Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 37 of 141
Found at i:12351293 original size:432 final size:430
Alignment explanation
Indices: 12350490--12351344 Score: 1505
Period size: 432 Copynumber: 2.0 Consensus size: 430
12350480 ATAAAATATA
* *
12350490 TAATTTTATATTAATATATATTTGTTATTCAATTTAAATAAATATATATGATATAAAAGAAGAAA
1 TAATTTTATATTAATATATATTTGTAATTCAATTTAAATAAATATATATGACATAAAAGAAGAAA
* *
12350555 CTAAAGTATATACGGAAACCTTGAGTTCTAGGTTAATTAGAATTTCATTTTTCGATTTTATTTAA
66 CTAAAGTATATACGAAAACCTTGAGTTCTAGGTTAATTAGAATTTCAGTTTTCGATTTTATTTAA
* **
12350620 AATGGGTTTCATTTTAGAATTAATTGTTAATAATAAATGTTGTTGATTAATAAATAAAATAAAGA
131 AATGGGTCTCATTTTAGAATTAATTGTTAATAATAAATACTGTTGATTAATAAATAAAATAAAGA
12350685 AATATTATTTTAAATTACATTTATTTTTATTCTATTTTTTTGAAAAAAATCAGACTGATATAATA
196 AATATTATTTTAAATTACATTTATTTTTATTCTATTTTTTTGAAAAAAATCAGACTGATATAATA
12350750 ATAAAAGGAATAGAAGAAACAAGTGGGCTAACTGTAACGCCCTGAATAATTTAAGTATGCTTTTG
261 ATAAAAGGAATAGAAGAAACAAGTGGGCTAACTGTAACGCCCTGAATAATTTAAGTATGCTTTTG
* * *
12350815 GTGAAATTTGACATAAATGAGTATAGTGGTTAAGTGTTCTGGGTGTGTGTGTGTAAGGTTTTGCG
326 GTGAAATTTGACATAAATGAGTATAGTAGTTAAGTGTTCTGGGTGTGTGTATG--AGGTATTGCG
* *
12350880 TTCAAGTCTCACTTTTGGCAATTTTGTTATTTTTAGCCTTAT
389 TTCAAGTCCCACTTTTGGCAATTTTATTATTTTTAGCCTTAT
12350922 TAATTTTATATTAATATATATTTGTAATTCAATTTAAATAAATATATATGACATAAAAGAAGAAA
1 TAATTTTATATTAATATATATTTGTAATTCAATTTAAATAAATATATATGACATAAAAGAAGAAA
*
12350987 CTAAAGTATATATGAAAACCTTGAGTTCTAGGTTAATTA-ATATTTCAGTTTTCGATTTTATTTA
66 CTAAAGTATATACGAAAACCTTGAGTTCTAGGTTAATTAGA-ATTTCAGTTTTCGATTTTATTTA
*
12351051 AAATGGGTCTCATTTTAGAATTAATTTTTAATAATAAATACTGTTGATTAATAAATAAAATAAAG
130 AAATGGGTCTCATTTTAGAATTAATTGTTAATAATAAATACTGTTGATTAATAAATAAAATAAAG
*
12351116 AAATATTATTTTAAATTACATTTATTTTTATTCTATTTTTTTGAAAAAATTCAGACTGATATAAT
195 AAATATTATTTTAAATTACATTTATTTTTATTCTATTTTTTTGAAAAAAATCAGACTGATATAAT
* *
12351181 AATAAAAGGAATAGAAGAAACAAGTGGGCTAACTGTAACGCCCTGGATAATTTAAGTCTGCTTTT
260 AATAAAAGGAATAGAAGAAACAAGTGGGCTAACTGTAACGCCCTGAATAATTTAAGTATGCTTTT
* *
12351246 GGTGAAATTTGGCATAAATGAGTATAGTAGTTAAGTGTTCTGGGTGTGTGTATGAGGTATTGGGT
325 GGTGAAATTTGACATAAATGAGTATAGTAGTTAAGTGTTCTGGGTGTGTGTATGAGGTATTGCGT
12351311 TCAAGTCCCACTTTTGGCAATTTTATTATTTTTA
390 TCAAGTCCCACTTTTGGCAATTTTATTATTTTTA
12351345 ATCCTAGCCT
Statistics
Matches: 403, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
430 41 0.10
431 1 0.00
432 361 0.90
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (430 bp):
TAATTTTATATTAATATATATTTGTAATTCAATTTAAATAAATATATATGACATAAAAGAAGAAA
CTAAAGTATATACGAAAACCTTGAGTTCTAGGTTAATTAGAATTTCAGTTTTCGATTTTATTTAA
AATGGGTCTCATTTTAGAATTAATTGTTAATAATAAATACTGTTGATTAATAAATAAAATAAAGA
AATATTATTTTAAATTACATTTATTTTTATTCTATTTTTTTGAAAAAAATCAGACTGATATAATA
ATAAAAGGAATAGAAGAAACAAGTGGGCTAACTGTAACGCCCTGAATAATTTAAGTATGCTTTTG
GTGAAATTTGACATAAATGAGTATAGTAGTTAAGTGTTCTGGGTGTGTGTATGAGGTATTGCGTT
CAAGTCCCACTTTTGGCAATTTTATTATTTTTAGCCTTAT
Found at i:12353791 original size:19 final size:19
Alignment explanation
Indices: 12353769--12353938 Score: 241
Period size: 19 Copynumber: 8.8 Consensus size: 19
12353759 AATTTTTGAG
*
12353769 GATATGCAATCTTAGATAG
1 GATATGCAATCTTAGATAT
*
12353788 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
12353807 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
12353826 GATATGTATAATCTTAGATAT
1 GATATG--CAATCTTAGATAT
12353847 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
12353866 GATGTATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12353885 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
12353904 GATGTATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12353923 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
12353939 AGATATGATT
Statistics
Matches: 132, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
19 114 0.86
21 18 0.14
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:12353811 original size:38 final size:38
Alignment explanation
Indices: 12353769--12353961 Score: 260
Period size: 38 Copynumber: 4.9 Consensus size: 38
12353759 AATTTTTGAG
* * *
12353769 GATATGCAATCTTAGATAGGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
12353807 GATATGCAATCTTAGATATGATATGTATAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATG--TAATCTTAGATAT
* *
12353847 GATATGCAATCTTAGATATGATGTATAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
* *
12353885 GATATGCAATCTTAGATATGATGTATAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
12353923 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
12353962 GATATCCTTT
Statistics
Matches: 142, Mismatches: 7, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
38 88 0.62
40 34 0.24
41 8 0.06
42 12 0.08
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:12353840 original size:59 final size:57
Alignment explanation
Indices: 12353769--12353945 Score: 241
Period size: 59 Copynumber: 3.1 Consensus size: 57
12353759 AATTTTTGAG
* *
12353769 GATATGCAATCTTAGATAGGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATAT
* * **
12353826 GATATGTATAATCTTAGATATGATATGCAATCTTAGATATGATGTATAATCTTAGATAT
1 GATATG--CAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATAT
* **
12353885 GATATGCAATCTTAGATATGATGTATAATCTTAGATATGATATGCAATCTTAGA-A-
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATAT
12353940 GATATG
1 GATATG
12353946 ATTTTGTAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
55 6 0.06
56 1 0.01
57 47 0.45
59 51 0.49
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:12353893 original size:78 final size:76
Alignment explanation
Indices: 12353769--12353938 Score: 277
Period size: 78 Copynumber: 2.2 Consensus size: 76
12353759 AATTTTTGAG
*
12353769 GATATGCAATCTTAGATAGGATATGCAATCCTAGATATGATATGCAATCTTAGATATGATATGTA
1 GATATGCAATCTTAGATAGGATATACAATCCTAGATATGATATGCAATCTTAGATATG--ATGTA
12353834 TAATCTTAGATAT
64 TAATCTTAGATAT
* * * *
12353847 GATATGCAATCTTAGATATGATGTATAATCTTAGATATGATATGCAATCTTAGATATGATGTATA
1 GATATGCAATCTTAGATAGGATATACAATCCTAGATATGATATGCAATCTTAGATATGATGTATA
12353912 ATCTTAGATAT
66 ATCTTAGATAT
12353923 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
12353939 AGATATGATT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 34 0.39
78 53 0.61
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (76 bp):
GATATGCAATCTTAGATAGGATATACAATCCTAGATATGATATGCAATCTTAGATATGATGTATA
ATCTTAGATAT
Found at i:12353960 original size:23 final size:21
Alignment explanation
Indices: 12353769--12353966 Score: 153
Period size: 19 Copynumber: 10.0 Consensus size: 21
12353759 AATTTTTGAG
*
12353769 GATATGCAATCTT--AGATAG
1 GATATGCAATCTTAGAGATAT
*
12353788 GATATGCAATCCT--AGATAT
1 GATATGCAATCTTAGAGATAT
12353807 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
*
12353826 GATATGTATAATCTT--AGATAT
1 GATATG--CAATCTTAGAGATAT
*
12353847 GATATGCAATCTTAGATATGAT
1 GATATGCAATCTTAGAGAT-AT
12353869 G-TAT--AATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
*
12353885 GATATGCAATCTTAGATATGAT
1 GATATGCAATCTTAGAGAT-AT
12353907 G-TAT--AATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
12353923 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAG-AGATAT
* *
12353945 GATTTTGTAATCTTAGAGATAT
1 GA-TATGCAATCTTAGAGATAT
12353967 CCTTTAATCT
Statistics
Matches: 150, Mismatches: 11, Indels: 33
0.77 0.06 0.17
Matches are distributed among these distances:
16 6 0.04
17 12 0.08
19 71 0.47
21 30 0.20
22 20 0.13
23 11 0.07
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (21 bp):
GATATGCAATCTTAGAGATAT
Found at i:12354220 original size:19 final size:19
Alignment explanation
Indices: 12354196--12354234 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12354186 CGAATTTTAT
12354196 TTATTTTTTATTTAGCCCC
1 TTATTTTTTATTTAGCCCC
12354215 TTATTTTTTATTTAGCCCC
1 TTATTTTTTATTTAGCCCC
12354234 T
1 T
12354235 CCGCCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.05, T:0.59
Consensus pattern (19 bp):
TTATTTTTTATTTAGCCCC
Found at i:12361046 original size:9 final size:9
Alignment explanation
Indices: 12361032--12361112 Score: 102
Period size: 9 Copynumber: 9.7 Consensus size: 9
12361022 AGTTCAGATT
12361032 AAAAAAAAC
1 AAAAAAAAC
12361041 AAAAAAAAC
1 AAAAAAAAC
12361050 -AAAAAAAC
1 AAAAAAAAC
12361058 ---AAAAAC
1 AAAAAAAAC
12361064 -AAAAAAAC
1 AAAAAAAAC
12361072 -AAAAAAAC
1 AAAAAAAAC
*
12361080 AAAAAAAAT
1 AAAAAAAAC
12361089 AAAAAAAAC
1 AAAAAAAAC
*
12361098 AAAAAAAAT
1 AAAAAAAAC
12361107 AAAAAA
1 AAAAAA
12361113 TGAAAGTGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
6 6 0.09
8 22 0.33
9 38 0.58
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:12361112 original size:8 final size:8
Alignment explanation
Indices: 12361033--12361104 Score: 94
Period size: 8 Copynumber: 8.9 Consensus size: 8
12361023 GTTCAGATTA
12361033 AAAAAAAC
1 AAAAAAAC
12361041 AAAAAAAAC
1 -AAAAAAAC
12361050 AAAAAAAC
1 AAAAAAAC
12361058 --AAAAAC
1 AAAAAAAC
12361064 AAAAAAAC
1 AAAAAAAC
12361072 AAAAAAAC
1 AAAAAAAC
*
12361080 AAAAAAAATA
1 -AAAAAAA-C
12361090 AAAAAAAC
1 AAAAAAAC
12361098 AAAAAAA
1 AAAAAAA
12361105 ATAAAAAATG
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
6 6 0.11
8 29 0.51
9 22 0.39
ACGTcount: A:0.89, C:0.10, G:0.00, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:12361130 original size:1 final size:1
Alignment explanation
Indices: 12361032--12361112 Score: 81
Period size: 1 Copynumber: 81.0 Consensus size: 1
12361022 AGTTCAGATT
* * * * * * *
12361032 AAAAAAAACAAAAAAAACAAAAAAACAAAAACAAAAAAACAAAAAAACAAAAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
12361097 CAAAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAA
12361113 TGAAAGTGAA
