183, Mismatches: 24, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
44 9 0.05
45 13 0.07
46 4 0.02
47 29 0.16
48 43 0.23
49 40 0.22
50 41 0.22
51 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACACGATATGAGGTGTC
Found at i:13054130 original size:98 final size:95
Alignment explanation
Indices: 13053973--13054241 Score: 259
Period size: 99 Copynumber: 2.8 Consensus size: 95
13053963 AATGTAAGCT
* * *
13053973 AGTGTAAGA-CATGTCCGGGACAT-GCATC-AGC-T-ATGAGATGTGTTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATCGCATCGA-CATGATG-GATGAGCTAGTGTAAGACCATGTC
13054033 TGGGACATGGCATCGACAC-ATATAGAGGT-GTC
64 TGGGACATGGCATCGACACGATATAGA--TAGTC
*
13054065 AGTGTAATACCATGTCTGGGACATCGCATCGGCACGGAT-ATGTGA-GAGCTAGTGTAAGACCAT
1 AGTGTAAGACCATGTCTGGGACATCGCATC-G-AC--ATGATG-GATGAGCTAGTGTAAGACCAT
* * * * * *
13054128 GTCTGGGACATGGCGTCGGCCTCGATTTCGATAGTT
61 GTCTGGGACATGGCATC-GACACGATATAGATAGTC
* * *
13054164 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCTAGTGTAAGACCATGTTTG
1 AGTGTAAGACCATGTCTGGGACATCGCATCGACATGATGGATGAGCTAGTGTAAGACCATGTCTG
*
13054229 GGACATGACATCG
66 GGACATGGCATCG
13054242 GCATCATACT
Statistics
Matches: 147, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
92 8 0.05
93 13 0.09
94 5 0.03
95 4 0.03
96 36 0.24
97 3 0.02
98 34 0.23
99 39 0.27
100 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATCGCATCGACATGATGGATGAGCTAGTGTAAGACCATGTCTG
GGACATGGCATCGACACGATATAGATAGTC
Found at i:13060798 original size:20 final size:21
Alignment explanation
Indices: 13060759--13060798 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13060749 GTTATAATGA
* *
13060759 CCACATGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
13060780 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
13060799 GTTTCAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:13062666 original size:14 final size:14
Alignment explanation
Indices: 13062647--13062677 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13062637 ATGAAGGAAG
*
13062647 ATGTAATGTTTACT
1 ATGTAATGGTTACT
13062661 ATGTAATGGTTACT
1 ATGTAATGGTTACT
13062675 ATG
1 ATG
13062678 AGATAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (14 bp):
ATGTAATGGTTACT
Found at i:13072378 original size:46 final size:46
Alignment explanation
Indices: 13072311--13072402 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
13072301 TTATGCTGAC
*
13072311 CTAAAAGGAAATGACATCGAGTTTCAAATTAGTGATAAATTCTTTA
1 CTAAAAAGAAATGACATCGAGTTTCAAATTAGTGATAAATTCTTTA
13072357 CTAAAAAGAAATGACATCGAGTTTCAAATTAGTGATAAATTCTTTA
1 CTAAAAAGAAATGACATCGAGTTTCAAATTAGTGATAAATTCTTTA
13072403 TGAAGGTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (46 bp):
CTAAAAAGAAATGACATCGAGTTTCAAATTAGTGATAAATTCTTTA
Found at i:13073952 original size:24 final size:26
Alignment explanation
Indices: 13073920--13073983 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
13073910 TGCATTGAAC
13073920 TTGATGTATATATG-TATA-T-GTATGT
1 TTGA-GTATATATGATATACTAGTA-GT
13073945 TTGAGTATATAATGATATACTAGTAGT
1 TTGAGTATAT-ATGATATACTAGTAGT
13073972 TTG-GTATATATG
1 TTGAGTATATATG
13073984 GCTAGTATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
24 6 0.17
25 10 0.29
26 10 0.29
27 6 0.17
28 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (26 bp):
TTGAGTATATATGATATACTAGTAGT
Found at i:13073955 original size:26 final size:27
Alignment explanation
Indices: 13073926--13073982 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
13073916 GAACTTGATG
13073926 TATATATG-TATA-T-GTATGTTTGAGTA
1 TATATATGATATACTAGTA-GTTTG-GTA
13073952 TATA-ATGATATACTAGTAGTTTGGTA
1 TATATATGATATACTAGTAGTTTGGTA
13073978 TATAT
1 TATAT
13073983 GGCTAGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
25 3 0.11
26 15 0.56
27 6 0.22
28 3 0.11
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (27 bp):
TATATATGATATACTAGTAGTTTGGTA
Found at i:13076241 original size:26 final size:26
Alignment explanation
Indices: 13076212--13076266 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
13076202 TCAACTACAC
13076212 TAATTATATTATTAAAACCTTAAAAT
1 TAATTATATTATTAAAACCTTAAAAT
* *
13076238 TAATTATATTCTTAAAACTTTAAAAT
1 TAATTATATTATTAAAACCTTAAAAT
13076264 TAA
1 TAA
13076267 CTATTCTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATTATATTATTAAAACCTTAAAAT
Found at i:13076872 original size:9 final size:10
Alignment explanation
Indices: 13076820--13076870 Score: 66
Period size: 11 Copynumber: 4.7 Consensus size: 10
13076810 CACAATAGTC
13076820 CTCTCACAATT
1 CTCTCA-AATT
13076831 CTCTCAGAATT
