Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 66 of 343
Found at i:21396338 original size:16 final size:16
Alignment explanation
Indices: 21396317--21396358 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21396307 TTATTAAATT
*
21396317 ATATATTTTAATTATA
1 ATATATTTTAATAATA
21396333 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
21396348 AT-TATGTTTAA
1 ATATAT-TTTAA
21396359 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:21396343 original size:15 final size:15
Alignment explanation
Indices: 21396308--21396349 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21396298 TTAAGAATTT
*
21396308 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21396322 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21396336 TATTTAATAATAAT
1 TATTTAATTATAAT
21396350 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21396569 original size:45 final size:44
Alignment explanation
Indices: 21396469--21396578 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
21396459 TTTTCCATTA
21396469 TACTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TACTATTACACCTCTATTCCAATACATTCAACCAAACACAAGAT
* * ***
21396508 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TACTATTACACCTCTATTCCAATACATTCAACCAAACACAAGA-T
*
21396553 TGCTATTACACCTCTATTCCAATACA
1 TACTATTACACCTCTATTCCAATACA
21396579 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 17 0.29
40 1 0.02
44 16 0.28
45 24 0.41
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.33
Consensus pattern (44 bp):
TACTATTACACCTCTATTCCAATACATTCAACCAAACACAAGAT
Found at i:21396580 original size:16 final size:16
Alignment explanation
Indices: 21396559--21396594 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
21396549 GATTTGCTAT
*
21396559 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
21396575 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21396591 TACA
1 TACA
21396595 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21401501 original size:22 final size:21
Alignment explanation
Indices: 21401471--21401517 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
21401461 TACAAATTAA
21401471 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
21401493 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
21401514 ATCT
1 ATCT
21401518 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:21401511 original size:16 final size:16
Alignment explanation
Indices: 21401490--21401540 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
21401480 ATTACAAGAT
21401490 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
21401506 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
21401525 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
21401541 ATATTTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:21401523 original size:19 final size:21
Alignment explanation
Indices: 21401488--21401530 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
21401478 AGATTACAAG
21401488 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
21401509 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
21401528 ATC
1 ATC
21401531 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:21402167 original size:44 final size:43
Alignment explanation
Indices: 21402118--21402687 Score: 468
Period size: 44 Copynumber: 13.0 Consensus size: 43
21402108 CCAGATTTAT
*
21402118 TATCTTCGATTTGTTCCCTATAAATACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
* * *
21402162 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* * ** * * * **
21402205 AATCTTCGATCTGCTTTGCTATAAGCATAGGAATGTTAGATCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCA-ATCTGC
21402250 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
* * *
21402294 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* * ** * * * ** **
21402337 AATTTTCGATCTACTTCGCTGTAATCACAGAAATGTTAGATCTGC
1 TATCTTCGAT-TTGTTCCCTATAAACACAGGGATGCCA-ATCTGC
*
21402382 TATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
* * * *
21402426 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCCGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* * * * * ** *
21402469 AATCTTCGATCTGCTTCGCTGTAATCACA-GGAGTGTTAGGTCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGC
*
21402514 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
* * *
21402558 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* * * * **
21402601 AATCTTCGATTTGCTTCGCTGTAAGCACA-GGAGTGTTAGATCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGC
*
21402646 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCATATCT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA-ATCT
21402688 TGTTTCTTTG
Statistics
Matches: 404, Mismatches: 99, Indels: 46
0.74 0.18 0.08
Matches are distributed among these distances:
42 8 0.02
43 51 0.13
44 277 0.69
45 61 0.15
46 7 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAATCTGC
Found at i:21402279 original size:132 final size:132
Alignment explanation
Indices: 21402118--21402687 Score: 978
Period size: 132 Copynumber: 4.3 Consensus size: 132
21402108 CCAGATTTAT
*
21402118 TATCTTCGATTTGTTCCCTATAAATACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* * *
21402183 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTATAAGCATAGGAATGTTAGATCT
66 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTTAGATCT
21402248 GC
131 GC
21402250 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* * * *
21402315 AAACACAGGGATGCCATGCTGAAATTTTCGATCTACTTCGCTGTAATCACAGAAATGTTAGATCT
66 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTTAGATCT
21402380 GC
131 GC
*
21402382 TATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* * * *
21402447 AAACACAGGGATGCCATGCCGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAGTGTTAGGTCT
66 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTTAGATCT
21402512 GC
131 GC
*
21402514 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* *
21402579 AAACACAGGGATGCCATGCTGAAATCTTCGATTTGCTTCGCTGTAAGCACAGGAGTGTTAGATCT
66 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTTAGATCT
21402644 GC
131 GC
* *
21402646 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCATATCT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
21402688 TGTTTCTTTG
Statistics
Matches: 416, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 416 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (132 bp):
TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTTAGATCT
GC
Found at i:21403600 original size:16 final size:16
Alignment explanation
Indices: 21403579--21403627 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 16
21403569 GGCCTCTCCA
21403579 TTTTTATTTTTTTTTC
1 TTTTTATTTTTTTTTC
21403595 TTTTTACTATTTTTTTTC
1 TTTTTA-T-TTTTTTTTC
21403613 TTTTCT-TTTTTTTTT
1 TTTT-TATTTTTTTTT
21403628 TGAAATAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 14 0.47
17 2 0.07
18 13 0.43
19 1 0.03
ACGTcount: A:0.06, C:0.08, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTATTTTTTTTTC
Found at i:21409307 original size:22 final size:21
Alignment explanation
Indices: 21409277--21409323 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
21409267 TACAAATTAA
21409277 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
21409299 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
21409320 ATCT
1 ATCT
21409324 AAAATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:21409317 original size:16 final size:16
Alignment explanation
Indices: 21409296--21409347 Score: 50
Period size: 19 Copynumber: 3.0 Consensus size: 16
21409286 ATTACAAGAT
21409296 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
*
21409312 CATATCATATCTAAAATTG
1 CATATC-T-TC-AAGATTG
*
21409331 CATATCCTTAAAGATTG
1 CATAT-CTTCAAGATTG
21409348 TATTTCCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 6 0.21
17 7 0.24
18 3 0.10
19 12 0.41
20 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:21409332 original size:19 final size:21
Alignment explanation
Indices: 21409294--21409336 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
21409284 AGATTACAAG
*
21409294 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAAATTGCAT
21409315 ATCATATC-T-AAAATTGCAT
1 ATCATATCTTCAAAATTGCAT
21409334 ATC
1 ATC
21409337 CTTAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAAATTGCAT
Found at i:21410251 original size:31 final size:30
Alignment explanation
Indices: 21410202--21410271 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
21410192 TAATTGAATT
*
21410202 TTAAA-AAAAAATCTTAATAACCTAATGAC
1 TTAAATAAAAAATCCTAATAACCTAATGAC
** *
21410231 TTAAATAAAAAATTCCTAATAATTTAGTGAC
1 TTAAATAAAAAA-TCCTAATAACCTAATGAC
*
21410262 ATAAATAAAA
1 TTAAATAAAA
21410272 TCTTTCGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.15
30 6 0.18
31 23 0.68
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (30 bp):
TTAAATAAAAAATCCTAATAACCTAATGAC
Found at i:21412189 original size:32 final size:32
Alignment explanation
Indices: 21412153--21412215 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
21412143 AAGCCACGCC
21412153 CTTCCTTCCATTTTGTTTTGAAATTCGGCCAG