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:12362619 original size:132 final size:132
Alignment explanation
Indices: 12362382--12362620 Score: 435
Period size: 132 Copynumber: 1.8 Consensus size: 132
12362372 CTGCACTGAC
*
12362382 AGTGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
*
12362447 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
12362512 GT
131 GT
*
12362514 AGTGGAGCAGATCGAAGAC-GACGAATCTTATCTTTCCAAGATAGTGGGAAATAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACAG-CGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCA
12362578 CCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAGAT
65 CCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAGAT
12362621 NNNNNNNNNN
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
131 1 0.01
132 102 0.99
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
CAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:12363113 original size:132 final size:132
Alignment explanation
Indices: 12362688--12363099 Score: 658
Period size: 132 Copynumber: 3.2 Consensus size: 132
12362678 NNNNNNNNNN
*
12362688 GTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCA
1 GTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCA
* *
12362753 GATCTTATCTACCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
66 GATCTTATCTCCCTAAGCAGTAGAGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
12362818 TA
131 TA
*
12362820 GTGGAGTACGTTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCA
1 GTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCA
* * * *
12362885 GATCTTATCTCTCTAAGC-----A-GAGCAGATCAAAGATGGCGGATCTTACCTCCCTGTGGTTA
66 GATCTTATCTCCCTAAGCAGTAGAGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
12362944 TA
131 TA
* *
12362946 GTGAAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCA
1 GTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCA
*
12363011 -AGTCTTATCTCCCTAAGCAGTAGAGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTT
66 GA-TCTTATCTCCCTAAGCAGTAGAGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTT
*
12363075 ACA
130 ATA
12363078 GTGGAGTACATTGAAGCCAGTA
1 GTGGAGTACATTGAAGCCAGTA
12363100 GTCTTATCTC
Statistics
Matches: 255, Mismatches: 18, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
125 1 0.00
126 116 0.45
131 1 0.00
132 137 0.54
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
GTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCA
GATCTTATCTCCCTAAGCAGTAGAGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
TA
Found at i:12363147 original size:44 final size:42
Alignment explanation
Indices: 12363099--12363566 Score: 317
Period size: 44 Copynumber: 10.8 Consensus size: 42
12363089 TGAAGCCAGT
*
12363099 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAG-AAGCA
* *
12363143 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-T-AAGA-AGCA
*
12363188 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAG-C-A
* * * * * * * *
12363231 TAATCCTATCTCTCTAAAGTTGCAGTAGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAGAAGC-A
* * * * * *
12363275 AGATCTTATCTCTCTGAAGATGCAG-AGAGCAGAT-CGCATCA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAGCA
* * *
12363316 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAG-C-A
* * * * * *
12363359 TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAGAAGC-A
* * * * * *
12363403 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAGCA
* *
12363444 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAAACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAG-AAGCA
* *
12363488 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-T-AAGA-AGCA
12363533 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
12363567 TAAAGCCGAT
Statistics
Matches: 335, Mismatches: 63, Indels: 52
0.74 0.14 0.12
Matches are distributed among these distances:
40 41 0.12
41 18 0.05
42 10 0.03
43 21 0.06
44 163 0.49
45 80 0.24
46 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (42 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAGCA
Found at i:12363353 original size:128 final size:128
Alignment explanation
Indices: 12363190--12363474 Score: 489
Period size: 128 Copynumber: 2.2 Consensus size: 128
12363180 AGATGGCAAG
* *
12363190 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTACA
12363255 GTAGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGATGCAGAGAGCAGATCGCATCAAA
66 GTAGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGATGCAGAGAGCAGATCGCATCAAA
* *
12363318 TCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCGATAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTACA
* * * *
12363383 GTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
66 GTAGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGATGCAGAGAGCAGATCGCATCAAA
*
12363446 TCTTATCTCCCTGAAGTTGCAGTGAAGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA
12363475 AACTAAGTAA
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 148 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTACA
GTAGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGATGCAGAGAGCAGATCGCATCAAA
Found at i:12363796 original size:17 final size:19
Alignment explanation
Indices: 12363729--12363789 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 19
12363719 NNNNNNNNNN
12363729 TAGATATGATATGCAATCT
1 TAGATATGATATGCAATCT
* **
12363748 TAGATATGATGTATAATCT
1 TAGATATGATATGCAATCT
12363767 TAGATATGATATGCAATCT
1 TAGATATGATATGCAATCT
12363786 TAGA
1 TAGA
12363790 AGATATGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
TAGATATGATATGCAATCT
Found at i:12363811 original size:23 final size:21
Alignment explanation
Indices: 12363730--12363816 Score: 85
Period size: 22 Copynumber: 4.2 Consensus size: 21
12363720 NNNNNNNNNT
12363730 AGATATGATATGCAATCTTAG
1 AGATATGATATGCAATCTTAG
*
12363751 ATATGATG-TAT--AATCTT--
1 AGAT-ATGATATGCAATCTTAG
12363768 AGATATGATATGCAATCTTAG
1 AGATATGATATGCAATCTTAG
* *
12363789 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TATGCAATCTTAG
12363812 AGATA
1 AGATA
12363817 CCCTTTAATC
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
16 3 0.06
17 6 0.11
19 12 0.22
21 6 0.11
22 16 0.30
23 11 0.20
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (21 bp):
AGATATGATATGCAATCTTAG
Found at i:12366947 original size:16 final size:16
Alignment explanation
Indices: 12366923--12366976 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
12366913 TTTGGTTCGC
*
12366923 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
12366939 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
*
12366955 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
12366971 TGTAAT
1 TGTAAT
12366977 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:12367021 original size:45 final size:44
Alignment explanation
Indices: 12366955--12367045 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
12366945 GGATTAGAGG
*
12366955 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
12367000 TGTAATTGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
12367044 TG
1 TG
12367046 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:12367061 original size:39 final size:40
Alignment explanation
Indices: 12366958--12367064 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 40
12366948 TTAGAGGTGT
12366958 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
* * ***
12366998 AATGTAATTGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTG
1 AATG-----GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
12367042 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
12367065 TAATGGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
39 16 0.30
40 4 0.07
44 18 0.33
45 16 0.30
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
Found at i:12372183 original size:22 final size:21
Alignment explanation
Indices: 12372146--12372207 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
12372136 TTTGTTTTTT
* *
12372146 TATTTTTTATTATATTGTTAA
1 TATTGTTTATTATATTATTAA
*
12372167 TATTGTTTATTTATATTATTAT
1 TATTGTTTA-TTATATTATTAA
12372189 TATTGTATTATTATATTAT
1 TATTGT-TTATTATATTAT
12372208 ATATTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.22
22 25 0.69
23 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (21 bp):
TATTGTTTATTATATTATTAA
Found at i:12372188 original size:3 final size:3
Alignment explanation
Indices: 12372180--12372220 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
12372170 TGTTTATTTA
*
12372180 TAT TAT TAT TAT T-G TAT TAT TA- TAT TAT ATAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
12372221 ACTTACTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:12372197 original size:8 final size:8
Alignment explanation
Indices: 12372152--12372232 Score: 55
Period size: 8 Copynumber: 10.1 Consensus size: 8
12372142 TTTTTATTTT
12372152 TTATTATA
1 TTATTATA
*
12372160 TTGTTA-A
1 TTATTATA
*
12372167 -TATTGT-
1 TTATTATA
12372173 TTATT-TA
1 TTATTATA
12372180 -TATTATTA
1 TTATTA-TA
*
12372188 TTATTGTA
1 TTATTATA
12372196 TTATTATA
1 TTATTATA
12372204 TTATATATTA
1 TTAT-TA-TA
12372214 TTATTATA
1 TTATTATA
12372222 CTTACTTATA
1 -TTA-TTATA
12372232 T
1 T
12372233 ATGCGTATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
6 8 0.14
7 5 0.09
8 22 0.38
9 12 0.21
10 11 0.19
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:12374089 original size:16 final size:16
Alignment explanation
Indices: 12374068--12374102 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12374058 TTGTGTTTTG
12374068 TTTTGAATGCATGACA
1 TTTTGAATGCATGACA
* *
12374084 TTTTGACTGCATGGCA
1 TTTTGAATGCATGACA
12374100 TTT
1 TTT
12374103 CATTATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (16 bp):