1 CTCTCA-AATT
13076842 CTCTCGAAATT
1 CTCTC-AAATT
13076853 CTCTCCAAATT
1 CTCT-CAAATT
13076864 CTCTCAA
1 CTCTCAA
13076871 TTTTTGTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
10 3 0.08
11 32 0.86
12 2 0.05
ACGTcount: A:0.27, C:0.33, G:0.04, T:0.35
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:13077114 original size:24 final size:23
Alignment explanation
Indices: 13077066--13077116 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
13077056 TTGAATACTA
13077066 TTTAATTTTTTTCATTTATGGAAT
1 TTTAATTTTTTTCATTTAT-GAAT
*
13077090 TTTAATTATTTTTTATTTTAT-AAT
1 TTTAATT-TTTTTCA-TTTATGAAT
13077114 TTT
1 TTT
13077117 TTATTACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 13 0.54
25 6 0.25
26 5 0.21
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTAATTTTTTTCATTTATGAAT
Found at i:13077710 original size:242 final size:242
Alignment explanation
Indices: 13077285--13077769 Score: 952
Period size: 242 Copynumber: 2.0 Consensus size: 242
13077275 GATAGAGAGG
*
13077285 TCGAGACCCGATACATAGCCTTTCCATCTTCCATGCGGAGAGTGTACTATCACTCTAGAAGACGT
1 TCGAGACCCGATACATAGACTTTCCATCTTCCATGCGGAGAGTGTACTATCACTCTAGAAGACGT
13077350 GAAAATGTAATTGCGATTGCCAGTGGATGGGTATGCAATCACCGGGTCCACTCAATCTGCTGATT
66 GAAAATGTAATTGCGATTGCCAGTGGATGGGTATGCAATCACCGGGTCCACTCAATCTGCTGATT
13077415 GGGGAGTCGTATGCTACGAGCTTTTGGGTGCAATTTCAGATAATATTAACGGAGGTCGGATCAAG
131 GGGGAGTCGTATGCTACGAGCTTTTGGGTGCAATTTCAGATAATATTAACGGAGGTCGGATCAAG
13077480 ATGGGCTGGTTAAGGGACACATTCCCGGAGCCAGATAATGATTTGAC
196 ATGGGCTGGTTAAGGGACACATTCCCGGAGCCAGATAATGATTTGAC
*
13077527 TCGAGACCCGATACGTAGACTTTCCATCTTCCATGCGGAGAGTGTACTATCACTCTAGAAGACGT
1 TCGAGACCCGATACATAGACTTTCCATCTTCCATGCGGAGAGTGTACTATCACTCTAGAAGACGT
13077592 GAAAATGTAATTGCGATTGCCAGTGGATGGGTATGCAATCACCGGGTCCACTCAATCTGCTGATT
66 GAAAATGTAATTGCGATTGCCAGTGGATGGGTATGCAATCACCGGGTCCACTCAATCTGCTGATT
13077657 GGGGAGTCGTATGCTACGAGCTTTTGGGTGCAATTTCAGATAATATTAACGGAGGTCGGATCAAG
131 GGGGAGTCGTATGCTACGAGCTTTTGGGTGCAATTTCAGATAATATTAACGGAGGTCGGATCAAG
13077722 ATGGGCTGGTTAAGGGACACATTCCCGGAGCCAGATAATGATTTGAC
196 ATGGGCTGGTTAAGGGACACATTCCCGGAGCCAGATAATGATTTGAC
13077769 T
1 T
13077770 GAACTAGAAA
Statistics
Matches: 241, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
242 241 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (242 bp):
TCGAGACCCGATACATAGACTTTCCATCTTCCATGCGGAGAGTGTACTATCACTCTAGAAGACGT
GAAAATGTAATTGCGATTGCCAGTGGATGGGTATGCAATCACCGGGTCCACTCAATCTGCTGATT
GGGGAGTCGTATGCTACGAGCTTTTGGGTGCAATTTCAGATAATATTAACGGAGGTCGGATCAAG
ATGGGCTGGTTAAGGGACACATTCCCGGAGCCAGATAATGATTTGAC
Found at i:13079197 original size:21 final size:21
Alignment explanation
Indices: 13079158--13079197 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13079148 TTGCCAGAGG
*
13079158 AACCACAATCCCCGTCGGAGC
1 AACCACAATCCCCGCCGGAGC
13079179 AACCACAA-CCCTCGCCGGA
1 AACCACAATCCC-CGCCGGA
13079198 AGTTGAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.30, C:0.45, G:0.17, T:0.07
Consensus pattern (21 bp):
AACCACAATCCCCGCCGGAGC
Found at i:13079712 original size:17 final size:18
Alignment explanation
Indices: 13079680--13079714 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13079670 AACAAATACC
13079680 AAAATTAAATTAAAAAGT
1 AAAATTAAATTAAAAAGT
*
13079698 AAAATTTAA-TAAAAAGT
1 AAAATTAAATTAAAAAGT
13079715 CCATGCAGTT
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:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAATTAAATTAAAAAGT
Found at i:13083569 original size:39 final size:39
Alignment explanation
Indices: 13083515--13083887 Score: 570
Period size: 39 Copynumber: 9.5 Consensus size: 39
13083505 TAATGGAGAA
13083515 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
13083554 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
13083593 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
13083632 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
13083671 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
13083710 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
13083749 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
13083788 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * * *
13083827 TTATAT-CTGGCTAAAGTCCCGCAGG-GTTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
* *
13083865 TTATGTCTGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
13083888 CATGCTTTGT
Statistics
Matches: 317, Mismatches: 14, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
38 18 0.06
39 289 0.91
40 10 0.03
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Done.