1 CTTCCTTCCATTTTGTTTTGAAATTCGGCCAG
*
21412185 CTTCCTTCCATTTTGTTTTGAAATTTGGCCA
1 CTTCCTTCCATTTTGTTTTGAAATTCGGCCA
21412216 ACTTTGGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (32 bp):
CTTCCTTCCATTTTGTTTTGAAATTCGGCCAG
Found at i:21413830 original size:37 final size:36
Alignment explanation
Indices: 21413714--21413853 Score: 110
Period size: 37 Copynumber: 3.8 Consensus size: 36
21413704 TAGATTAAAT
* * *
21413714 TTAATATTAAAACTTATTAAAATAATAGATAAACATTAAA
1 TTAATA-TAAAAC-TATTAAGATAATA-TTAAATATT-AA
*
21413754 TTAA-ATTAAA-TATTAAGATAATCACTT-AATATTAA
1 TTAATATAAAACTATTAAGATAAT-A-TTAAATATTAA
21413789 TTAATA-AAATACTATTAAGATAAGTATTAAAT-TTAA
1 TTAATATAAA-ACTATTAAGATAA-TATTAAATATTAA
* *
21413825 TTTAATATTAAACTATTAAAATAATATTA
1 -TTAATATAAAACTATTAAGATAATATTA
21413854 TTTTTGGAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
35 8 0.10
36 29 0.35
37 35 0.42
38 7 0.08
39 1 0.01
40 4 0.05
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (36 bp):
TTAATATAAAACTATTAAGATAATATTAAATATTAA
Found at i:21415477 original size:15 final size:15
Alignment explanation
Indices: 21415457--21415486 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21415447 CTATACATGT
*
21415457 AAAATATAAAAGACA
1 AAAATACAAAAGACA
21415472 AAAATACAAAAGACA
1 AAAATACAAAAGACA
21415487 TAATAGTGAA
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:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:21421180 original size:72 final size:72
Alignment explanation
Indices: 21421058--21421212 Score: 256
Period size: 72 Copynumber: 2.2 Consensus size: 72
21421048 GCGTGTAATT
* * * *
21421058 TACCATTACAACTCATGCCATGTGCCAAATTTATGGTGTATGTATTTCCATGAAATTCGATGCCC
1 TACCCTTACAACTCATGCCATGTGCCAAATTTATGATCTATATATTTCCATGAAATTCGATGCCC
21421123 ATTCTCA
66 ATTCTCA
* *
21421130 TACCCTTACAACTCATGCCATGTGCCAAATTTATGATCTTTATATTTCCATGAAATTCGTTGCCC
1 TACCCTTACAACTCATGCCATGTGCCAAATTTATGATCTATATATTTCCATGAAATTCGATGCCC
21421195 ATTCTCA
66 ATTCTCA
21421202 TACCCTTACAA
1 TACCCTTACAA
21421213 TGCCAATGTC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (72 bp):
TACCCTTACAACTCATGCCATGTGCCAAATTTATGATCTATATATTTCCATGAAATTCGATGCCC
ATTCTCA
Found at i:21432249 original size:18 final size:18
Alignment explanation
Indices: 21432226--21432263 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21432216 TTTGATTATT
*
21432226 TAAAATT-TATTATTATAA
1 TAAAATTATAATATTA-AA
21432244 TAAAATTATAATATTAAA
1 TAAAATTATAATATTAAA
21432262 TA
1 TA
21432264 CTTTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAATTATAATATTAAA
Found at i:21433197 original size:13 final size:13
Alignment explanation
Indices: 21433161--21433189 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21433151 ATTAGCTAAA
21433161 AATTAAAGGAGTT
1 AATTAAAGGAGTT
21433174 AATTAAAGGAGTT
1 AATTAAAGGAGTT
21433187 AAT
1 AAT
21433190 ATATGGAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (13 bp):
AATTAAAGGAGTT
Found at i:21436195 original size:694 final size:694
Alignment explanation
Indices: 21434866--21436250 Score: 2434
Period size: 694 Copynumber: 2.0 Consensus size: 694
21434856 CCCGTTTTTA
21434866 ATGTTCTTCATATTTTTGAAATCCCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
1 ATGTTCTTCATATTTTTGAAATCCCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
* * *
21434931 TGGTTCATGTTTTCAAAATGACCCATGTGTGACATGTTTATTCTTTGATGTTTTATGGAGGAATA
66 GGGTCCATGTTTTCAAAATGACACATGTGTGACATGTTTATTCTTTGATGTTTTATGGAGGAATA
* *
21434996 TGAAAGTTGGATGTGAGTTAAACATCTTTTTCTAGGTGATTTTCATGAAAAACCCCTAAAAGGAC
131 TGAAAGTTGAATGTGAGTTAAACATATTTTTCTAGGTGATTTTCATGAAAAACCCCTAAAAGGAC
*
21435061 CTTTTTGAAAAAGGTGTAAAATATGTGGTAGAAATGTGGAATAATGGAAAATGTGAGCTTTCATA
196 CTTTTTGAAAAAAGTGTAAAATATGTGGTAGAAATGTGGAATAATGGAAAATGTGAGCTTTCATA
* * * *
21435126 AGAGTAAATAACATTTGACTAGGCTTGGGTAATGTATAAATTGTATGCATTTCATTATACAAGCC
261 AGAGGAAATAACATTGGACTAGGCTTGGGTAATGTAGAAATTGCATGCATTTCATTATACAAGCC
*
21435191 TAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGGGAAAAACGATCATTTGGACCAGGGGTGAAA
326 TAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGAGAAAAACGATCATTTGGACCAGGGGTGAAA
21435256 TTTAGACTCGAATAGTATAATGTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAGAA
391 TTTAGACTCGAATAGTATAATGTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAGAA
*
21435321 ACAAATTTCGGAGGTCGATCGAGGAAAACGAAAGGTTTCAGAATAATCGAAACACGATACCAAGA
456 ACAAATTTCGGAGGTCGATCGAGGAAAACAAAAGGTTTCAGAATAATCGAAACACGATACCAAGA
*
21435386 TGAGTACCAGGTAAGTTCGAATAACTTAAAGTAAACTCATAGTATGCTTAATTGCATGGTTTATG
521 CGAGTACCAGGTAAGTTCGAATAACTTAAAGTAAACTCATAGTATGCTTAATTGCATGGTTTATG
* **
21435451 AATGTATGATAATTTCATTTGATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAACAT
586 AATGTATCATAATTGAATTTGATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAACAT
*
21435516 ATCGATAAATGTCCCGATTGAGGTTGAAAAGGAAGTTCGATAGT
651 ATCGATAAATGTCCCGATTGAAGTTGAAAAGGAAGTTCGATAGT
* *
21435560 ATGTTCTTCGTATTTTTGAAATCTCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
1 ATGTTCTTCATATTTTTGAAATCCCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
21435625 GGGTCCATGTTTTCAAAATGACACATGTGTGACATGTTTATTCTTTGATGTTTTATGGAGGAATA
66 GGGTCCATGTTTTCAAAATGACACATGTGTGACATGTTTATTCTTTGATGTTTTATGGAGGAATA
*
21435690 TGAAAGTTGAATGTGAGTTAAACATATTTTTCTAGGTGATTTTCATGAAAAACCCCTATAAGGAC
131 TGAAAGTTGAATGTGAGTTAAACATATTTTTCTAGGTGATTTTCATGAAAAACCCCTAAAAGGAC
* *
21435755 CTTTTTGAAAAAAGTGTAAAATATGTGGTATAAATGTGGAATAATGGAAAATGTGGGCTTTCATA
196 CTTTTTGAAAAAAGTGTAAAATATGTGGTAGAAATGTGGAATAATGGAAAATGTGAGCTTTCATA
*
21435820 AGAGGAAATAACATTCGGA-TAGGCTTGGGTAATGTAGAAATTGCATGCATTTCATTATACGAGC
261 AGAGGAAATAACATT-GGACTAGGCTTGGGTAATGTAGAAATTGCATGCATTTCATTATACAAGC
* *
21435884 CTAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGAGTAAAACTG-TCATTTGGACCGGGGGTGA
325 CTAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGAGAAAAAC-GATCATTTGGACCAGGGGTGA
*
21435948 AATTTAGACTCGAATAGTATAATTTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAG
389 AATTTAGACTCGAATAGTATAATGTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAG
* * *
21436013 GAACAAA-TTCTGGAGGTCGATCGAGGGAAACAAAAGGTTTCAGAATAATCGAAACACGATACCG
454 AAACAAATTTC-GGAGGTCGATCGAGGAAAACAAAAGGTTTCAGAATAATCGAAACACGATACCA
*
21436077 AGACGAGTACTAGGTAAGTTCGAATAACTTAAAGTAAACTCATAGTATGCTTAATTGCATGGTTT
518 AGACGAGTACCAGGTAAGTTCGAATAACTTAAAGTAAACTCATAGTATGCTTAATTGCATGGTTT
*
21436142 ATGAATGTATCATAATTGAATTTTATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAA
583 ATGAATGTATCATAATTGAATTTGATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAA
*
21436207 CATATTGATAAATGTCCCGATTGAAGTTGAAAAGGAAGTTCGAT
648 CATATCGATAAATGTCCCGATTGAAGTTGAAAAGGAAGTTCGAT
21436251 GGATGAGCCA
Statistics
Matches: 656, Mismatches: 32, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
693 3 0.00
694 650 0.99
695 3 0.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (694 bp):
ATGTTCTTCATATTTTTGAAATCCCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
GGGTCCATGTTTTCAAAATGACACATGTGTGACATGTTTATTCTTTGATGTTTTATGGAGGAATA
TGAAAGTTGAATGTGAGTTAAACATATTTTTCTAGGTGATTTTCATGAAAAACCCCTAAAAGGAC
CTTTTTGAAAAAAGTGTAAAATATGTGGTAGAAATGTGGAATAATGGAAAATGTGAGCTTTCATA
AGAGGAAATAACATTGGACTAGGCTTGGGTAATGTAGAAATTGCATGCATTTCATTATACAAGCC
TAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGAGAAAAACGATCATTTGGACCAGGGGTGAAA
TTTAGACTCGAATAGTATAATGTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAGAA
ACAAATTTCGGAGGTCGATCGAGGAAAACAAAAGGTTTCAGAATAATCGAAACACGATACCAAGA
CGAGTACCAGGTAAGTTCGAATAACTTAAAGTAAACTCATAGTATGCTTAATTGCATGGTTTATG
AATGTATCATAATTGAATTTGATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAACAT
ATCGATAAATGTCCCGATTGAAGTTGAAAAGGAAGTTCGATAGT
Found at i:21445249 original size:45 final size:46
Alignment explanation
Indices: 21445184--21445301 Score: 159
Period size: 45 Copynumber: 2.6 Consensus size: 46
21445174 AAAAAAAATG
21445184 AGTAAGACCATAGCTAAAAGACGCTATGGCACCACGAATCAAAC-A
1 AGTAAGACCATAGCTAAAAGACGCTATGGCACCACGAATCAAACGA
* * * * *
21445229 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAAACGT
1 AGTAAGACCATAGCTAAAAGACGCTATGGCACCACGAATCAAACGA
* *
21445275 A-TAATACCATAGCTAAAAGACACTATG
1 AGTAAGACCATAGCTAAAAGACGCTATG
21445302 ACACTATACC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 62 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (46 bp):
AGTAAGACCATAGCTAAAAGACGCTATGGCACCACGAATCAAACGA
Found at i:21446144 original size:21 final size:21
Alignment explanation
Indices: 21446114--21446155 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21446104 CTGTGTGTGG
21446114 CACACAGCCTCTTCACACGGC
1 CACACAGCCTCTTCACACGGC
* *
21446135 CACACGGCCTCTTTACACGGC
1 CACACAGCCTCTTCACACGGC
21446156 TATGTGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.45, G:0.17, T:0.17
Consensus pattern (21 bp):
CACACAGCCTCTTCACACGGC
Found at i:21459644 original size:46 final size:46
Alignment explanation
Indices: 21459392--21459658 Score: 356
Period size: 46 Copynumber: 5.8 Consensus size: 46
21459382 AATGCCATAA
**
21459392 TATCTTTCAACCATGGTCTTATTCATTTCATGTC-GCGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATGTCAG-GTTGCCATGG