TTTTGAATGCATGACA
Found at i:12374583 original size:19 final size:19
Alignment explanation
Indices: 12374557--12374603 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
12374547 AACGTCTCTT
*
12374557 TATGCATT-CATTTCATGCA
1 TATGCATTACATTGCAT-CA
*
12374576 TTTGCATTACATTGCATCA
1 TATGCATTACATTGCATCA
12374595 TATGCATTA
1 TATGCATTA
12374604 AAATCCATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (19 bp):
TATGCATTACATTGCATCA
Found at i:12376848 original size:7 final size:7
Alignment explanation
Indices: 12376838--12376885 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
12376828 AGAAAAAAAT
12376838 AAAAACA
1 AAAAACA
12376845 AAAAACA
1 AAAAACA
12376852 AAAAACA
1 AAAAACA
12376859 AAACAA-A
1 AAA-AACA
12376866 AACAAACA
1 AA-AAACA
12376874 AAACAA-A
1 AAA-AACA
12376881 AAAAA
1 AAAAA
12376886 GAAGAAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 2 0.05
7 27 0.73
8 8 0.22
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:12376849 original size:14 final size:14
Alignment explanation
Indices: 12376838--12376885 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
12376828 AGAAAAAAAT
12376838 AAAAACAAAA-AACA
1 AAAAACAAAACAA-A
12376852 AAAAACAAAACAAA
1 AAAAACAAAACAAA
12376866 AACAAACAAAACAAA
1 AA-AAACAAAACAAA
12376881 AAAAA
1 AAAAA
12376886 GAAGAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 16 0.50
15 16 0.50
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAACAAAACAAA
Found at i:12378661 original size:44 final size:43
Alignment explanation
Indices: 12378611--12378925 Score: 111
Period size: 44 Copynumber: 7.2 Consensus size: 43
12378601 AAACTTCAGC
12378611 CTTGTCTCCCTGAGCAGTAGTGGAATATGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGTAGTGGAATA-GTTGAAAATAGCAGAT
* *** * * * *** *
12378655 CTTGTCTTCCTGTATTGGCAGT-GAAGTAGATCGAAGACCTCAG-C
1 CTTGTCTCCCTG-AGCAGTAGTGGAA-TAG-TTGAAAATAGCAGAT
* *
12378699 CTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGTAGAT
1 CTTGTCTCCCTGAGCAGTAGTGGAATA-GTTGAAAATAGCAGAT
* * *** * * * *** *
12378743 CTTGTCTTCTTGTATTGGCAGT-GAAGTAGATCAAAGACCTCAG-C
1 CTTGTCTCCCTG-AGCAGTAGTGGAA-TAGTTGAAA-ATAGCAGAT
*
12378787 CTTGTCTCCCTGAGCAGTAGTGGAGTAAGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGTAGTGGAAT-AGTTGAAAATAGCAGAT
** *** * * * * ***
12378831 CTTGTCTTTCTGTATTGGCAG-CGAAGTAGATCGAAGACCTCAG-T
1 CTTGTCTCCCTG-AGCAGTAGTGGAA-TAG-TTGAAAATAGCAGAT
* *
12378875 CTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGTAGTGGAATA-GTTGAAAATAGCAGAT
12378919 CTTGTCT
1 CTTGTCT
12378926 TACTGTATTG
Statistics
Matches: 177, Mismatches: 76, Indels: 36
0.61 0.26 0.12
Matches are distributed among these distances:
43 39 0.22
44 100 0.56
45 38 0.21
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CTTGTCTCCCTGAGCAGTAGTGGAATAGTTGAAAATAGCAGAT
Found at i:12379137 original size:88 final size:88
Alignment explanation
Indices: 12378606--12379132 Score: 813
Period size: 88 Copynumber: 6.0 Consensus size: 88
12378596 CGGTGAAACT
* *
12378606 TCAGCCTTGTCTCCCTGAGCAGTAGTGGAATATGTTGAAAATAGCAGATCTTGTCTTCCTGTATT
1 TCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATT
*
12378671 GGCAGTGAAGTAGATCGAAGACC
66 GGCAGCGAAGTAGATCGAAGACC
* *
12378694 TCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGTAGATCTTGTCTTCTTGTATT
1 TCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATT
* *
12378759 GGCAGTGAAGTAGATCAAAGACC
66 GGCAGCGAAGTAGATCGAAGACC
* *
12378782 TCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAAGTTGAAAATAGCAGATCTTGTCTTTCTGTATT
1 TCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATT
12378847 GGCAGCGAAGTAGATCGAAGACC
66 GGCAGCGAAGTAGATCGAAGACC
* * *
12378870 TCAGTCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTACTGTATT
1 TCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATT
* *
12378935 GGCAGCAAAGTAGATCGAAGATC
66 GGCAGCGAAGTAGATCGAAGACC
* *
12378958 TCAGCCTTGTCTCCCTGAGCGGTAGTGGAGTAGGTTGAAAATAGCAGATATTGTCTTCCTGTATT
1 TCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATT
*
12379023 GGCAGCGAAGTAGATCGAAGATAC
66 GGCAGCGAAGTAGATCGAAGA-CC
* * * * *
12379047 -CAGCCTTGTCTCTCTGAGCAGCAGTGGAGTAGGTTGAATATAGCAGATCTTGCCTTCCTGTACT
1 TCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATT
* * *
12379111 GGCAGTGAAGCAGATCAAAGAC
66 GGCAGCGAAGTAGATCGAAGAC
12379133 ACCAGTTTTA
Statistics
Matches: 403, Mismatches: 35, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
88 402 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (88 bp):
TCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATT
GGCAGCGAAGTAGATCGAAGACC
Found at i:12379429 original size:100 final size:99
Alignment explanation
Indices: 12379292--12379492 Score: 267
Period size: 100 Copynumber: 2.0 Consensus size: 99
12379282 ATTACAGTGG
* * *
12379292 AAAAGATTGAAGCCACCACAACAATCTTACTTTCTTGGCGGTGTAGTGGAACAAATTGAAGCCAC
1 AAAAGATTGAAGCCACAACAACAATCTTACTTCCTTGGCGATGTAGTGGAACAAATTGAAGCCAC
* *
12379357 GAAGGCGGATCTGGTTTCCCTGACATTACAATTA
66 GAAGGCGAATCTGGTTTCCCCGACATTACAATTA
* ** * *
12379391 AAAATATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGATGTAGTGGAATAGATTGAAGCCA
1 AAAAGATTGAAGCCACAACAAC-AATCTTACTTCCTTGGCGATGTAGTGGAACAAATTGAAGCCA
* * * *
12379456 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
65 CGAAGGCGAATCTGGTTTCCCCGACATTACAATTA
12379491 AA
1 AA
12379493 CAGACAGAAG
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
99 18 0.21
100 69 0.79
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (99 bp):
AAAAGATTGAAGCCACAACAACAATCTTACTTCCTTGGCGATGTAGTGGAACAAATTGAAGCCAC
GAAGGCGAATCTGGTTTCCCCGACATTACAATTA
Found at i:12380959 original size:3 final size:3
Alignment explanation
Indices: 12380951--12381005 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
12380941 TGTTTATTTA
*
12380951 TAT TAT TAT TACT GTAT TAT TAT TAG T-T TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12380996 ATAT TAT TAT
1 -TAT TAT TAT
12381006 ACTTACTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 3 0.07
3 35 0.78
4 5 0.11
5 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:12380973 original size:22 final size:22
Alignment explanation
Indices: 12380923--12381005 Score: 71
Period size: 22 Copynumber: 3.7 Consensus size: 22
12380913 TTTTAGTTTT
* * *
12380923 TTATTATGTTGTTAATACTGT-
1 TTATTATATTATTATTACTGTA
12380944 TTATTTATATTATTATTACTGTA
1 TTA-TTATATTATTATTACTGTA
* *
12380967 TTATTATTAGTTTATTATTATTATA
1 TTATTA-TA--TTATTATTACTGTA
12380992 TTA-TATATTATTAT
1 TTATTATATTATTAT
12381006 ACTTACTTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
21 10 0.19
22 18 0.35
23 7 0.13
24 2 0.04
25 15 0.29
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.61
Consensus pattern (22 bp):
TTATTATATTATTATTACTGTA
Found at i:12380995 original size:14 final size:14
Alignment explanation
Indices: 12380951--12381004 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
12380941 TGTTTATTTA
*
12380951 TATTATTATTACTG
1 TATTATTATTACTT
*
12380965 TATTATTATTAGTT
1 TATTATTATTACTT
12380979 TATTATTATTA-TAT
1 TATTATTATTACT-T
12380993 TATATATTATTA
1 TAT-TATTATTA
12381005 TACTTACTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
13 1 0.03
14 27 0.75
15 8 0.22
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (14 bp):
TATTATTATTACTT
Found at i:12381017 original size:18 final size:15
Alignment explanation
Indices: 12380945--12381006 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 15
12380935 TAATACTGTT
12380945 TATT-TATATTATTA
1 TATTATATATTATTA
12380959 TTACTGTAT-TATTATTA
1 -TA-T-TATATATTATTA
12380976 GT-TTAT-TATTATTA
1 -TATTATATATTATTA
12380990 TATTATATATTATTA
1 TATTATATATTATTA
12381005 TA
1 TA
12381007 CTTACTTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
13 1 0.02
14 15 0.37
15 13 0.32
16 1 0.02
17 10 0.24
18 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (15 bp):
TATTATATATTATTA
Found at i:12381198 original size:25 final size:26
Alignment explanation
Indices: 12381153--12381203 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
12381143 TTTCACGATC
*
12381153 TTTATATGTTTTCCCAA-TTTTATAA
1 TTTATATGTTTTCACAATTTTTATAA
*
12381178 TTTATATGTTTAT-ACAGTTTTTATAA
1 TTTATATGTTT-TCACAATTTTTATAA
12381204 CGTGTACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (26 bp):
TTTATATGTTTTCACAATTTTTATAA
Found at i:12383036 original size:19 final size:18
Alignment explanation
Indices: 12382995--12383036 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
12382985 TCACTTTTAG
12382995 TATTTATTAAAATTTAAT
1 TATTTATTAAAATTTAAT
* *
12383013 AATTTATCTAAAATTTATT
1 TATTTAT-TAAAATTTAAT
12383032 TATTT
1 TATTT
12383037 TAATTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTATTAAAATTTAAT
Found at i:12383246 original size:95 final size:94
Alignment explanation
Indices: 12383071--12383289 Score: 230
Period size: 96 Copynumber: 2.3 Consensus size: 94
12383061 AGAGCATGGC
*** * *
12383071 CTTAATTGCTTTTTTTTTTTAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTATCC
1 CTTAATTGC-TTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGTTCAAGTATCC
*
12383136 AATTGAGTAAAAAAAAAAAAAGAGAGAA-TA
65 AATTGAGTAAAAAAAAAAAAAGAG-GAAGGA
* * *
12383166 CTTAATTGCTTTTTTTGAAGAAA-TTTGAGGGCTTTTTTTTTATACATTTTGAAAGTTCAAGT-C
1 CTTAATTGCTTTTTTTGAA-AAAGTTTGAGGG--TCTTTTTGATACATTTTGAAAGTTCAAGTAT
** * *
12383229 CTCAATTGAGT-GCAAAAAAAAGAGAGGAAGGG
63 C-CAATTGAGTAAAAAAAAAAAAAGAGGAAGGA
12383261 CTTAATTGCTTTTTTTTGAAAAAGTTTGA
1 CTTAATTGC-TTTTTTTGAAAAAGTTTGA
12383290 CGATTTTTTA
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
94 18 0.17
95 37 0.35
96 50 0.48
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (94 bp):
CTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGTTCAAGTATCCA
ATTGAGTAAAAAAAAAAAAAGAGGAAGGA
Found at i:12384840 original size:85 final size:86
Alignment explanation
Indices: 12384692--12384869 Score: 288
Period size: 85 Copynumber: 2.1 Consensus size: 86
12384682 TTATTTCTAT
* ** *
12384692 AAACGCCGTTATAGAGCAGGACCTTTAGCGGCGCTTTTTCTGAAAAAGCCGCTACAGAGCAGGAC
1 AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGCTTTTTAGGAAAAAGCCGCTACAGAACAGGAC
12384757 CTTTAGCGGCGC-TTTTCCAC
66 CTTTAGCGGCGCTTTTTCCAC
*
12384777 AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGC-TTTTAGGAAAAACGCCGCTATAGAACAGGA
1 AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGCTTTTTAGGAAAAA-GCCGCTACAGAACAGGA
12384841 CCTTTAGCGGCGCTTTTTCCAC
65 CCTTTAGCGGCGCTTTTTCCAC
12384863 AAACGCC
1 AAACGCC
12384870 CCTAAAAACA
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
84 10 0.12
85 61 0.71
86 15 0.17
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGCTTTTTAGGAAAAAGCCGCTACAGAACAGGAC
CTTTAGCGGCGCTTTTTCCAC
Found at i:12384867 original size:43 final size:43
Alignment explanation
Indices: 12384692--12384869 Score: 252
Period size: 43 Copynumber: 4.2 Consensus size: 43
12384682 TTATTTCTAT
* *
12384692 AAACGCCGTTATAGAGCAGGACCTTTAGCGGCGCTTTTTCTGA-
1 AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGCTTTTTC-CAC
* *
12384735 AAAAGCCGCTACAGAGCAGGACCTTTAGCGGCGC-TTTTCCAC
1 AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGCTTTTTCCAC
*** *
12384777 AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGCTTTTAGGAA
1 AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGCTTTTTCCAC
*
12384820 AAACGCCGCTATAGAACAGGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGCTTTTTCCAC
12384863 AAACGCC
1 AAACGCC
12384870 CCTAAAAACA
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 37 0.31
43 80 0.68
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTATAGAGCAGGACCTTTAGCGGCGCTTTTTCCAC
Found at i:12389808 original size:7 final size:7
Alignment explanation
Indices: 12389798--12389851 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
12389788 CTTAAATCCT
12389798 AAACCCC
1 AAACCCC
12389805 AAACCCC
1 AAACCCC
*
12389812 AAATCCC
1 AAACCCC
12389819 AAACCCC
1 AAACCCC
*
12389826 AAACACC
1 AAACCCC
*
12389833 AAATCCC
1 AAACCCC
12389840 AAACCCC
1 AAACCCC
*
12389847 TAACC
1 AAACC
12389852 ACTAACCCCT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (7 bp):
AAACCCC
Found at i:12389815 original size:21 final size:21
Alignment explanation
Indices: 12389791--12389851 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
12389781 TCTAAACCTT
*
12389791 AAATCCTAAACCCCAAACCCC
1 AAATCCCAAACCCCAAACCCC
*
12389812 AAATCCCAAACCCCAAACACC
1 AAATCCCAAACCCCAAACCCC
*
12389833 AAATCCCAAACCCCTAACC
1 AAATCCCAAACCCCAAACC
12389852 ACTAACCCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.44, C:0.48, G:0.00, T:0.08
Consensus pattern (21 bp):
AAATCCCAAACCCCAAACCCC
Found at i:12389952 original size:7 final size:7
Alignment explanation
Indices: 12389940--12389966 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12389930 GAGCCCGAAT
12389940 CCCTAAC
1 CCCTAAC
12389947 CCCTAAC
1 CCCTAAC
12389954 CCCTAAC
1 CCCTAAC
12389961 CCCTAA
1 CCCTAA
12389967 ACATTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
CCCTAAC
Found at i:12390045 original size:88 final size:89
Alignment explanation
Indices: 12389916--12390112 Score: 310
Period size: 88 Copynumber: 2.2 Consensus size: 89
12389906 ATCCTAAATC
* * *
12389916 CTAAACCCT-AACCCGAGCCCGAATCCCT-AACCCCTAACCCCTAACCCCTAAACATTATTTAAT
1 CTAAACCCTAAACCCTAACCCG-A-CCCTAAATCCCTAACCCCTAACCCCTAAACATTATTTAAT
12389979 ATATAAATTAAAA-ACACTAATTAAT
64 ATATAAATTAAAATACACTAATTAAT
*
12390004 CTAAATCCTAAACCCTAACCCGACCCTAAATCCCTAACCCCTAACCCCTAAACATTATTTAATAT
1 CTAAACCCTAAACCCTAACCCGACCCTAAATCCCTAACCCCTAACCCCTAAACATTATTTAATAT
12390069 ATAAATTAAAATACACTAATTAAT
66 ATAAATTAAAATACACTAATTAAT
*
12390093 CTAAACCCTAAATCCTAACC
1 CTAAACCCTAAACCCTAACC
12390113 TGACATCGAA
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
87 4 0.04
88 56 0.56
89 40 0.40
ACGTcount: A:0.42, C:0.31, G:0.02, T:0.25
Consensus pattern (89 bp):
CTAAACCCTAAACCCTAACCCGACCCTAAATCCCTAACCCCTAACCCCTAAACATTATTTAATAT
ATAAATTAAAATACACTAATTAAT
Found at i:12390054 original size:102 final size:103
Alignment explanation
Indices: 12389841--12390110 Score: 311
Period size: 103 Copynumber: 2.8 Consensus size: 103
12389831 CCAAATCCCA
12389841 AACCCCTAACCACTAACCCCTAAATCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
1 AACCCCTAACCACTAACCCCTAAATCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
* * *
12389906 ATCCTAAATCCTAAACCCTAACCCGAGCCCGAATCCCT
66 ATCCTAAACCCTAAACCCTAACCCAAGCCCGAACCCCT
*
12389944 AACCCCTAACCCCTAACCCCTAAA-CATTATTTAATATATAAATT-AAAAACACTAATTAATCTA
1 AACCCCTAACCACTAACCCCTAAATC-TTATTTAATATATAAATTAAAAAACACTAATTAATCTA
* *
12390007 AATCCTAAACCCT-AACCC-GACCCTA-----AA----T
65 AATCCTAAACCCTAAACCCTAACCCAAGCCCGAACCCCT
* ** *
12390035 ---CCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAA
1 AACCCCTAACCACTAACCCCTAAATCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
* *
12390097 ACCCTAAATCCTAA
66 ATCCTAAACCCTAA
12390111 CCTGACATCG
Statistics
Matches: 155, Mismatches: 8, Indels: 21
0.84 0.04 0.11
Matches are distributed among these distances:
88 39 0.25
89 29 0.19
90 1 0.01
91 1 0.01
95 2 0.01
100 5 0.03
101 5 0.03
102 32 0.21
103 41 0.26
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.26
Consensus pattern (103 bp):
AACCCCTAACCACTAACCCCTAAATCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
ATCCTAAACCCTAAACCCTAACCCAAGCCCGAACCCCT
Found at i:12390216 original size:14 final size:15
Alignment explanation
Indices: 12390199--12390230 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
12390189 CTTAAATCAA
12390199 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
12390213 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
12390228 AAT
1 AAT
12390231 TTAAAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:12390733 original size:41 final size:41
Alignment explanation
Indices: 12390615--12390929 Score: 386
Period size: 41 Copynumber: 7.7 Consensus size: 41
12390605 AAATGTTTTT
* * * *
12390615 GCGGCGCTTTTTCAAAAACGCAGCTAAAG-CCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATCA
* * *** * *
12390655 GCGGCGC-TTCCCGAAAAACGCCGCCAAATCCCCGAGCATTA
1 GCGGCGCTTTTCC-AAAAACGCCGCTAAAGATCTGAGCATCA
*
12390696 GCGGCGCTTTTCCAAAAACGCCGCTACAGATCTGAGCATCA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATCA
* *
12390737 GCGGCGCTTTTCTAAAAATGCCGCTAAAGATCTGAGCATCA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATCA
* *
12390778 GCGGCGCTTTTCTAAAAACGCCGTTAAAGATCTGAGCATCA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATCA
*
12390819 GCGACGCTATTT-CAAAAACGCCGCTAAAGATCTGAGCATCA
1 GCGGCGCT-TTTCCAAAAACGCCGCTAAAGATCTGAGCATCA
* * * *
12390860 GCGGCGCTTTTTCAAAAATGCGGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATCA
12390901 GCGGCGCTTCTT-CAAAAACGCCGCTAAAG
1 GCGGCGCTT-TTCCAAAAACGCCGCTAAAG
12390930 CCTCGAAGGT
Statistics
Matches: 241, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.01
40 23 0.10
41 206 0.85
42 9 0.04
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATCA
Found at i:12391062 original size:39 final size:39
Alignment explanation
Indices: 12390987--12391062 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
12390977 TTTTTCTAGA
* * *
12390987 AAAACGCCACTAATGCTGATTTTTAGCGGCGCTTTTAGG
1 AAAACGCCACTAATGCTAATCTTTAACGGCGCTTTTAGG
*
12391026 AAAACGCCGCTAATGCTCAATCTTTAACGGCG-TTTTA
1 AAAACGCCACTAATGCT-AATCTTTAACGGCGCTTTTA
12391063 CGTAATGCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 21 0.66
40 11 0.34
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (39 bp):
AAAACGCCACTAATGCTAATCTTTAACGGCGCTTTTAGG
Found at i:12393085 original size:23 final size:23
Alignment explanation
Indices: 12393055--12393113 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
12393045 ATAAAAATGT
12393055 ACAAATCAACAAAGAAATTATAC
1 ACAAATCAACAAAGAAATTATAC
12393078 ACAAATCAACAAAGAAATTATAC
1 ACAAATCAACAAAGAAATTATAC
12393101 ACAAATCAACAAA
1 ACAAATCAACAAA
12393114 ATAAGAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.63, C:0.19, G:0.03, T:0.15
Consensus pattern (23 bp):
ACAAATCAACAAAGAAATTATAC
Found at i:12394256 original size:216 final size:216
Alignment explanation
Indices: 12393989--12394463 Score: 733
Period size: 216 Copynumber: 2.2 Consensus size: 216
12393979 CTTCAATCTG
* * *
12393989 CCATCTTCGATCTGCTCCACTA-TTTCTTAGGGAGATAAGATCTGTTTCTTCGGTTTGCTCTGCT
1 CCATCTTC-ATCTGCTCCACTACTGT-TTAGGGAGATAAGATCTGTTTCTTCGGTCTGCTCCGCT
* * *
12394053 GCAACCTCAGGGAGATAAGACCTGATGCGATCTATTCTACTACAACTTCAAAGAGATAAGATCTA
64 GCAACCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTACAACTCCAAAGAGATAAGATCTA
12394118 TTATTTTAATCCGCTCCACTGCAACCTCAGGGAA-ATAGGATTACTGGCTTCAATCTACTCCACT
129 TTATTTTAATCCGCTCCACTGCAACCTCA-GGAAGATAGGATTACTGGCTTCAATCTACTCCACT
*
12394182 GTAACCTTAGGGAGGTAAAATCCA
193 GTAACCTCAGGGAGGTAAAATCCA
*
12394206 CCATCTTCATCTGTTCCACTACTGTTTAGGGAGATAAGATCTGTTTCTTCGGTCTGCTCCGCTGC
1 CCATCTTCATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTTTCTTCGGTCTGCTCCGCTGC
* * * *
12394271 AACTTCAGGGAGATAAGACCTGATGCAATCTACTCTACTGCAACTCCAGAGAGATAAGATCTGTT
66 AACCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTACAACTCCAAAGAGATAAGATCTATT
* *
12394336 ATTTTAATTCGCTCCACTGCAACCTCAGGAAGATAGGATTAGTGGCTTCAATCTACTCCACTGTA
131 ATTTTAATCCGCTCCACTGCAACCTCAGGAAGATAGGATTACTGGCTTCAATCTACTCCACTGTA
* *
12394401 GCCTCAGGGAGGTAAAATCCG
196 ACCTCAGGGAGGTAAAATCCA
* *
12394422 CCATCTTC--CTGCTCCACTACTGCTCAGGGAGATAAGATCTGT