** ** * *
21459438 TATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTACCATGG
1 TATCTTTCAACCATGGTCTTACACA-TTTCATGTCAGGTTGCCATGG
* ** *
21459485 TATCTTTCAACCCTGGTCTTATTCATTTCATGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGG
*
21459531 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGG
* *
21459577 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCGATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGG
* *
21459623 TATCTTTCAACCATGGTCTTACATATTTCATTTCAG
1 TATCTTTCAACCATGGTCTTACACATTTCATGTCAG
21459659 AGAGCACACT
Statistics
Matches: 203, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 163 0.80
47 40 0.20
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGG
Found at i:21461492 original size:21 final size:21
Alignment explanation
Indices: 21461468--21461507 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21461458 ATAATTTAAT
*
21461468 TAATAAATATATTTTATAAAA
1 TAATAAATATATATTATAAAA
21461489 TAATAAATATATATTATAA
1 TAATAAATATATATTATAA
21461508 TTAAAATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAAATATATATTATAAAA
Found at i:21461512 original size:25 final size:25
Alignment explanation
Indices: 21461453--21461514 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 25
21461443 AAATCTTATA
* * *
21461453 ATATAATAATTTAATTAATAAATAT
1 ATATTATAATTAAAATAATAAATAT
21461478 AT-TT-T-A-TAAAATAATAAATAT
1 ATATTATAATTAAAATAATAAATAT
21461499 ATATTATAATTAAAAT
1 ATATTATAATTAAAAT
21461515 CTAAGTAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 15 0.50
22 3 0.10
23 2 0.07
24 2 0.07
25 8 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTATAATTAAAATAATAAATAT
Found at i:21463862 original size:27 final size:26
Alignment explanation
Indices: 21463828--21463918 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 26
21463818 TAGTATATAT
*
21463828 TATTTTTAT-TTATATATTATCCATTA
1 TATTTTTATATTAT-TATTATACATTA
*
21463854 TATTATTTATATTATTATTATACATTT
1 TATT-TTTATATTATTATTATACATTA
* * *
21463881 TATTTATAAATT-TTATTATATATTA
1 TATTTTTATATTATTATTATACATTA
21463906 TATGTTATTATAT
1 TAT-TT-TTATAT
21463919 ATACTATTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
25 14 0.26
26 12 0.23
27 23 0.43
28 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (26 bp):
TATTTTTATATTATTATTATACATTA
Found at i:21463883 original size:24 final size:23
Alignment explanation
Indices: 21463831--21463888 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
21463821 TATATATTAT
*
21463831 TTTTATTTATATATTATCCATTA
1 TTTTATTTATATATTATCCATCA
* *
21463854 TATTATTTATATTATTAT-TATACA
1 TTTTATTTATA-TATTATCCAT-CA
21463878 TTTTATTTATA
1 TTTTATTTATA
21463889 AATTTTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATTTATATATTATCCATCA
Found at i:21464120 original size:10 final size:10
Alignment explanation
Indices: 21464059--21464126 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
21464049 ATATTTATTG
21464059 TATTATT-TA
1 TATTATTATA
21464068 TATTTCATTATA
1 TA-TT-ATTATA
*
21464080 TTTTATT-TA
1 TATTATTATA
*
21464089 TA-TATTGTA
1 TATTATTATA
*
21464098 TTACTTATCATA
1 -TA-TTATTATA
21464110 TATTATTATA
1 TATTATTATA
21464120 TATTATT
1 TATTATT
21464127 CCCTATATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
8 4 0.09
9 7 0.15
10 21 0.45
11 7 0.15
12 8 0.17
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (10 bp):
TATTATTATA
Found at i:21476667 original size:44 final size:44
Alignment explanation
Indices: 21476612--21476707 Score: 147
Period size: 44 Copynumber: 2.2 Consensus size: 44
21476602 TACAAGGAGC
* * *
21476612 AGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCATAGAGA
1 AGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGA
* *
21476656 AGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGA
21476700 AGATCGAA
1 AGATCGAA
21476708 ATATCAGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGA
Found at i:21476677 original size:220 final size:219
Alignment explanation
Indices: 21476207--21476707 Score: 679
Period size: 220 Copynumber: 2.3 Consensus size: 219
21476197 CCTTCAGGTG
* * *
21476207 TTTACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAA
1 TTTACGATGAAGAAGATCGAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAA
* *
21476272 TAGATTTGGCATCTCTATATTCGACGGAAAGCAGATCGAAGACATGGCAGATCTAACCTTTGGAT
66 CAGATTTGGCATCTCTATATTCGACGGAAAGCAGATCGAAGACATGGCAGATCTAACCTTTAGAT
* * * *
21476337 GTTTTTACATCGAAGTAGATCCAAGATGATTTGGTATCCTTGCGTTTATAAGGAGCAGATCGAAG
131 GTTTTTACATCGAAGCAGATCCAAAATGATTTAGTATCCTTGCGTTTACAAGGAGCAGATCGAAG
* * *
21476402 ACGTAGCAGATTTGGCTTTTATGTG
196 AC-TAGCAGATTTGGCGTCTATGTA
* * * *
21476427 TTTACGCTGAAGTAGATCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGAAA
1 TTTACGATGAAGAAGATCGAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAA
* *
21476492 CAGATTTGGCATCTCTATATTCGACGGAGAGTAGATCGAAGACAT-GCAGATCTAACCTTTAGAT
66 CAGATTTGGCATCTCTATATTCGACGGAAAGCAGATCGAAGACATGGCAGATCTAACCTTTAGAT
* * *
21476556 GTTTTTGCATCGAAGCAGATCCAAAATGATTTAGTATCCTTGTGTTTACAAGGAGCAGATTGAAG
131 GTTTTTACATCGAAGCAGATCCAAAATGATTTAGTATCCTTGCGTTTACAAGGAGCAGATCGAAG
*
21476621 A-TAGCAGATTTGGCGTCTCTGTA
196 ACTAGCAGATTTGGCGTCTATGTA
* * *
21476644 TTGT-C-AT-AGAGAAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTCAGAGAGCAGATCG
1 TT-TACGATGA-AGAAGATCGAAGAT----GATTTGGCATCTCTGTATTGTCAGAGAACAAATCG
21476706 AA
60 AA
21476708 ATATCAGCAT
Statistics
Matches: 251, Mismatches: 24, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
215 1 0.00
216 13 0.05
217 21 0.08
218 1 0.00
219 77 0.31
220 138 0.55
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (219 bp):
TTTACGATGAAGAAGATCGAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAA
CAGATTTGGCATCTCTATATTCGACGGAAAGCAGATCGAAGACATGGCAGATCTAACCTTTAGAT
GTTTTTACATCGAAGCAGATCCAAAATGATTTAGTATCCTTGCGTTTACAAGGAGCAGATCGAAG
ACTAGCAGATTTGGCGTCTATGTA
Found at i:21478296 original size:29 final size:27
Alignment explanation
Indices: 21478264--21478349 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 27
21478254 TAAAATAGTA
* *
21478264 TATATCATTTTTATTTATATATTATCCAT
1 TATATCATTTATA-TTAT-TATTATACAT
*
21478293 TATATTATTTATATTATTATTATACAT
1 TATATCATTTATATTATTATTATACAT
*
21478320 T-T-T-ATTTATAAATT-TTATTATATAT
1 TATATCATTTAT--ATTATTATTATACAT
21478345 TATAT
1 TATAT
21478350 GTTATTATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
24 6 0.12
25 12 0.24
26 5 0.10
27 11 0.22
28 4 0.08
29 11 0.22
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (27 bp):
TATATCATTTATATTATTATTATACAT
Found at i:21478303 original size:27 final size:27
Alignment explanation
Indices: 21478273--21478349 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
21478263 ATATATCATT
*
21478273 TTTAT-TTATATATTATCCATTATATTA
1 TTTATATTAT-TATTATACATTATATTA
*
21478300 TTTATATTATTATTATACATTTTATT-
1 TTTATATTATTATTATACATTATATTA
* * *
21478326 TATAAATT-TTATTATATATTATAT
1 TTTATATTATTATTATACATTATAT
21478350 GTTATTATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
25 14 0.33
26 6 0.14
27 19 0.44
28 4 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTATATTATTATTATACATTATATTA
Found at i:21478324 original size:24 final size:23
Alignment explanation
Indices: 21478267--21478329 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
21478257 AATAGTATAT
21478267 ATCATTTTTATTTATATATTATCC
1 ATCA-TTTTATTTATATATTATCC
* * *
21478291 ATTATATTATTTATATTATTAT-T
1 ATCATTTTATTTATA-TATTATCC
21478314 ATACATTTTATTTATA
1 AT-CATTTTATTTATA
21478330 AATTTTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (23 bp):
ATCATTTTATTTATATATTATCC
Found at i:21478568 original size:10 final size:10
Alignment explanation
Indices: 21478501--21478568 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
21478491 ATATTTATTG
21478501 TATTATT-TA
1 TATTATTATA
21478510 TATTTCATTATA
1 TA-TT-ATTATA
*
21478522 TTTTATTTATA
1 TATTA-TTATA
21478533 TATT-TTAT-
1 TATTATTATA
*
21478541 TACTTATCATA
1 TA-TTATTATA
*
21478552 TAATATTATA
1 TATTATTATA
21478562 TATTATT
1 TATTATT
21478569 CCCTATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
8 2 0.04
9 8 0.17
10 18 0.39
11 15 0.33
12 3 0.07
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTATA
Found at i:21482251 original size:46 final size:46
Alignment explanation
Indices: 21482201--21482376 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
21482191 TGGTTGAGCA
21482201 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21482247 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21482292 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
21482340 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21482377 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21482357 original size:93 final size:93
Alignment explanation
Indices: 21482198--21482369 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
21482188 GGATGGTTGA
*
21482198 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
21482263 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21482291 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