1 CCATCTTCATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGT
12394464 AAATTTTTTT
Statistics
Matches: 237, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
214 31 0.13
215 4 0.02
216 192 0.81
217 10 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (216 bp):
CCATCTTCATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTTTCTTCGGTCTGCTCCGCTGC
AACCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTACAACTCCAAAGAGATAAGATCTATT
ATTTTAATCCGCTCCACTGCAACCTCAGGAAGATAGGATTACTGGCTTCAATCTACTCCACTGTA
ACCTCAGGGAGGTAAAATCCA
Found at i:12394710 original size:87 final size:88
Alignment explanation
Indices: 12394562--12394768 Score: 281
Period size: 87 Copynumber: 2.4 Consensus size: 88
12394552 CTGTAATTTT
* * **
12394562 TCAATCTAATCCACTGCTGACTAGGGAGATAGAATTCACAATCTTCAACCTATTTTACTGCTGAC
1 TCAATCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGAC
*
12394627 CAGGGAGATAGGACCTACAATCT
66 CAGGGAGATAGGACCTACAATCC
* * * *
12394650 TTAATCTATTCCACTGCTGCCCAGGGAG-TAGAGTTCTCAATCTTCAACCTATTCCACTGCTGAC
1 TCAATCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGAC
*
12394714 CAGGGAGATAGGACTTACAATCC
66 CAGGGAGATAGGACCTACAATCC
* ** *
12394737 TCAACCTATTCCACTGCTTTCTAGGGAGATAG
1 TCAATCTATTCCACTGCTGACCAGGGAGATAG
12394769 GACTAGTATC
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 76 0.74
88 27 0.26
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (88 bp):
TCAATCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGAC
CAGGGAGATAGGACCTACAATCC
Found at i:12394769 original size:44 final size:45
Alignment explanation
Indices: 12394561--12394772 Score: 245
Period size: 44 Copynumber: 4.8 Consensus size: 45
12394551 TCTGTAATTT
* * * *
12394561 TTCAATCTAATCCACTGCTGACTAGGGAGATA-GAATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTCACAATC
** *
12394605 TTCAACCTATTTTACTGCTGACCAGGGAGATAGGACCT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTCACAATC
* * * * *
12394649 TTTAATCTATTCCACTGCTGCCCAGGGAG-TA-GAGTTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTCACAATC
12394692 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTCACAATC
* ** *
12394736 CTCAACCTATTCCACTGCTTTCTAGGGAGATAGGACT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACT
12394773 AGTATCTTCG
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.02
43 33 0.24
44 97 0.69
45 7 0.05
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (45 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTCACAATC
Found at i:12400111 original size:23 final size:24
Alignment explanation
Indices: 12400081--12400127 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
12400071 AAATTAAATC
12400081 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
12400104 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
12400128 AAGATAGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:12400139 original size:19 final size:19
Alignment explanation
Indices: 12400104--12400178 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
12400094 AATCATATCT
12400104 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
12400125 TCTAAGATAGCATATCATA
1 TCTAAGATTGCATATCATA
12400144 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
12400163 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
12400179 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 42 0.81
21 10 0.19
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12402763 original size:13 final size:13
Alignment explanation
Indices: 12402743--12402778 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
12402733 TCAAAGTTAT
12402743 CCTAGCCCAAATA
1 CCTAGCCCAAATA
* *
12402756 CTTAGCCCAGATA
1 CCTAGCCCAAATA
12402769 CCTAGCCCAA
1 CCTAGCCCAA
12402779 TTGCTAAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.39, G:0.11, T:0.17
Consensus pattern (13 bp):
CCTAGCCCAAATA
Found at i:12404126 original size:25 final size:26
Alignment explanation
Indices: 12404098--12404157 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
12404088 AAAGAGATAT
12404098 ATATGTATATAGATATAAATTA-AAA
1 ATATGTATATAGATATAAATTATAAA
* * * *
12404123 ATATGTATGTATATGTGAATTATAAA
1 ATATGTATATAGATATAAATTATAAA
*
12404149 ATATATATA
1 ATATGTATA
12404158 AAAAATATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (26 bp):
ATATGTATATAGATATAAATTATAAA
Found at i:12404188 original size:14 final size:13
Alignment explanation
Indices: 12404143--12404193 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
12404133 ATATGTGAAT
*
12404143 TATAAAATATATA
1 TATAAAATATACA
*
12404156 TAAAAAATATACA
1 TATAAAATATACA
12404169 TATAAAATATACA
1 TATAAAATATACA
*
12404182 TTTTAAAATATA
1 -TATAAAATATA
12404194 AAGAATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
13 23 0.70
14 10 0.30
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (13 bp):
TATAAAATATACA
Found at i:12405091 original size:13 final size:14
Alignment explanation
Indices: 12405068--12405098 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
12405058 CAAAATAAAA
12405068 AAAACGAAAAACAG
1 AAAACGAAAAACAG
12405082 AAAA-GAAAAACAG
1 AAAACGAAAAACAG
12405095 AAAA
1 AAAA
12405099 AAACAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.77, C:0.10, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAACGAAAAACAG
Found at i:12405106 original size:21 final size:20
Alignment explanation
Indices: 12405067--12405111 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
12405057 TCAAAATAAA
* * *
12405067 AAAAACGAAAAACAGAAAAG
1 AAAAACGAAAAAAACAAAAC
12405087 AAAAACAGAAAAAAACAAAAC
1 AAAAAC-GAAAAAAACAAAAC
12405108 AAAA
1 AAAA
12405112 CCTTTCGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.80, C:0.11, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAACGAAAAAAACAAAAC
Found at i:12407145 original size:26 final size:25
Alignment explanation
Indices: 12407095--12407146 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
12407085 TTTTTGGTTA
*
12407095 TTTAAATTTCTTGTATATTATTTAT
1 TTTAAATTTCTTGTACATTATTTAT
12407120 TTTAAATTT-TTGTACATATACTTTAT
1 TTTAAATTTCTTGTACAT-TA-TTTAT
12407146 T
1 T
12407147 GATTTACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 11 0.46
26 6 0.25
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTAAATTTCTTGTACATTATTTAT
Found at i:12408479 original size:17 final size:16
Alignment explanation
Indices: 12408461--12408491 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12408451 AGATTCAATA
12408461 AAAAAAATCAAAAAAT
1 AAAAAAATCAAAAAAT
*
12408477 AAAGAAATCAAAAAA
1 AAAAAAATCAAAAAA
12408492 ATTTAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAAATCAAAAAAT
Found at i:12409461 original size:13 final size:13
Alignment explanation
Indices: 12409443--12409482 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
12409433 TTGAGTTTAA
12409443 AAAAATAAAAAAG
1 AAAAATAAAAAAG
12409456 AAAAAT---AAAG
1 AAAAATAAAAAAG
*
12409466 AAAAAGAAAAAAG
1 AAAAATAAAAAAG
12409479 AAAA
1 AAAA
12409483 TGGAGAGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.39
13 14 0.61
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (13 bp):
AAAAATAAAAAAG
Found at i:12409637 original size:42 final size:42
Alignment explanation
Indices: 12409554--12409637 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
12409544 AAACCCGAAA
* * *
12409554 AGGGCGGCTCAAATATTTATCAGAATGGGGCATGTGATGGTC
1 AGGGCAGCTCAAATATTTATCAGAATAGGGCATGAGATGGTC
12409596 AGGGCAGCTCAAATATTGT-TCAGAATAGGGCATGCAG-TGGTC
1 AGGGCAGCTCAAATATT-TATCAGAATAGGGCATG-AGATGGTC
12409638 TTGCTATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (42 bp):
AGGGCAGCTCAAATATTTATCAGAATAGGGCATGAGATGGTC
Found at i:12410827 original size:45 final size:45
Alignment explanation
Indices: 12410777--12411124 Score: 527
Period size: 45 Copynumber: 7.8 Consensus size: 45
12410767 AATATATATA
12410777 GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
* * **
12410822 GTCTTCTTGTATTGACAGCGAAGTAGATCGAAGATAATAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
* *
12410867 GTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAACAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
* * *
12410912 GTCTTCCTGTATTAGCAGTGAAGTAGATCGAAGATAGCATATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
* *
12410957 GTCTTCCTGTATTGGTAGCGAAGTAGATCGAAGATAGCCGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
* * * *
12411002 GTCTTCTTGTATTGGCAGTG-AGTAGATCAAAGATGGCAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
*
12411046 GTCCTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
* *
12411091 GTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
12411125 CACCAGTCTT
Statistics
Matches: 270, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
44 38 0.14
45 232 0.86
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
GTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
Found at i:12411425 original size:132 final size:132
Alignment explanation
Indices: 12411134--12411749 Score: 868
Period size: 132 Copynumber: 4.7 Consensus size: 132
12411124 ACACCAGTCT
* * * *
12411134 TATCTCCCAGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCTCCCTACGCAGTAGTGA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
* * *
12411199 AGCAGATCGAAGACGGCGAATC-T-TC-T--CAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGT
66 AGCAGATCGAAGACGGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACAAAT
*
12411259 CT
131 CC
* **
12411261 TATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCCTACCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
*
12411326 AGCAGATTGAAGACGGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACAAAT
66 AGCAGATCGAAGACGGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACAAAT
12411391 CC
131 CC
* * * * *
12411393 TATCTCCCTGAGCAGCAGTGAAATAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGAAATAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
* *
12411458 AGCAGATCGAAGATGGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACAAGT
66 AGCAGATCGAAGACGGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACAAAT
*
12411523 CT
131 CC
* * *
12411525 TATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTAG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
* * ** * * *
12411590 AGCAGATCAAAGGCAACAAATCCTATCTTCCCAAGGTAGTAGGAAAGCAGATTTAAGCCACCAAT
66 AGCAGATCGAAGACGGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACAAAT
12411655 CTC
131 C-C
*
12411658 T-TCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
* *
12411722 AGCAGATCGAATG-CAGCGAATCTTATCT
66 AGCAGATCGAA-GACGGCAAATCTTATCT
12411750 CCTTGGTGTT
Statistics
Matches: 432, Mismatches: 50, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
127 78 0.18
128 1 0.00
129 2 0.00
130 1 0.00
132 348 0.81
133 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACAAAT
CC
Found at i:12411949 original size:44 final size:44
Alignment explanation
Indices: 12411841--12411958 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 44
12411831 TGAAGATAAC
* * *
12411841 CAACCTTATCTCCCTAAAGTTGCAGTGGAGTCGGTTGAAGATAT
1 CAACCTTATCTCCCTAAAGTTGCAGTGGAGGCGATTAAAGATAT
* *** * *
12411885 CAATCTTATCTTTTTGAAGTTGCAGTGG-GGCAGATTAAAGTTA-
1 CAACCTTATCTCCCTAAAGTTGCAGTGGAGGC-GATTAAAGATAT
*
12411928 CAAGCCTTATCTCCCTAAAGTTGTAGTGGAG
1 CAA-CCTTATCTCCCTAAAGTTGCAGTGGAG
12411959 TAGACTGAGG
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
43 5 0.09
44 50 0.89
45 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (44 bp):
CAACCTTATCTCCCTAAAGTTGCAGTGGAGGCGATTAAAGATAT
Found at i:12412031 original size:45 final size:45
Alignment explanation
Indices: 12411930--12412037 Score: 110
Period size: 45 Copynumber: 2.4 Consensus size: 45
12411920 TAAAGTTACA
* * * *
12411930 AGCCTTATCTCCCTAAAGTTGTAGTGGAGTAGACTGAGGATGGTG
1 AGCCTTATCTCCCTGAAGTTGCAATGGAGTAGACTGAGGATAGTG
** * **
12411975 AATCTTGTCTCCCTGAAGTTGCAATGGAGTAGGTTGAAGGA-AGTG
1 AGCCTTATCTCCCTGAAGTTGCAATGGAGTAGACTG-AGGATAGTG
*
12412020 AGCCTTATCTCCCCGAAG
1 AGCCTTATCTCCCTGAAG
12412038 CTACAGTGGG
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
45 45 0.92
46 4 0.08
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (45 bp):
AGCCTTATCTCCCTGAAGTTGCAATGGAGTAGACTGAGGATAGTG
Found at i:12412533 original size:16 final size:16
Alignment explanation
Indices: 12412512--12412545 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12412502 TTTTTCATCA
12412512 TTATTTT-TTCTTTATT
1 TTATTTTATT-TTTATT
12412528 TTATTTTATTTTTATT
1 TTATTTTATTTTTATT
12412544 TT
1 TT
12412546 GTACTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTATTTTATTTTTATT
Found at i:12413570 original size:3 final size:3
Alignment explanation
Indices: 12413555--12413588 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
12413545 TTTTATATCG
* *
12413555 TTA TTA CTA TTA TTA TTA TTA GTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12413589 ATTTATGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:12416132 original size:24 final size:24
Alignment explanation
Indices: 12416094--12416393 Score: 144
Period size: 24 Copynumber: 12.8 Consensus size: 24
12416084 TGAATTGGAT
* *
12416094 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
12416119 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
*
12416143 AATTT-AAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * * *
12416163 GATTCTAGAATAATCATACATGATA
1 AATT-TAAAATAATAATATATGATA
** * * *
12416188 AATCCAAAATGATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
12416212 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
12416233 AATTTGAAATAA-ATATACATGATA
1 AATTTAAAATAATA-ATATATGATA
** * *
12416257 AATTTAAAATAATGTTA-ACGATG
1 AATTTAAAATAATAATATATGATA
12416280 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
12416303 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
* **
12416327 AATCTAAAATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
* * * *
12416351 AACTT-AGATAATATTA-ATGATT
1 AATTTAAAATAATAATATATGATA
*
12416373 AATTTAATGATAATAAGTATA
1 AATTTAA-AATAATAA-TATA
12416394 AACATTCAAA
Statistics
Matches: 204, Mismatches: 49, Indels: 43
0.69 0.17 0.15
Matches are distributed among these distances:
20 4 0.02
21 13 0.06
22 26 0.13
23 59 0.29
24 86 0.42
25 15 0.07
26 1 0.00
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:12416362 original size:70 final size:69
Alignment explanation
Indices: 12416171--12416376 Score: 191
Period size: 70 Copynumber: 3.0 Consensus size: 69
12416161 ATGATTCTAG
* * * * * * *
12416171 AATAATCATACATGATAAATCCAAAATGATAGTATATAATAAATTTAAAAATATTAATGATAAAT
1 AATAATAATACATGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAAT
**
12416236 TTGA
66 TACA
* ** * * *
12416240 AATAA-ATATACATGATAAATTTAAAATAATGTTA-ACGATGAATTTAAAATAATAATATTGATA
1 AATAATA-ATACATGATAAATCTAAAATAATAATATACAATAAATTT--AATAATAATAATGATA
12416303 AATTACA
63 AATTACA
* * * *
12416310 AATAATAAAACATGATAAATCTAAAATAATAATATACAATAAACTTAGATAATATTAATGATTAA
1 AATAATAATACATGATAAATCTAAAATAATAATATACAATAAATTTA-ATAATAATAATGATAAA
12416375 TT
65 TT
12416377 TAATGATAAT
Statistics
Matches: 107, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
68 8 0.07
69 28 0.26
70 62 0.58
71 9 0.08
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.33
Consensus pattern (69 bp):
AATAATAATACATGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAAT
TACA
Found at i:12417172 original size:21 final size:21
Alignment explanation
Indices: 12417148--12417211 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
12417138 TTTTGATTTC
12417148 TTTTTCCTCCCTTTACACTGA
1 TTTTTCCTCCCTTTACACTGA
** *
12417169 TTTTTTTTCTCTTTACACTGA
1 TTTTTCCTCCCTTTACACTGA
*
12417190 -TTTTCC-CCCTTTACATTGA
1 TTTTTCCTCCCTTTACACTGA
12417209 TTT
1 TTT
12417212 CCTCTCTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 11 0.31
20 6 0.17
21 18 0.51
ACGTcount: A:0.14, C:0.27, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTTCCTCCCTTTACACTGA
Found at i:12417201 original size:19 final size:19
Alignment explanation
Indices: 12417149--12417211 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
12417139 TTTGATTTCT
12417149 TTTTCCTCCCTTTACACTGA
1 TTTTCC-CCCTTTACACTGA
** *
12417169 TTTTTTTTCTCTTTACACTGA
1 --TTTTCCCCCTTTACACTGA
*
12417190 TTTTCCCCCTTTACATTGA
1 TTTTCCCCCTTTACACTGA
12417209 TTT
1 TTT
12417212 CCTCTCTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 18 0.53
21 12 0.35
22 4 0.12
ACGTcount: A:0.14, C:0.27, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTCCCCCTTTACACTGA
Found at i:12417220 original size:19 final size:20
Alignment explanation
Indices: 12417149--12417220 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
12417139 TTTGATTTCT
*
12417149 TTTTCCTCCCTTTACACTGA
1 TTTTCCTCTCTTTACACTGA
**
12417169 TTTTTTTTCTCTTTACACTGA
1 -TTTTCCTCTCTTTACACTGA
* *
12417190 TTTTCC-CCCTTTACATTGA
1 TTTTCCTCTCTTTACACTGA
12417209 -TTTCCTCTCTTT
1 TTTTCCTCTCTTT
12417221 TTTATGAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 5 0.12
19 16 0.38
20 4 0.10
21 17 0.40
ACGTcount: A:0.12, C:0.29, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTCCTCTCTTTACACTGA
Found at i:12418597 original size:18 final size:18
Alignment explanation
Indices: 12418562--12418600 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12418552 ACTCATTTTA
**
12418562 ATTTAAAACAAATTAAAT
1 ATTTAAAACAAAAAAAAT
*
12418580 ATTTATAACAAAAAAAAT
1 ATTTAAAACAAAAAAAAT
12418598 ATT
1 ATT
12418601 CAAATGGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTTAAAACAAAAAAAAT
Found at i:12420418 original size:86 final size:86
Alignment explanation
Indices: 12420272--12420442 Score: 254
Period size: 86 Copynumber: 2.0 Consensus size: 86
12420262 CTATGTGGTA
*
12420272 GGCCATATGAGCCACTGACTTAGGTCACACGAACGAGTGACATGGCAGTGTGCCCAAACCATGCT
1 GGCCATATGAGCCACTGACTTAGGTCACACGAACGAGTCACATGGCAGTGTGCCCAAACCATGCT
*
12420337 AGGGATTGACTTGAGCCACAT
66 AGGGATTCACTTGAGCCACAT
* ** ** *
12420358 GGCCATGTGAGCCACTGACTTAGGTCACACGAGTGTA-TCACATGGTTGTGTGCCCTAACCATGC
1 GGCCATATGAGCCACTGACTTAGGTCACACGAACG-AGTCACATGGCAGTGTGCCCAAACCATGC
12420422 TAGGGATTCACTTGAGCCACA
65 TAGGGATTCACTTGAGCCACA
12420443 CGACTATGTG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
86 75 0.99
87 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (86 bp):
GGCCATATGAGCCACTGACTTAGGTCACACGAACGAGTCACATGGCAGTGTGCCCAAACCATGCT
AGGGATTCACTTGAGCCACAT
Found at i:12422289 original size:27 final size:26
Alignment explanation
Indices: 12422259--12422359 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 26
12422249 CCAAAATAGA
* *
12422259 TAAACTGACCAAAATACCCTCATAGGG
1 TAAA-TGACCGAAATACCCCCATAGGG
*
12422286 TAAAATGATCGAAATACCCCCATAGGG
1 T-AAATGACCGAAATACCCCCATAGGG
*
12422313 TTAAATGACTGAAATACCCCCATAGGG
1 -TAAATGACCGAAATACCCCCATAGGG
*
12422340 TAGAATGATCGAAATACCCC
1 TA-AATGACCGAAATACCCC
12422360 TAGAAGATGA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 2 0.03
27 58 0.91
28 4 0.06
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.20
Consensus pattern (26 bp):
TAAATGACCGAAATACCCCCATAGGG
Found at i:12422373 original size:54 final size:54
Alignment explanation
Indices: 12422270--12422377 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
12422260 AAACTGACCA
* * * * *
12422270 AAATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGGTTAAATGACTG
1 AAATACCCCCATAGGGTAAAATGATCGAAATACCCCCAGAAGATGAAATGACTG
* *
12422324 AAATACCCCCATAGGGTAGAATGATCGAAATACCCCTAGAAGATGAAATGACTG
1 AAATACCCCCATAGGGTAAAATGATCGAAATACCCCCAGAAGATGAAATGACTG
12422378 TTATGGCTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (54 bp):
AAATACCCCCATAGGGTAAAATGATCGAAATACCCCCAGAAGATGAAATGACTG
Found at i:12424872 original size:21 final size:21
Alignment explanation
Indices: 12424846--12424896 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
12424836 CCTAAAAATG
* *
12424846 TTAAAATTTTGATTTTATCCT
1 TTAAAAATTTGATTTAATCCT
12424867 TTAAAAATTTGATTTAATCCT
1 TTAAAAATTTGATTTAATCCT
12424888 TTAAAAATT
1 TTAAAAATT
12424897 AAAATTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (21 bp):
TTAAAAATTTGATTTAATCCT
Found at i:12424900 original size:27 final size:29
Alignment explanation
Indices: 12424870--12424923 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
12424860 TTATCCTTTA
* *
12424870 AAAATTTGATTT-AA-TCCTTTAAAAATT
1 AAAATTTAATTTCAACTCCTCTAAAAATT
12424897 AAAATTTAATTTCAACTCCTCTAAAAA
1 AAAATTTAATTTCAACTCCTCTAAAAA
12424924 AAATTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 2 0.09
29 10 0.43
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAATTTAATTTCAACTCCTCTAAAAATT
Found at i:12424903 original size:22 final size:21
Alignment explanation
Indices: 12424857--12424906 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
12424847 TAAAATTTTG
* **
12424857 ATTTTATCCTTTAAAAATTTG
1 ATTTAATCCTTTAAAAATTAA
12424878 ATTTAATCCTTTAAAAATTAAA
1 ATTTAATCCTTTAAAAATT-AA
12424900 ATTTAAT
1 ATTTAAT
12424907 TTCAACTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTAATCCTTTAAAAATTAA
Found at i:12429481 original size:24 final size:26
Alignment explanation
Indices: 12429430--12429482 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
12429420 ATATTAAGAA
*
12429430 TTTTATTATGGACTATGACGATAGAAG
1 TTTTATTATGGACTATGAC-ATAAAAG
12429457 TTTTATTATGGACTA-GA-ATAAAAG
1 TTTTATTATGGACTATGACATAAAAG
12429481 TT
1 TT
12429483 CAGATAGTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
26 2 0.08
27 15 0.60
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.40
Consensus pattern (26 bp):
TTTTATTATGGACTATGACATAAAAG
Found at i:12436854 original size:16 final size:17
Alignment explanation
Indices: 12436822--12436858 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
12436812 TATATGTACA
*
12436822 TATATATTATAAAAATG
1 TATAGATTATAAAAATG
12436839 TATAGATTAT-AAAATG
1 TATAGATTATAAAAATG
12436855 TATA
1 TATA
12436859 CAGACATGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (17 bp):
TATAGATTATAAAAATG
Found at i:12437081 original size:3 final size:3
Alignment explanation
Indices: 12437026--12437068 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
12437016 AAAATAAAAT
* * *
12437026 TAA TAA GAA TTAA TAA TAG TAA CAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12437069 GGTTAAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:12447098 original size:17 final size:17
Alignment explanation
Indices: 12447071--12447873 Score: 357
Period size: 17 Copynumber: 44.7 Consensus size: 17
12447061 AATACGGTAA
*
12447071 AAAAATTTTGAAACACG
1 AAAATTTTTGAAACACG
* * **
12447088 AATATTTTTGAAAAAAT
1 AAAATTTTTGAAACACG
* **
12447105 TATTTTTTTGAAAACACG
1 AAAATTTTTG-AAACACG
* *
12447123 AAAAAAATTTTAAAACACG
1 --AAAATTTTTGAAACACG
* * *
12447142 AGAATTTTAGAGACACG
1 AAAATTTTTGAAACACG
**
12447159 AAAATTCTTAAAAAACACG
1 AAAATT-TT-TGAAACACG
*
12447178 AAAATTTTTAAAACACGG
1 AAAATTTTTGAAACAC-G
* * *
12447196 GAATTTTTTGAAAACATG
1 AAAATTTTTG-AAACACG
12447214 AAAATTTTTGAAAACATCG
1 AAAATTTTTG-AAACA-CG
*
12447233 -GAATTTTTGAAGACACG
1 AAAATTTTTGAA-ACACG
*
12447250 AAGATTTTTGAAACACAGG
1 AAAATTTTTGAAACAC--G
* * *
12447269 AAATTTTTTTTAAAACAAG
1 AAA--ATTTTTGAAACACG
*
12447288 AAGATTTTTG-AA-ACG
1 AAAATTTTTGAAACACG
* * * *
12447303 ATTATTTTTTAAAAAAACG
1 A-AAATTTTT-GAAACACG
*
12447322 AAAATTTATGAAACACG
1 AAAATTTTTGAAACACG
** *
12447339 AGATTTTTTTTTGAAAACTCG
1 A-A--AATTTTTG-AAACACG
**
12447360 AAAATTTTCAAAACACCG
1 AAAATTTTTGAAACA-CG
12447378 -AAATTTTTGAAAACACG
1 AAAATTTTTG-AAACACG
** * *
12447395 AGGATTTTTGAAAAACA
1 AAAATTTTTGAAACACG
* *
12447412 AAAAATTTTGAAAACACA
1 AAAATTTTTG-AAACACG
12447430 AAAATTTTTGAAAGCAC-
1 AAAATTTTTGAAA-CACG
*
12447447 AGAAATTTTTAAAACACGG
1 A-AAATTTTTGAAACAC-G
* *
12447466 GAATTTTTTGAAACACCG
1 AAAATTTTTGAAACA-CG
12447484 -AAATTTTTGAAAACACG
1 AAAATTTTTG-AAACACG
*
12447501 AAGATTTTTGAAACACG
1 AAAATTTTTGAAACACG
12447518 CAAAA-TTTTGAAAACACG
1 -AAAATTTTTG-AAACACG
* *
12447536 AAAATTTTAGAAATACG
1 AAAATTTTTGAAACACG
*
12447553 AAAATTTTAGAAACAC-
1 AAAATTTTTGAAACACG
* *
12447569 AAACATTTTTAAAACAGG
1 AAA-ATTTTTGAAACACG
*
12447587 ACAATTTTTGAAACACG
1 AAAATTTTTGAAACACG
* * **
12447604 AGAATTTTTTAAAAAACATAA
1 A-AAATTTTT--GAAACA-CG
** *
12447625 AAAAAATTTAAAACACG
1 AAAATTTTTGAAACACG
*
12447642 AAAATTTGTGAAACACG
1 AAAATTTTTGAAACACG
* * * *
12447659 AGAATTGTTGAAAATACA
1 AAAATTTTTG-AAACACG
* *
12447677 AAAAGTTTTGAAAATACG
1 AAAATTTTTG-AAACACG
*
12447695 AAAATTTTTGAAACACA
1 AAAATTTTTGAAACACG
* *
12447712 AAAATTTTAGAAACATG
1 AAAATTTTTGAAACACG
*
12447729 GAAATTTTTAGAAAACACGG
1 AAAATTTTT-G-AAACAC-G
* *
12447749 AAAA-TTTTGAAAAATGG
1 AAAATTTTTGAAACA-CG
**
12447766 AATTTTTTTGAAAACACG
1 AAAATTTTTG-AAACACG
*
12447784 AATATTTTTTGAAACACGAG
1 AA-AATTTTTGAAACAC--G
*
12447804 AAAAATTATTTTGAAGCCACG
1 -AAAA-T-TTTTGAA-ACACG
*
12447825 AAAA-TTTCGAAACACGG
1 AAAATTTTTGAAACAC-G
*
12447842 AAATTTTTTGTGAAAACACG
1 AAA-ATTTT-TG-AAACACG
*
12447862 AAATTTTTTGAA
1 AAAATTTTTGAA
12447874 TATTTACAAT
Statistics
Matches: 592, Mismatches: 133, Indels: 122
0.70 0.16 0.14
Matches are distributed among these distances:
15 3 0.01
16 13 0.02
17 231 0.39
18 206 0.35
19 65 0.11
20 36 0.06
21 28 0.05
22 7 0.01
23 3 0.01
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (17 bp):
AAAATTTTTGAAACACG
Found at i:12447178 original size:19 final size:19
Alignment explanation
Indices: 12447154--12447190 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12447144 AATTTTAGAG
12447154 ACACGAAAATTCTTAAAAA
1 ACACGAAAATTCTTAAAAA
*
12447173 ACACGAAAATTTTTAAAA
1 ACACGAAAATTCTTAAAA
12447191 CACGGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (19 bp):
ACACGAAAATTCTTAAAAA
Found at i:12447402 original size:35 final size:36
Alignment explanation
Indices: 12447170--12447797 Score: 272
Period size: 35 Copynumber: 17.6 Consensus size: 36
12447160 AAATTCTTAA
* * *
12447170 AAAACACGAAAATTTTT-AAAACACGGGAATTTTTTG
1 AAAACACGAAGATTTTTGAAAACAC-CGAAATTTTTG
* * * *
12447206 AAAACATGAAAATTTTTGAAAACATCGGAATTTTTG
1 AAAACACGAAGATTTTTGAAAACACCGAAATTTTTG
* * *
12447242 AAGACACGAAGATTTTTG-AAACACAGGAAATTTTTTTT
1 AAAACACGAAGATTTTTGAAAACAC-CGAAA--TTTTTG
* * *
12447280 AAAACAAGAAGATTTTTG--AA-A-CGATTATTTTTTA
1 AAAACACGAAGATTTTTGAAAACACCGA--AATTTTTG
* * * *
12447314 AAAAAACGAAAATTTATG-AAACA-CGAGATTTTTTTTTG
1 AAAACACGAAGATTTTTGAAAACACCGA-A---ATTTTTG
* * *
12447352 AAAACTCGAA-AATTTTCAAAACACCGAAATTTTTG
1 AAAACACGAAGATTTTTGAAAACACCGAAATTTTTG
* ** *
12447387 AAAACACGAGGATTTTTGAAAA-ACAAAAAATTTTG
1 AAAACACGAAGATTTTTGAAAACACCGAAATTTTTG
* * * *
12447422 AAAACACAAAAATTTTTGAAAGCACAGAAATTTTT-
1 AAAACACGAAGATTTTTGAAAACACCGAAATTTTTG
*
12447457 AAAACACGGGAA-TTTTTTG-AAACACCGAAATTTTTG
1 AAAACAC--GAAGATTTTTGAAAACACCGAAATTTTTG
*
12447493 AAAACACGAAGATTTTTG-AAACA-CGCAAAATTTTG
1 AAAACACGAAGATTTTTGAAAACACCG-AAATTTTTG
* * * *
12447528 AAAACACGAAAATTTTAG-AAATA-CGAAAATTTT-
1 AAAACACGAAGATTTTTGAAAACACCGAAATTTTTG
* * *
12447561 AGAAACACAAACATTTTT-AAAACA-GGACAATTTTTG
1 A-AAACACGAAGATTTTTGAAAACACCGA-AATTTTTG
* *** **
12447597 -AAACACG-AGAATTTTTTAAAAAACATAAAAAAAATTT-
1 AAAACACGAAG-A-TTTTT-GAAAACA-CCGAAATTTTTG
* * *
12447634 AAAACACGAAAATTTGTG-AAACA-CGAGAATTGTTG
1 AAAACACGAAGATTTTTGAAAACACCGA-AATTTTTG
* * * * *
12447669 AAAATACAAAAAGTTTTGAAAATA-CGAAAATTTTTG
1 AAAACACGAAGATTTTTGAAAACACCG-AAATTTTTG
* * * **
12447705 -AAACACAAAAATTTTAG-AAACATGGAAATTTTTAG
1 AAAACACGAAGATTTTTGAAAACACCGAAATTTTT-G
* ** *
12447740 AAAACACGGAA-AATTTTGAAAA-ATGGAATTTTTTTG
1 AAAACAC-GAAGATTTTTGAAAACACCGAA-ATTTTTG
*
12447776 AAAACACGAATATTTTTTGAAA
1 AAAACACGAAGA-TTTTTGAAA
12447798 CACGAGAAAA
Statistics
Matches: 461, Mismatches: 87, Indels: 87
0.73 0.14 0.14
Matches are distributed among these distances:
33 3 0.01
34 76 0.16
35 161 0.35
36 119 0.26
37 43 0.09
38 54 0.12
39 5 0.01
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (36 bp):
AAAACACGAAGATTTTTGAAAACACCGAAATTTTTG
Found at i:12447648 original size:55 final size:52
Alignment explanation
Indices: 12447314--12447724 Score: 228
Period size: 53 Copynumber: 7.7 Consensus size: 52
12447304 TTATTTTTTA
* * * ** * *
12447314 AAAAAACGAAAATTTATGAAACACGAGATTTTTTTTTGAAAACTC-GAAAATTTT
1 AAAACACGAAAATTTTTGAAACACGAGA---ATTTTTGAAAAAACAAAAAAATTT
* *
12447368 CAAAACACCG-AAATTTTTGAAAACACGAGGATTTTTG-AAAAACAAAAAATTTT
1 -AAAACA-CGAAAATTTTTG-AAACACGAGAATTTTTGAAAAAACAAAAAAATTT
* * ** ***
12447421 GAAAACACAAAAATTTTTGAAAGCAC-AGAAATTTTT-AAAACACGGGAATTTTTT
1 -AAAACACGAAAATTTTTGAAA-CACGAG-AATTTTTGAAAAAAC-AAAAAAATTT
* * ** *
12447475 GAAACACCG-AAATTTTTGAAAACACGA-AGATTTTTG-AAACACGCAAAATTTT
1 AAAACA-CGAAAATTTTTG-AAACACGAGA-ATTTTTGAAAAAACAAAAAAATTT
* * * * * * **
12447527 GAAAACACGAAAATTTTAGAAATACGAAAATTTTAG-AAACACAAACATTTTT
1 -AAAACACGAAAATTTTTGAAACACGAGAATTTTTGAAAAAACAAAAAAATTT
* * *
12447579 AAAACAGGACAATTTTTGAAACACGAGAATTTTTTAAAAAACATAAAAAAAATTT
1 AAAACACGAAAATTTTTGAAACACGAGAATTTTTGAAAAAAC---AAAAAAATTT
* * * **
12447634 AAAACACGAAAATTTGTGAAACACGAGAATTGTTGAAAATACAAAAAGTTTT
1 AAAACACGAAAATTTTTGAAACACGAGAATTTTTGAAAAAACAAAAAAATTT
* * * *
12447686 GAAAATACGAAAATTTTTGAAACACAAAAATTTTAGAAA