21482355 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
21482370 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21489796 original size:46 final size:46
Alignment explanation
Indices: 21489746--21489923 Score: 195
Period size: 46 Copynumber: 3.8 Consensus size: 46
21489736 TGGTTGAGCA
21489746 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21489792 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21489837 CATCCGAACTCGTTTGAGTTGAGTCGCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCG-TTGAGTTGAGTC-CGAGTTCACTTATGGATGCGAATG
* *
21489887 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21489924 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 43 0.39
47 24 0.22
48 18 0.16
49 7 0.06
50 3 0.03
52 4 0.04
53 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21489904 original size:95 final size:93
Alignment explanation
Indices: 21489743--21489916 Score: 296
Period size: 95 Copynumber: 1.8 Consensus size: 93
21489733 GGATGGTTGA
*
21489743 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
21489808 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21489836 GCATCCGAACTCGTTTGAGTTGAGTCGCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTG
1 GCATCCGAACTCG-TTGAGTTGAGTC-CGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTG
21489900 AGTTGAGTCCGAGTTCG
63 AGTTGAGTCCGAGTTCG
21489917 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
93 13 0.17
94 14 0.18
95 49 0.64
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21491744 original size:46 final size:46
Alignment explanation
Indices: 21491446--21491759 Score: 439
Period size: 46 Copynumber: 6.8 Consensus size: 46
21491436 GATGCCATAA
** * *
21491446 TATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
** *** *
21491492 TATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGG
* ** * *
21491539 TATCTTTCAACCCTGGTCTTATTCATTTCATGTCAGGTTGCCATAG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
21491585 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
* *
21491631 TATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
*
21491677 GATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
* *
21491723 TATCTTTCAACCATGGTCTTACATATTTCATTTCAGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGG
21491760 GAGCACACTC
Statistics
Matches: 246, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 204 0.83
47 42 0.17
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
Found at i:21493543 original size:21 final size:21
Alignment explanation
Indices: 21493517--21493556 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21493507 ATTATTTAAT
* *
21493517 TAATAAATATCTTTTATAAAA
1 TAATAAATATATATTATAAAA
21493538 TAATAAATATATATTATAA
1 TAATAAATATATATTATAA
21493557 TTAAAATCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAAATATATATTATAAAA
Found at i:21496284 original size:43 final size:43
Alignment explanation
Indices: 21496236--21496322 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
21496226 AATAATTTGA
* * *
21496236 TCACAATTTTCAAAATTTATATTTGCATACAATTATTTAATTT
1 TCACAATTTTCAAAATTCATATTTACATACAATCATTTAATTT
* *
21496279 TCACAATTTTCAAGATTCCTATTTACATACAATCATTTAATTT
1 TCACAATTTTCAAAATTCATATTTACATACAATCATTTAATTT
21496322 T
1 T
21496323 TAACAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (43 bp):
TCACAATTTTCAAAATTCATATTTACATACAATCATTTAATTT
Found at i:21498188 original size:42 final size:42
Alignment explanation
Indices: 21498099--21498208 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
21498089 TCTCACTTAT
* * * *
21498099 ATGCCATATCCCAAAATGGTCTTATACGAATTCTCATTTCGA
1 ATGCCATATCCCAAAATAGTCTTACACGAAATCTCATATCGA
* * *
21498141 A-GCCATGTCCCAAACGTAGTCTTACACGAAATCTCGTATC-A
1 ATGCCATATCCCAAA-ATAGTCTTACACGAAATCTCATATCGA
* *
21498182 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCA-AAATAGTCTTACA
21498209 TGATAACTCA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
41 14 0.26
42 39 0.72
43 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAAAATAGTCTTACACGAAATCTCATATCGA
Found at i:21503456 original size:21 final size:21
Alignment explanation
Indices: 21503431--21503473 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21503421 GTACTAAGAG
21503431 TCAGATTATAGTTTGTCCCTT
1 TCAGATTATAGTTTGTCCCTT
21503452 TCAGATTATAGTTTGTCCCTT
1 TCAGATTATAGTTTGTCCCTT
21503473 T
1 T
21503474 TACTCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (21 bp):
TCAGATTATAGTTTGTCCCTT
Found at i:21510909 original size:104 final size:105
Alignment explanation
Indices: 21510729--21510996 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
21510719 TAACCGTTAT
* **
21510729 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
21510794 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
21510833 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
21510898 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
21510938 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21510997 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 82 0.53
105 71 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:21511355 original size:29 final size:29
Alignment explanation
Indices: 21511322--21511385 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21511312 TAATCCACCA
21511322 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
21511351 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
21511381 CCCAA
1 CCCAA
21511386 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:21511359 original size:30 final size:30
Alignment explanation
Indices: 21511329--21511385 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21511319 CCACCCAACT
21511329 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
21511358 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
21511386 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:21518370 original size:105 final size:104
Alignment explanation
Indices: 21518120--21518387 Score: 457
Period size: 104 Copynumber: 2.6 Consensus size: 104
21518110 TAGCCGTTAT
* *
21518120 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
21518185 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
21518224 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
21518288 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
21518329 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21518388 TTTATATACA
Statistics
Matches: 154, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
104 82 0.53
105 71 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:21518748 original size:29 final size:29
Alignment explanation
Indices: 21518715--21518778 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21518705 TAATCCACCA
21518715 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
21518744 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
21518774 CCCAA
1 CCCAA
21518779 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:21518752 original size:30 final size:30
Alignment explanation
Indices: 21518722--21518778 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21518712 CCACCCAACT
21518722 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
21518751 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
21518779 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:21522832 original size:18 final size:18
Alignment explanation
Indices: 21522794--21522834 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
21522784 GGCCTAGAAT
*
21522794 ATTTG-GAAAGATTATTT
1 ATTTGAGAAAGATTATTA
21522811 ATTTGAGAAA-ATTAGTTA
1 ATTTGAGAAAGATTA-TTA
21522829 ATTTGA
1 ATTTGA
21522835 TAGATTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
ATTTGAGAAAGATTATTA
Found at i:21525564 original size:13 final size:13
Alignment explanation
Indices: 21525528--21525567 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
21525518 AGTTTGGCAA
21525528 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
21525541 TGATGTGGAAAAG
1 TGCTTTTGAAAAG
21525554 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
21525567 T
1 T
21525568 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:21527350 original size:34 final size:34
Alignment explanation
Indices: 21527306--21527373 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
21527296 GCACAGTTGA
* *
21527306 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
21527341 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
21527374 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:21532315 original size:25 final size:24
Alignment explanation
Indices: 21532283--21532331 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
21532273 TTTTTAGTAC
**
21532283 AACTTACTACCTATAGTAGTTTCA
1 AACTTACTACCTATAACAGTTTCA
*
21532307 AACTATACTATCTATAACAGTTTCA
1 AACT-TACTACCTATAACAGTTTCA
21532332 GTTTAAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (24 bp):
AACTTACTACCTATAACAGTTTCA
Found at i:21547646 original size:23 final size:23
Alignment explanation
Indices: 21547613--21547765 Score: 121
Period size: 23 Copynumber: 6.7 Consensus size: 23
21547603 CTCACCACAA
*
21547613 CTCGTATGAGCTTACCGATTCAG
1 CTCGTAAGAGCTTACCGATTCAG
***
21547636 CTCGTAAGAGCTTACTTTTTCAG
1 CTCGTAAGAGCTTACCGATTCAG
* **
21547659 CTCATTGGAGCTTACCGATTCAG
1 CTCGTAAGAGCTTACCGATTCAG
* * *
21547682 CTTGCAAGAGCTTA-CTATTTCAG
1 CTCGTAAGAGCTTACCGA-TTCAG
* ** *
21547705 CTCATTGGAGCTTACTGATTCAG
1 CTCGTAAGAGCTTACCGATTCAG
*
21547728 CTCG-ATAGAGCTTACCGTTTCAG
1 CTCGTA-AGAGCTTACCGATTCAG
* *
21547751 CTCATTAGAGCTTAC
1 CTCGTAAGAGCTTAC
21547766 TATCCACAGC
Statistics
Matches: 96, Mismatches: 30, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
22 2 0.02
23 93 0.97
24 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (23 bp):
CTCGTAAGAGCTTACCGATTCAG
Found at i:21547691 original size:46 final size:45
Alignment explanation
Indices: 21547620--21547765 Score: 211
Period size: 46 Copynumber: 3.2 Consensus size: 45
21547610 CAACTCGTAT
*
21547620 GAGCTTACCGATTCAGCTCGTAAGAGCTTACTTTTTCAGCTCATTG
1 GAGCTTACCGATTCAGCTCG-AAGAGCTTACTATTTCAGCTCATTG
*
21547666 GAGCTTACCGATTCAGCTTGCAAGAGCTTACTATTTCAGCTCATTG
1 GAGCTTACCGATTCAGCTCG-AAGAGCTTACTATTTCAGCTCATTG
* ** *
21547712 GAGCTTACTGATTCAGCTCGATAGAGCTTACCGTTTCAGCTCATTA
1 GAGCTTACCGATTCAGCTCGA-AGAGCTTACTATTTCAGCTCATTG
21547758 GAGCTTAC
1 GAGCTTAC
21547766 TATCCACAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 90 0.99
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (45 bp):
GAGCTTACCGATTCAGCTCGAAGAGCTTACTATTTCAGCTCATTG
Found at i:21549925 original size:25 final size:25
Alignment explanation
Indices: 21549888--21549936 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
21549878 TTATTTTTGA
*
21549888 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATCCTGAAACTACTATAGG
* *
21549913 TAGTATATGCTGAGACTACTATAG
1 TAGTATATCCTGAAACTACTATAG
21549937 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (25 bp):
TAGTATATCCTGAAACTACTATAGG
Found at i:21551588 original size:39 final size:39
Alignment explanation
Indices: 21551529--21551668 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
21551519 ATCGTGATCT
* * * *
21551529 GAAGCCTGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
21551568 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
21551607 GAAGCTCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
21551646 GAAGCCCCAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
21551669 TCATCAGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:21558496 original size:39 final size:39
Alignment explanation
Indices: 21558436--21558575 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
21558426 ATCGTGATCT
* ** *
21558436 GAAGCCCGAAGTCTAGTTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
21558475 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGTTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
21558514 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
21558553 AAAGCCCGAAGGCTAATTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
21558576 TCATTAAAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:21558573 original size:19 final size:19
Alignment explanation
Indices: 21558515--21558573 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
21558505 TGTTAAACAG
*
21558515 AAGCCCGAAGGCTAACTG-
1 AAGCCCGAAGGCTAAATGA
21558533 AAGCACAC-AAGTGCTAAATGA
1 AAGC-C-CGAAG-GCTAAATGA
*
21558554 AAGCCCGAAGGCTAATTGA
1 AAGCCCGAAGGCTAAATGA
21558573 A
1 A
21558574 GCTCATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 4 0.12
19 14 0.41
20 12 0.35
21 4 0.12
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.14
Consensus pattern (19 bp):
AAGCCCGAAGGCTAAATGA
Found at i:21570598 original size:2 final size:2
Alignment explanation
Indices: 21570591--21570620 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21570581 GAATCTCCCC
21570591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21570621 CTTTGGCAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21571726 original size:20 final size:20
Alignment explanation
Indices: 21571684--21571728 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
21571674 ATATGCCACG
*
21571684 AAGGCTAACAAAATGCCTTA
1 AAGGCTAACAAAATGCCTCA
21571704 AAGGCTAACAAAATG-CTACA
1 AAGGCTAACAAAATGCCT-CA
21571724 AAGGC
1 AAGGC
21571729 CCAATCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.16
Consensus pattern (20 bp):
AAGGCTAACAAAATGCCTCA
Found at i:21581190 original size:39 final size:39
Alignment explanation
Indices: 21581125--21581323 Score: 294
Period size: 39 Copynumber: 5.1 Consensus size: 39
21581115 AATTATATTA
* *
21581125 CCAGCACAAAACCTGCG-GAACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGAG-ACTTTAGCCCGGATACATTT
* *
21581164 CCAACACGAAGCCTGCGAGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
*
21581203 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
*
21581242 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
* *
21581281 CTAGCACAAAGCCTGC-AGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGA-GACTTTAGCCCGGATACATTT
21581320 CCAG
1 CCAG
21581324 TGTCTTGAAT
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 146 0.99
40 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
Found at i:21581254 original size:78 final size:78
Alignment explanation
Indices: 21581125--21581323 Score: 326
Period size: 78 Copynumber: 2.6 Consensus size: 78
21581115 AATTATATTA
* * *
21581125 CCAGCACAAAACCTGCGGAACTTTAGCCCGGATACATTTCCAACACGAAGCCTGCGAGACTTTAG
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGACTTTAG
21581190 CCCAGATACATTT
66 CCCAGATACATTT
* *
21581203 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGACTTTAG
*
21581268 CCCGGATACATTT
66 CCCAGATACATTT
* *
21581281 CTAGCACAAAGCCTGCAGGACTTTAGCCCGGATACATTTCCAG
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
21581324 TGTCTTGAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 112 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (78 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGACTTTAG
CCCAGATACATTT
Found at i:21585380 original size:64 final size:64
Alignment explanation
Indices: 21585279--21585409 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 64
21585269 AAACAAACCG
*
21585279 TACGCTGAGTATACACCCGGTGGTATTACTATAATTCAAATACTTATGGTAAAAACAATATATA
1 TACGCTGAGTATACACCCGGTAGTATTACTATAATTCAAATACTTATGGTAAAAACAATATATA
*
21585343 TACGCTGAGTATACACCCGGTATTATTACTATAATTCAAATACTTATGGTAAAAACAATATATA
1 TACGCTGAGTATACACCCGGTAGTATTACTATAATTCAAATACTTATGGTAAAAACAATATATA
21585407 TAC
1 TAC
21585410 ACATTAAATC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (64 bp):
TACGCTGAGTATACACCCGGTAGTATTACTATAATTCAAATACTTATGGTAAAAACAATATATA
Found at i:21586364 original size:18 final size:17
Alignment explanation
Indices: 21586337--21586412 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 17
21586327 AAATTCACAT
21586337 TTCAAA-TCACTTTCAA
1 TTCAAATTCACTTTCAA
*
21586353 TGTCAATTTCACTTTCAA
1 T-TCAAATTCACTTTCAA
21586371 TTCAAATTCA----CAA
1 TTCAAATTCACTTTCAA
* *
21586384 -TC-AATTCTCATTCAA
1 TTCAAATTCACTTTCAA
21586399 TTCAAATTCACTTT
1 TTCAAATTCACTTT
21586413 TCCACTTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
11 5 0.11
12 2 0.04
13 3 0.06
15 3 0.06
16 3 0.06
17 20 0.43
18 11 0.23
ACGTcount: A:0.34, C:0.24, G:0.01, T:0.41
Consensus pattern (17 bp):
TTCAAATTCACTTTCAA
Found at i:21588114 original size:24 final size:25
Alignment explanation
Indices: 21588086--21588132 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
21588076 AATAACATTA
*
21588086 ATAATAATATTTA-AATAAAAAACC
1 ATAATAATAATTATAATAAAAAACC
21588110 ATAATAATAATTATAATAAAAAA
1 ATAATAATAATTATAATAAAAAA
21588133 TTGATAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAATAATAATTATAATAAAAAACC
Found at i:21588141 original size:20 final size:21
Alignment explanation
Indices: 21588114--21588160 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
21588104 AAAACCATAA
21588114 TAATAATTATAATA-AAAAAT
1 TAATAATTATAATAGAAAAAT
* * *
21588134 TGATAATTGTTATAGAAAAAT
1 TAATAATTATAATAGAAAAAT
21588155 TAATAA
1 TAATAA
21588161 AACAATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (21 bp):
TAATAATTATAATAGAAAAAT
Found at i:21590002 original size:93 final size:93
Alignment explanation
Indices: 21589889--21590060 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
21589879 CGCCCATAAG
* * * *
21589889 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
21589954 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
*
21589982 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21590047 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
21590061 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:21590057 original size:46 final size:45
Alignment explanation
Indices: 21589882--21590057 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
21589872 TGTAACCCGC
* *
21589882 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAC-ATTGCAT
* * * *
21589928 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTGCAT
* * *
21589978 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATT-GCAT
*
21590021 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
21590058 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 29 0.27
48 1 0.01
49 1 0.01
50 5 0.05
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTGCAT
Found at i:21595928 original size:20 final size:20
Alignment explanation
Indices: 21595903--21595943 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21595893 GAAAAGAGAT
21595903 AGAATTTTAGGTTGGTGATA
1 AGAATTTTAGGTTGGTGATA
21595923 AGAATTTTAGGTTGGTGATA
1 AGAATTTTAGGTTGGTGATA
21595943 A
1 A
21595944 AGTATTCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
AGAATTTTAGGTTGGTGATA
Found at i:21600559 original size:47 final size:48
Alignment explanation
Indices: 21600395--21600574 Score: 190
Period size: 49 Copynumber: 3.7 Consensus size: 48
21600385 TTATTTGTGT
* * *
21600395 GCCAGTGTAAGA-CATGTCTAGGATATGGCATCGGCAC-GGATATGTGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-ACTCG--ATG-GATGA
* * * *
21600444 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATTTCGAT-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGA--TGGATGA
* *
21600493 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGATGGATGA
21600540 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
21600575 CATTATACCC
Statistics
Matches: 110, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
46 4 0.04
47 33 0.30
48 7 0.06
49 45 0.41
50 21 0.19
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGATGGATGA
Found at i:21606129 original size:25 final size:25
Alignment explanation
Indices: 21606046--21606110 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
21606036 CTAGCGCGCG
*
21606046 CTCTGATTATTAGCACGTTATTGCT
1 CTCTAATTATTAGCACGTTATTGCT
21606071 CTCTAATTATTAGCACGTTATTGCT
1 CTCTAATTATTAGCACGTTATTGCT
21606096 CTCTAATTATTAGCA
1 CTCTAATTATTAGCA
21606111 TGTCAGTGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (25 bp):
CTCTAATTATTAGCACGTTATTGCT
Found at i:21633675 original size:27 final size:25
Alignment explanation
Indices: 21633619--21633680 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
21633609 ACCTTAGCGC
21633619 GCTCTCTGATTATTAGCACGTAAGT
1 GCTCTCTGATTATTAGCACGTAAGT
*
21633644 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTAAGT
*
21633669 GCTCTCTAATTA
1 GCTCTCTGATTA
21633681 GCACATCTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTAAGT
Found at i:21633720 original size:22 final size:23
Alignment explanation
Indices: 21633619--21633721 Score: 86
Period size: 22 Copynumber: 4.4 Consensus size: 23
21633609 ACCTTAGCGC
*
21633619 GCTCTCTGATTATTAGCACGTAAGT
1 GCTCTCTG--TATTAGCACGTTAGT
21633644 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTG--TATTAGCACGTTAGT
* *
21633669 GCTCTCT-AATTAGCACATCT-GT
1 GCTCTCTGTATTAGCACGT-TAGT
* * *
21633691 GTTATCTGTA-TAGCACTTTAGT
1 GCTCTCTGTATTAGCACGTTAGT
21633713 GCTCTCTGT
1 GCTCTCTGT
21633722 TCATTAGTGC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.02
22 32 0.48
23 2 0.03
25 31 0.47
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.40
Consensus pattern (23 bp):
GCTCTCTGTATTAGCACGTTAGT
Found at i:21663451 original size:14 final size:14
Alignment explanation
Indices: 21663434--21663461 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21663424 CTATTTTGTT
21663434 TCTATTTCCTTCCA
1 TCTATTTCCTTCCA
21663448 TCTATTTCCTTCCA
1 TCTATTTCCTTCCA
21663462 AAGAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (14 bp):
TCTATTTCCTTCCA
Found at i:21667200 original size:11 final size:12
Alignment explanation
Indices: 21667182--21667212 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21667172 TTTGCTATGG
21667182 ATTTTTTTTGAA
1 ATTTTTTTTGAA
21667194 ATTTTTTTTGAA
1 ATTTTTTTTGAA
*
21667206 GTTTTTT
1 ATTTTTT
21667213 GTTCAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (12 bp):
ATTTTTTTTGAA
Found at i:21669186 original size:46 final size:44
Alignment explanation
Indices: 21669018--21669237 Score: 196
Period size: 46 Copynumber: 4.8 Consensus size: 44
21669008 CATTGCTGTT
**
21669018 ATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATATT
1 ATGT-AGCCAGTGTAAGACATGTCTGGGACATGCATCGACC-TAAG
* * * *
21669064 ATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGGATCGGCATTGAAACG
1 ATG-TAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-CT--AA-G
*
21669115 A-GT-GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCAAG
1 ATGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCT-AAG
* *
21669158 ATGTAAGCCAGTGTAAGACATGTTTGGGACATGCATCG-GCTATGAG
1 ATGT-AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTA--AG
* *
21669204 ATGT-GCTAGTGTAAGACATGTTTGGGACATGCAT
1 ATGTAGCCAGTGTAAGACATGTCTGGGACATGCAT
21669238 TTACACAGAT
Statistics
Matches: 146, Mismatches: 16, Indels: 26
0.78 0.09 0.14
Matches are distributed among these distances:
43 2 0.01
44 34 0.23
45 3 0.02
46 58 0.40
47 28 0.19
48 18 0.12
50 2 0.01
51 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
ATGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTAAG
Found at i:21671091 original size:20 final size:21
Alignment explanation
Indices: 21671052--21671092 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21671042 ATAGGAGAGT
*
21671052 AAAAAGAGAGAGAAACGGACC
1 AAAAACAGAGAGAAACGGACC
*
21671073 AAAAACAGAGA-AAATGGACC
1 AAAAACAGAGAGAAACGGACC
21671093 CACCTGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.59, C:0.15, G:0.24, T:0.02
Consensus pattern (21 bp):
AAAAACAGAGAGAAACGGACC
Found at i:21676708 original size:46 final size:46
Alignment explanation
Indices: 21676639--21677005 Score: 513
Period size: 46 Copynumber: 8.0 Consensus size: 46
21676629 AGTGTGCTCT
*
21676639 CTGATA-GAAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
21676685 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
21676731 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
21676777 CTGATATGAAACGTGTAAGACCATCGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
21676823 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
21676869 GTGACATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
21676915 GTGACGGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
21676962 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
21677006 TCATGTCGAA
Statistics
Matches: 293, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 252 0.86
47 40 0.14
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:21683139 original size:13 final size:13
Alignment explanation
Indices: 21683121--21683161 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
21683111 CTGGACTTCC
21683121 TCACACGGGCGTG
1 TCACACGGGCGTG
21683134 TCACACGGGCGTG
1 TCACACGGGCGTG
*
21683147 TCACACGGCCGTG
1 TCACACGGGCGTG
21683160 TC
1 TC
21683162 TCTTTGGTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.34, G:0.34, T:0.17
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:21685659 original size:23 final size:26
Alignment explanation
Indices: 21685628--21685676 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 26
21685618 TGTAAATTAG
21685628 AAAAATATCTC-T-AGA-AATTTTCT
1 AAAAATATCTCTTCAGAGAATTTTCT
*
21685651 AAAATTATCTCTTCAGAGAATTTTCT
1 AAAAATATCTCTTCAGAGAATTTTCT
21685677 CTCTACAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 3 0.14
26 8 0.36
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (26 bp):
AAAAATATCTCTTCAGAGAATTTTCT
Found at i:21685925 original size:11 final size:11
Alignment explanation
Indices: 21685909--21685985 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
21685899 AGATAATCAC
21685909 ATTAATATTAA
1 ATTAATATTAA
21685920 ATTAATA--AA
1 ATTAATATTAA
*
21685929 A-TACTATTAA
1 ATTAATATTAA
*
21685939 GATAAATATTAA
1 -ATTAATATTAA
21685951 ATTACAT-TTAA
1 ATTA-ATATTAA
21685962 TATTAAAATATTAA
1 -ATT--AATATTAA
*
21685976 AATAATATTA
1 ATTAATATTA
21685986 TTTTTGGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 22 0.42
12 12 0.23
13 4 0.08
14 5 0.10
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (11 bp):
ATTAATATTAA
Found at i:21689005 original size:22 final size:22
Alignment explanation
Indices: 21688974--21689017 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
21688964 CGGCCTGAGG
21688974 ACACGGCGTGT-CCTTATGTCC
1 ACACGGCGTGTACCTTATGTCC
21688995 ACACGGGCGTGTGACCTTATGTC
1 ACAC-GGCGTGT-ACCTTATGTC
21689018 ATGGAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
24 9 0.45
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (22 bp):
ACACGGCGTGTACCTTATGTCC
Found at i:21694825 original size:19 final size:20
Alignment explanation
Indices: 21694784--21694828 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
21694774 CTTGACGGAC
** *
21694784 TTTTGGACTGTTAATTTTTA
1 TTTTGGACTGTTAACATTGA
21694804 TTTTGGACT-TTAACATTGA
1 TTTTGGACTGTTAACATTGA
21694823 TTTTGG
1 TTTTGG
21694829 TATTAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.56
Consensus pattern (20 bp):
TTTTGGACTGTTAACATTGA
Found at i:21697424 original size:22 final size:23
Alignment explanation
Indices: 21697399--21697444 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
21697389 TTTTTTTTAT
21697399 ATTTTCCTAGTTAAA-TTTAAAA
1 ATTTTCCTAGTTAAATTTTAAAA
21697421 ATTTTCCTAGTTAAATTTTAAAA
1 ATTTTCCTAGTTAAATTTTAAAA
21697444 A
1 A
21697445 AATAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (23 bp):
ATTTTCCTAGTTAAATTTTAAAA
Found at i:21697902 original size:16 final size:17
Alignment explanation
Indices: 21697876--21697908 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21697866 AAATTCTCTA
*
21697876 TTTACTTTAATTGTTTT
1 TTTACTTTAATTATTTT
21697893 TTTA-TTTAATTATTTT
1 TTTACTTTAATTATTTT
21697909 ATAACACGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTACTTTAATTATTTT
Found at i:21700476 original size:20 final size:20
Alignment explanation
Indices: 21700451--21700491 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21700441 AAATCTCTTA
21700451 TCACATTCTTCTCTTCTTCT
1 TCACATTCTTCTCTTCTTCT
* * *
21700471 TCACATTTTTTTCTTTTTCT
1 TCACATTCTTCTCTTCTTCT
21700491 T
1 T
21700492 TTAATCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (20 bp):
TCACATTCTTCTCTTCTTCT
Found at i:21705909 original size:18 final size:20
Alignment explanation
Indices: 21705874--21705910 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21705864 TTAAAGTTGG
21705874 TTTAAATATGTTTGTTAAAA
1 TTTAAATATGTTTGTTAAAA
*
21705894 TTTATATAT-TTT-TTAAA
1 TTTAAATATGTTTGTTAAA
21705911 TTCTGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 3 0.19
20 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTAAATATGTTTGTTAAAA
Found at i:21705964 original size:27 final size:24
Alignment explanation
Indices: 21705934--21705999 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 24
21705924 TGTAATGTAC
21705934 AAAACATTCTTCAAAATAATTTAATTT
1 AAAA-ATT-TTCAAAATAA-TTAATTT
21705961 -AAAATTTT-AAACAT-ATTAATTT
1 AAAAATTTTCAAA-ATAATTAATTT
21705983 AAAATATTTTCAAAATA
1 AAAA-ATTTTCAAAATA
21706000 TTGACAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
22 7 0.21
23 7 0.21
24 11 0.32
25 6 0.18
26 3 0.09
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAAATTTTCAAAATAATTAATTT
Found at i:21707506 original size:25 final size:25
Alignment explanation
Indices: 21707469--21707520 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
21707459 ATAAAAGAAA
21707469 ATTTTTACTAAAAACC-AATAAATT
1 ATTTTTACTAAAAACCTAATAAATT
*
21707493 ATTTTTACTAAAAACCTAATAATTT
1 ATTTTTACTAAAAACCTAATAAATT
21707518 ATT
1 ATT
21707521 AAAATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTTTACTAAAAACCTAATAAATT
Found at i:21713363 original size:39 final size:42
Alignment explanation
Indices: 21713304--21713412 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 42
21713294 TTTTTTCCTT
*
21713304 ATTCTATTACAATATC-ATTCCATT-CAACCAA-ACACA-AGA
1 ATTCTATTACAGT-TCTATTCCATTCCAACCAACACACAGAGA
* * *
21713343 ATTCTATTACAGTTCTATTCCATTCCATCCAACTAGACAGTTGA
1 ATTCTATTACAGTTCTATTCCATTCCAACCAAC-ACACAG-AGA
21713387 ATTACTTATTACAGTTCTATTCCATT
1 ATT-C-TATTACAGTTCTATTCCATT
21713413 ACAGCTCTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
38 2 0.03
39 20 0.34
40 6 0.10
42 4 0.07
44 5 0.09
45 1 0.02
46 20 0.34
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.37
Consensus pattern (42 bp):
ATTCTATTACAGTTCTATTCCATTCCAACCAACACACAGAGA
Found at i:21713415 original size:16 final size:16
Alignment explanation
Indices: 21713394--21713448 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
21713384 TGAATTACTT
*
21713394 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
21713410 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
*
21713426 ATTACAGCTCTATTTC
1 ATTACAGCTCTATTCC
21713442 ATTACAG
1 ATTACAG
21713449 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:21719040 original size:6 final size:6
Alignment explanation
Indices: 21719022--21719059 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
21719012 TATTGTTGAT
21719022 AATGGG AAATGGG AATGGG AATGGG AATGGG AATGGG A
1 AATGGG -AATGGG AATGGG AATGGG AATGGG AATGGG A
21719060 GGAGGGAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.47, T:0.16
Consensus pattern (6 bp):
AATGGG
Found at i:21719175 original size:65 final size:59
Alignment explanation
Indices: 21719036--21719198 Score: 167
Period size: 58 Copynumber: 2.8 Consensus size: 59
21719026 GGAAATGGGA
*
21719036 ATGGGAATGGGAATGGG-AATGGGAGGAGGGAACGGTGGAAGAGGGGAATCGATGGAAG
1 ATGGGAATGGGAATGGGAAATGGGAGGAGGGAACGGTGGAAGAGGGAAATCGATGGAAG
* * * *
21719094 AGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAA-TGGGAAATGGGAATGG--G
1 ATGGGA-ATGGGAATGGGAAATGGGAGGAGGGAACGGTGGAAGAGGGAAAT-CG-ATGGAAG
* * *
21719153 TAT-TGCATGGGAATGGGAAATGGGA-GAAGGATACGGTGGAAGAGGG
1 -ATGGGAATGGGAATGGGAAATGGGAGGAGGGA-ACGGTGGAAGAGGG
21719199 GAGATGGGAT
Statistics
Matches: 87, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
57 4 0.05
58 33 0.38
59 22 0.25
60 24 0.28
61 4 0.05
ACGTcount: A:0.32, C:0.04, G:0.51, T:0.13
Consensus pattern (59 bp):
ATGGGAATGGGAATGGGAAATGGGAGGAGGGAACGGTGGAAGAGGGAAATCGATGGAAG
Found at i:21719300 original size:31 final size:30
Alignment explanation
Indices: 21719224--21719350 Score: 182
Period size: 30 Copynumber: 4.2 Consensus size: 30
21719214 TGTATTTAAA
* *
21719224 ATTTTAAAAATAAAAAAATATATGTAATGG
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
21719254 ATTTTAAAAATAAAAAAATACATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
21719284 ATTTTCAAAATAAAAAAAAAATATGTAGTGT
1 ATTTTAAAAAT-AAAAAAATATATGTAGTGT
* *
21719315 ATTCTAGAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
21719345 ATTTTA
1 ATTTTA
21719351 TTAAATGAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
30 60 0.71
31 25 0.29
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:21719326 original size:61 final size:60
Alignment explanation
Indices: 21719224--21719350 Score: 182
Period size: 61 Copynumber: 2.1 Consensus size: 60
21719214 TGTATTTAAA
* *
21719224 ATTTTAAAAATAAAAAAATATATGTAATGGATTTTAAAAATAAAAAAATACATGTAGTGT
1 ATTTTAAAAATAAAAAAAAATATGTAATGGATTCTAAAAATAAAAAAATACATGTAGTGT
* * * * *
21719284 ATTTTCAAAATAAAAAAAAAATATGTAGTGTATTCTAGAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAAAAATATGTAATGGATTCTAAAAATAAAAAAATACATGTAGTGT
21719345 ATTTTA
1 ATTTTA
21719351 TTAAATGAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
60 10 0.17
61 48 0.83
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (60 bp):
ATTTTAAAAATAAAAAAAAATATGTAATGGATTCTAAAAATAAAAAAATACATGTAGTGT
Found at i:21719546 original size:21 final size:21
Alignment explanation
Indices: 21719522--21719571 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
21719512 CATTGTTTCT
*
21719522 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
21719543 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
21719564 AATCTCAC
1 AATCTCAC
21719572 TGCCACCGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:21720281 original size:22 final size:21
Alignment explanation
Indices: 21720242--21720282 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21720232 GTAAGTTCCA
* *
21720242 TTTTTTCCCCTTCTTTTTGGC
1 TTTTTTCCCCCTCATTTTGGC
21720263 TTTTTTCCCCCTCAATTTTG
1 TTTTTTCCCCCTC-ATTTTG
21720283 TGTATTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.05, C:0.29, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTTTTCCCCCTCATTTTGGC
Found at i:21726526 original size:22 final size:22
Alignment explanation
Indices: 21726484--21726561 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
21726474 TTTTTAAAAT
* *
21726484 ATATTTAATATATGTATATAAA
1 ATATTTAATAAATGTAAATAAA
21726506 ATATTTAA-AAATGTCAAATAAATA
1 ATATTTAATAAATGT-AAAT-AA-A
* *
21726530 ATATTAAATAAAGTTTAAATATAAA
1 ATATTTAATAAA-TGT-AA-ATAAA
21726555 ATATTTA
1 ATATTTA
21726562 TGCATCACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 5 0.11
22 11 0.25
23 2 0.05
24 8 0.18
25 10 0.23
26 6 0.14
27 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (22 bp):
ATATTTAATAAATGTAAATAAA
Found at i:21728129 original size:11 final size:11
Alignment explanation
Indices: 21728113--21728159 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
21728103 ATACGCGTAA
21728113 TTTAAAACAAG
1 TTTAAAACAAG
*
21728124 TTTAAAACACATA
1 TTTAAAACA-A-G
*
21728137 TTTAACACAAG
1 TTTAAAACAAG
21728148 TTTAAAACAAG
1 TTTAAAACAAG
21728159 T
1 T
21728160 GATCCAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 20 0.67
12 2 0.07
13 8 0.27
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (11 bp):
TTTAAAACAAG
Found at i:21734886 original size:6 final size:6
Alignment explanation
Indices: 21734870--21734899 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
21734860 CGTGGGGGTT
21734870 TAAATTA TAAATA TAAATA TAAATA TAAAT
1 TAAA-TA TAAATA TAAATA TAAATA TAAAT
21734900 TATTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TAAATA
Found at i:21736223 original size:25 final size:25
Alignment explanation
Indices: 21736194--21736247 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
21736184 ATATGTTTTA
21736194 ATTTTAAAAATTCATT-AATAG-TAAC
1 ATTTTAAAAA-T-ATTAAATAGTTAAC
*
21736219 ATTTTAATAATATTAAATAGTTAAC
1 ATTTTAAAAATATTAAATAGTTAAC
21736244 ATTT
1 ATTT
21736248 GCTTATCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 6 0.23
25 17 0.65
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (25 bp):
ATTTTAAAAATATTAAATAGTTAAC
Found at i:21740246 original size:17 final size:17
Alignment explanation
Indices: 21740224--21740262 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
21740214 AACCACATTT
*
21740224 ATTTCTA-AATGTTTCTC
1 ATTTCTATAA-GTTTATC
21740241 ATTTCTATAAGTTTATC
1 ATTTCTATAAGTTTATC
21740258 ATTTC
1 ATTTC
21740263 CATCCATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTTCTATAAGTTTATC
Found at i:21745781 original size:14 final size:14
Alignment explanation
Indices: 21745762--21745806 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
21745752 AACTCATCTT
*
21745762 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
21745776 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
21745789 AATTTAATTTAATG
1 AGTTTAATTTAATG
21745803 AGTT
1 AGTT
21745807 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:21746815 original size:29 final size:29
Alignment explanation
Indices: 21746782--21746841 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
21746772 ATAACCAAAC
*
21746782 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
21746811 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
21746840 CT
1 CT
21746842 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:21746834 original size:15 final size:15
Alignment explanation
Indices: 21746788--21746835 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
21746778 AAACCTACAA
*
21746788 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
21746803 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
21746817 AAACTTCATATCCAT
1 AAACTTCATATCCAT
21746832 AAAC
1 AAAC
21746836 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:21747072 original size:11 final size:11
Alignment explanation
Indices: 21747066--21747092 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21747056 AAAAAAAATG
21747066 AAAAAAACGAA
1 AAAAAAACGAA
21747077 AAAAAAACGAA
1 AAAAAAACGAA
21747088 AAAAA
1 AAAAA
21747093 TTTCAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAACGAA
Found at i:21747118 original size:14 final size:14
Alignment explanation
Indices: 21747086--21747127 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
21747076 AAAAAAAACG
*
21747086 AAAAAAATT-TCAA
1 AAAAAAATTCTGAA
*
21747099 ACAAAAATTCTGAA
1 AAAAAAATTCTGAA
21747113 AAAAAAA-TCTGAA
1 AAAAAAATTCTGAA
21747126 AA
1 AA
21747128 TTTGAACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.19
Consensus pattern (14 bp):
AAAAAAATTCTGAA
Found at i:21750636 original size:14 final size:14
Alignment explanation
Indices: 21750617--21750661 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
21750607 AACTCATCTT
*
21750617 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
21750631 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
21750644 AATTTAATTTAATG
1 AGTTTAATTTAATG
21750658 AGTT
1 AGTT
21750662 ACTTTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:21751668 original size:29 final size:29
Alignment explanation
Indices: 21751634--21751695 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
21751624 TTATAACCAA
* *
21751634 ATCTACAAAAACTTTATATCCATAAACCT
1 ATCTACAAAAACTTCATATCCATAAACCC
*
21751663 ATCTACATAAACTTCATATCCATAAACCC
1 ATCTACAAAAACTTCATATCCATAAACCC
21751692 ATCT
1 ATCT
21751696 TTGAATCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (29 bp):
ATCTACAAAAACTTCATATCCATAAACCC
Found at i:21751688 original size:15 final size:14
Alignment explanation
Indices: 21751642--21751689 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
21751632 AAATCTACAA
21751642 AAACTTTATATCCAT
1 AAAC-TTATATCCAT
* * *
21751657 AAACCTATCTACAT
1 AAACTTATATCCAT
21751671 AAACTTCATATCCAT
1 AAACTT-ATATCCAT
21751686 AAAC
1 AAAC
21751690 CCATCTTTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (14 bp):
AAACTTATATCCAT
Found at i:21752848 original size:51 final size:50
Alignment explanation
Indices: 21752782--21752941 Score: 142
Period size: 56 Copynumber: 3.0 Consensus size: 50
21752772 CCTAATTTTA
* *
21752782 AAAAATTTAAAAAATATATTAAAATACATAAATATTTCTAAAAAGTAAAATAAT
1 AAAAA-TT-AAAAATATATAAAAATAAATAAATATTT-TAAAAA-TAAAATAAT
* * * *
21752836 -AAAATTAAAAATATATCAAAATAAAAAAAAATTATTACAAGAAATAATAATGTAT
1 AAAAATTAAAAATATATAAAAATAAATAAATATT-TT--AA-AAATAA-AAT-AAT
* *
21752891 AAAAATTTAAAATATATAAAAATAAATAAATAATTTTAAAAATATAATAAT
1 AAAAATTAAAAATATATAAAAATAAATAAAT-ATTTTAAAAATAAAATAAT
21752942 TTAAAATTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
51 26 0.30
52 6 0.07
53 14 0.16
54 8 0.09
55 2 0.02
56 28 0.32
57 3 0.03
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (50 bp):
AAAAATTAAAAATATATAAAAATAAATAAATATTTTAAAAATAAAATAAT
Found at i:21752904 original size:56 final size:51
Alignment explanation
Indices: 21752783--21752977 Score: 153
Period size: 51 Copynumber: 3.6 Consensus size: 51
21752773 CTAATTTTAA
* * * * *
21752783 AAAATTTAAAAAATATATTAAAATACATAAATATTTCTAAAAAGTAAAATAA--T
1 AAAATTT--AAAATATATAAAAATAAAAAAAAATTT-TAAAAA-TATAATAATTT
* *
21752836 AAAATTAAAAATATATCAAAATAAAAAAAAATTATTACAAGAA-ATAATAATGTAT
1 AAAATTTAAAATATATAAAAATAAAAAAAAATT-TTA-AA-AATATAATAAT-T-T
*
21752891 AAAAATTTAAAATATATAAAAATAAATAAATAATTTTAAAAATATAATAATTT
1 -AAAATTTAAAATATATAAAAATAAA-AAAAAATTTTAAAAATATAATAATTT
* * *
21752944 AAAATTTATATTAATATTAAAATAAAATAAAAAT
1 AAAATTTAAAAT-ATATAAAAATAAAA-AAAAAT
21752978 CCCTGAACCG
Statistics
Matches: 117, Mismatches: 13, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
51 30 0.26
52 14 0.12
53 26 0.22
54 3 0.03
55 11 0.09
56 26 0.22
57 7 0.06
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (51 bp):
AAAATTTAAAATATATAAAAATAAAAAAAAATTTTAAAAATATAATAATTT
Found at i:21752910 original size:17 final size:17
Alignment explanation
Indices: 21752888--21752977 Score: 57
Period size: 17 Copynumber: 5.5 Consensus size: 17
21752878 AATAATAATG
21752888 TATAAAAATTTAAAATA
1 TATAAAAATTTAAAATA
21752905 TATAAAAA--T-AAATA
1 TATAAAAATTTAAAATA
* *
21752919 -A-ATAATTTTAAAA-A
1 TATAAAAATTTAAAATA
* *
21752933 TATAATAATTTAAAATT
1 TATAAAAATTTAAAATA
**
21752950 TATATTAATATTAAAATAA
1 TATAAAAAT-TTAAAAT-A
*
21752969 AATAAAAAT
1 TATAAAAAT
21752978 CCCTGAACCG
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
12 3 0.06
13 1 0.02
14 7 0.13
15 5 0.09
16 9 0.17
17 16 0.30
18 7 0.13
19 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TATAAAAATTTAAAATA
Found at i:21752933 original size:30 final size:29
Alignment explanation
Indices: 21752840--21752936 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
21752830 AATAATAAAA
* *
21752840 TTAAAAATATATCAAAATAAAAAAAAATT
1 TTAAAAATATATAAAAATAAATAAAAATT
* * **
21752869 ATTACAAGA-A-ATAATAATGTATAAAAA-T
1 -TTA-AAAATATATAAAAATAAATAAAAATT
21752897 TT-AAAATATATAAAAATAAATAAATAATT
1 TTAAAAATATATAAAAATAAATAAA-AATT
21752926 TTAAAAATATA
1 TTAAAAATATA
21752937 ATAATTTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 14 0.27
28 3 0.06
29 15 0.29
30 12 0.24
31 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (29 bp):
TTAAAAATATATAAAAATAAATAAAAATT
Found at i:21753515 original size:25 final size:26
Alignment explanation
Indices: 21753482--21753550 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
21753472 GATGGGATTT
21753482 TTAT-TTTATTTAATATTATATA-AA
1 TTATATTTATTTAATATTATATATAA
*
21753506 TTATATTTATTTTATATTA-ATATAA
1 TTATATTTATTTAATATTATATATAA
**
21753531 -T-TATTTATTTCTTATTATAT
1 TTATATTTATTTAATATTATAT
21753551 TTTTTTCAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 14 0.36
24 10 0.26
25 15 0.38
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (26 bp):
TTATATTTATTTAATATTATATATAA
Found at i:21753522 original size:20 final size:19
Alignment explanation
Indices: 21753497--21753536 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21753487 TTATTTAATA
*
21753497 TTATATAAATTATATTTATT
1 TTATATAAA-TATAATTATT
*
21753517 TTATATTAATATAATTATT
1 TTATATAAATATAATTATT
21753536 T
1 T
21753537 ATTTCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATATAAATATAATTATT
Found at i:21766140 original size:63 final size:63
Alignment explanation
Indices: 21766062--21766187 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
21766052 TCAATTTTGG
* *
21766062 GTTATTACAGCCATCCTGTATGGAGTAATAGAGATAGGCATCGTTCCCGGTACTAGCTTAATA
1 GTTATTACAGCCATCCTGTATGGAGTAATAGAGATAGGCATCATTCCCGGTACTAGCTCAATA
*
21766125 GTTATTACAGCCATCCTGTATGGAGTGATAGAGATAGGCATCATTCCCGGTACTAGCTCAATA
1 GTTATTACAGCCATCCTGTATGGAGTAATAGAGATAGGCATCATTCCCGGTACTAGCTCAATA
21766188 CCAAACTCCA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (63 bp):
GTTATTACAGCCATCCTGTATGGAGTAATAGAGATAGGCATCATTCCCGGTACTAGCTCAATA
Found at i:21771309 original size:23 final size:22
Alignment explanation
Indices: 21771283--21771326 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21771273 AAATGGTTAT
21771283 ATGTTAGGCATTAT-GTTTGATGG
1 ATGTTAGG-ATT-TGGTTTGATGG
*
21771306 ATGTTTGGATTTGGTTTGATG
1 ATGTTAGGATTTGGTTTGATG
21771327 CATAATATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 11 0.58
23 7 0.37
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (22 bp):
ATGTTAGGATTTGGTTTGATGG
Done.