1 -AAAACACGAAAATTTTTGAAACACGAGAATTTTTGAAA
12447725 CATGGAAATT
Statistics
Matches: 282, Mismatches: 53, Indels: 44
0.74 0.14 0.12
Matches are distributed among these distances:
51 28 0.10
52 58 0.21
53 118 0.42
54 11 0.04
55 56 0.20
56 11 0.04
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.28
Consensus pattern (52 bp):
AAAACACGAAAATTTTTGAAACACGAGAATTTTTGAAAAAACAAAAAAATTT
Found at i:12447873 original size:18 final size:17
Alignment explanation
Indices: 12447076--12447869 Score: 320
Period size: 18 Copynumber: 44.2 Consensus size: 17
12447066 GGTAAAAAAA
12447076 TTTTG-AAACACGAATAT
1 TTTTGAAAACACGAA-AT
* ** **
12447093 TTTTGAAAAAATTATTT
1 TTTTGAAAACACGAAAT
*
12447110 TTTTGAAAACACGAAAAAAA
1 TTTTGAAAACACG---AAAT
12447130 TTTT-AAAACACGAGAAT
1 TTTTGAAAACACGA-AAT
* *
12447147 TTTAG-AGACACGAAAAT
1 TTTTGAAAACACG-AAAT
**
12447164 TCTTAAAAAACACGAAAAT
1 T-TTTGAAAACACG-AAAT
*
12447183 TTTT-AAAACACGGGAATT
1 TTTTGAAAACAC--GAAAT
*
12447201 TTTTGAAAACATGAAAAT
1 TTTTGAAAACACG-AAAT
*
12447219 TTTTGAAAACATCGGAAT
1 TTTTGAAAACA-CGAAAT
*
12447237 TTTTGAAGACACGAAGAT
1 TTTTGAAAACACGAA-AT
*
12447255 TTTTGAAACACAGGAAATTT
1 TTTTGAAA-ACACGAAA--T
* *
12447275 TTTTTAAAACAAGAAGAT
1 TTTTGAAAACACGAA-AT
*
12447293 TTTTG--AA-ACGATTATT
1 TTTTGAAAACACGA--AAT
* *
12447309 TTTTAAAAAAACGAAAAT
1 TTTTGAAAACACG-AAAT
* *
12447327 TTATG-AAACACGAGATTTTT
1 TTTTGAAAACACGA-A---AT
* *
12447347 TTTTGAAAACTCGAAAA
1 TTTTGAAAACACGAAAT
*
12447364 TTTTCAAAACACCGAAAT
1 TTTTGAAAACA-CGAAAT
*
12447382 TTTTGAAAACACGAGGAT
1 TTTTGAAAACACGA-AAT
* *
12447400 TTTTGAAAA-ACAAAAAA
1 TTTTGAAAACAC-GAAAT
*
12447417 TTTTGAAAACACAAAAAT
1 TTTTGAAAACAC-GAAAT
*
12447435 TTTTGAAAGCACAGAAAT
1 TTTTGAAAACAC-GAAAT
*
12447453 TTTT-AAAACACGGGAATT
1 TTTTGAAAACAC--GAAAT
12447471 TTTTG-AAACACCGAAAT
1 TTTTGAAAACA-CGAAAT
12447488 TTTTGAAAACACGAAGAT
1 TTTTGAAAACACGAA-AT
*
12447506 TTTTG-AAACACGCAAAA
1 TTTTGAAAACACG-AAAT
*
12447523 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAT
* *
12447540 TTTT-AGAAATACGAAAA
1 TTTTGA-AAACACGAAAT
*
12447557 TTTT-AGAAACACAAACAT
1 TTTTGA-AAACACGAA-AT
*
12447575 TTTT-AAAACAGGACAAT
1 TTTTGAAAACACGA-AAT
12447592 TTTTG-AAACACGAGAATT
1 TTTTGAAAACACGA-AA-T
* ** *
12447610 TTTTAAAAAACATAAAAAAA
1 TTTT-GAAAAC--ACGAAAT
*
12447630 ATTT-AAAACACGAAAAT
1 TTTTGAAAACACG-AAAT
*
12447647 TTGTG-AAACACGAGAAT
1 TTTTGAAAACACGA-AAT
* * * *
12447664 TGTTGAAAATACAAAAAG
1 TTTTGAAAACAC-GAAAT
*
12447682 TTTTGAAAATACGAAAAT
1 TTTTGAAAACACG-AAAT
* *
12447700 TTTTG-AAACACAAAAA
1 TTTTGAAAACACGAAAT
*
12447716 TTTT-AGAAACATGGAAAT
1 TTTTGA-AAACA-CGAAAT
*
12447734 TTTTAGAAAACACGGAAAA
1 TTTT-GAAAACAC-GAAAT
* *
12447753 TTTTGAAAA-ATGGAATTT
1 TTTTGAAAACA-CGAA-AT
12447771 TTTTGAAAACACGAATATT
1 TTTTGAAAACACGAA-A-T
12447790 TTTTG-AAACACGAGAAAAATT
1 TTTTGAAAACAC--G--AAA-T
** *
12447811 ATTTTGAAGCCACGAAAA
1 -TTTTGAAAACACGAAAT
*
12447829 TTTCG-AAACACGGAAATTT
1 TTTTGAAAACAC-GAAA--T
12447848 TTTGTGAAAACACGAAAT
1 TTT-TGAAAACACGAAAT
12447866 TTTT
1 TTTT
12447870 TGAATATTTA
Statistics
Matches: 596, Mismatches: 104, Indels: 154
0.70 0.12 0.18
Matches are distributed among these distances:
15 3 0.01
16 23 0.04
17 199 0.33
18 233 0.39
19 71 0.12
20 35 0.06
21 19 0.03
22 9 0.02
23 4 0.01
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (17 bp):
TTTTGAAAACACGAAAT
Found at i:12449207 original size:10 final size:9
Alignment explanation
Indices: 12449182--12449276 Score: 75
Period size: 10 Copynumber: 10.0 Consensus size: 9
12449172 GAATTGAACC
12449182 TCTTTTTTT
1 TCTTTTTTT
*
12449191 CTTTTTTCTTT
1 -TCTTTT-TTT
12449202 TCTTTTTTCT
1 TCTTTTTT-T
12449212 TCTTTTTTCT
1 TCTTTTTT-T
*
12449222 TCTATTTTT
1 TCTTTTTTT
12449231 TCTTTTTTTT
1 TC-TTTTTTT
*
12449241 TCTCCTTTTT
1 TCT-TTTTTT
*
12449251 TCTTTTCTT
1 TCTTTTTTT
**
12449260 T-TTTTCCT
1 TCTTTTTTT
12449268 TCTTTTTTT
1 TCTTTTTTT
12449277 CTTCGGCCTG
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
8 7 0.10
9 16 0.23
10 44 0.63
11 3 0.04
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:12449214 original size:22 final size:21
Alignment explanation
Indices: 12449184--12449280 Score: 106
Period size: 22 Copynumber: 4.4 Consensus size: 21
12449174 ATTGAACCTC
*
12449184 TTTTT-TTCTTTTTTCTTTTCT
1 TTTTTCTTCTTTTTTCTTCT-T
12449205 TTTTTCTTCTTTTTTCTTCTAT
1 TTTTTCTTCTTTTTTCTTCT-T
* *
12449227 TTTTTCTTTTTTTTTCTCCTT
1 TTTTTCTTCTTTTTTCTTCTT
*
12449248 TTTTCTTTTCTTTTTTTCCTTCTT
1 TTTT-TCTTC-TTTTTT-CTTCTT
12449272 TTTTTCTTC
1 TTTTTCTTC
12449281 GGCCTGCTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.16
22 35 0.55
23 10 0.16
24 9 0.14
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTCTTCTTTTTTCTTCTT
Found at i:12449270 original size:12 final size:11
Alignment explanation
Indices: 12449182--12449280 Score: 109
Period size: 12 Copynumber: 9.2 Consensus size: 11
12449172 GAATTGAACC
12449182 TCTTTTTTTCT
1 TCTTTTTTTCT
*
12449193 T-TTTTCTT-T
1 TCTTTTTTTCT
12449202 TC-TTTTTTCT
1 TCTTTTTTTCT
12449212 TC-TTTTTTCT
1 TCTTTTTTTCT
12449222 TCTATTTTTTCT
1 TCT-TTTTTTCT
12449234 T-TTTTTTTCT
1 TCTTTTTTTCT
* *
12449244 CCTTTTTTCTTT
1 TCTTTTTT-TCT
12449256 TCTTTTTTTCCT
1 TCTTTTTTT-CT
12449268 TCTTTTTTTCT
1 TCTTTTTTTCT
12449279 TC
1 TC
12449281 GGCCTGCTTC
Statistics
Matches: 75, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
9 7 0.09
10 27 0.36
11 13 0.17
12 28 0.37
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTTTTCT
Found at i:12449566 original size:6 final size:6
Alignment explanation
Indices: 12449555--12449617 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
12449545 TTTTTCCTTT
* * *
12449555 TTTTTC TCTTTC TTTTTC TTTTTC TTTTTC TTTTTTC TTCTTC TTCTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC
* *
12449604 TTCTTC TTCTTC TT
1 TTTTTC TTTTTC TT
12449618 CCTCCTTGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
6 47 0.89
7 6 0.11
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:12449570 original size:12 final size:12
Alignment explanation
Indices: 12449545--12449585 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
12449535 TATAATAAGT
12449545 TTTTTC-CTTT-
1 TTTTTCTCTTTC
12449555 TTTTTCTCTTTC
1 TTTTTCTCTTTC
*
12449567 TTTTTCTTTTTC
1 TTTTTCTCTTTC
12449579 TTTTTCT
1 TTTTTCT
12449586 TTTTTCTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
10 6 0.21
11 4 0.14
12 18 0.64
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTCTTTC
Found at i:12449577 original size:22 final size:21
Alignment explanation
Indices: 12449544--12449617 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 21
12449534 CTATAATAAG
* *
12449544 TTTTTTCCTTTTT-TTTCTCT
1 TTTTTTTCTTTTTCTTTTTCT
12449564 TTCTTTTTCTTTTTCTTTTTCT
1 TT-TTTTTCTTTTTCTTTTTCT
* *
12449586 TTTTTCTTCTTCTTCTTCTTCT
1 TTTTT-TTCTTTTTCTTTTTCT
* *
12449608 TCTTCTTCTT
1 TTTTTTTCTT
12449618 CCTCCTTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.04
21 18 0.40
22 25 0.56
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTTTCTTTTTCTTTTTCT
Found at i:12449589 original size:19 final size:19
Alignment explanation
Indices: 12449555--12449605 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
12449545 TTTTTCCTTT
*
12449555 TTTTTCTCTTTC-TTTTTC
1 TTTTTCTTTTTCTTTTTTC
12449573 TTTTTCTTTTTCTTTTTTC
1 TTTTTCTTTTTCTTTTTTC
* *
12449592 TTCTTCTTCTTCTT
1 TTTTTCTTTTTCTT
12449606 CTTCTTCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 11 0.38
19 18 0.62
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTTTCTTTTTTC
Found at i:12449590 original size:34 final size:34
Alignment explanation
Indices: 12449545--12449620 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
12449535 TATAATAAGT
* * *
12449545 TTTTTCCTTTTTTTTC-TCTTTCTTTTTCTTTTTC
1 TTTTTCCTTTTTCTTCTTC-TTCTTCTTCTTCTTC
*
12449579 TTTTTCTTTTTTCTTCTTCTTCTTCTTCTTCTTC
1 TTTTTCCTTTTTCTTCTTCTTCTTCTTCTTCTTC
*
12449613 TTCTTCCT
1 TTTTTCCT
12449621 CCTTGAACCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 33 0.94
35 2 0.06
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (34 bp):
TTTTTCCTTTTTCTTCTTCTTCTTCTTCTTCTTC
Found at i:12449597 original size:3 final size:3
Alignment explanation
Indices: 12449564--12449618 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
12449554 TTTTTTCTCT
* * *
12449564 TTC TTT TTC TTT TTC TTT TTC TT- TT- TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
12449610 TTC TTC TTC
1 TTC TTC TTC
12449619 CTCCTTGAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (3 bp):
TTC
Found at i:12450124 original size:29 final size:28
Alignment explanation
Indices: 12450068--12450193 Score: 144
Period size: 29 Copynumber: 4.2 Consensus size: 28
12450058 GGCCAAAACA
12450068 TAATTTTGAGAAAATTTAGGGGTCAAAATG
1 TAATTTT-A-AAAATTTAGGGGTCAAAATG
**
12450098 TAATTTTAAAAATTTTATAGGTCAAAATG
1 TAATTTTAAAAA-TTTAGGGGTCAAAATG
*
12450127 TAATTTTAGGAAAATTTAGGGGTTAAAATG
1 TAATTTTA--AAAATTTAGGGGTCAAAATG
* *
12450157 CAATTTTAAAAGGTTTAGGGGTCAAAATG
1 TAATTTTAAAA-ATTTAGGGGTCAAAATG
12450186 TAAATTTT
1 T-AATTTT
12450194 TTATTTTTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
28 7 0.09
29 38 0.46
30 33 0.40
31 4 0.05
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.37
Consensus pattern (28 bp):
TAATTTTAAAAATTTAGGGGTCAAAATG
Found at i:12450140 original size:59 final size:59
Alignment explanation
Indices: 12450068--12450193 Score: 173
Period size: 59 Copynumber: 2.1 Consensus size: 59
12450058 GGCCAAAACA
* * *
12450068 TAATTTTGAGAAAATTTAGGGGTCAAAATGTAATTTTAAAAATTTTATAGGTCAAAATG
1 TAATTTTGAGAAAATTTAGGGGTCAAAATGCAATTTTAAAAAGTTTAGAGGTCAAAATG
* * *
12450127 TAATTTT-AGGAAAATTTAGGGGTTAAAATGCAATTTTAAAAGGTTTAGGGGTCAAAATG
1 TAATTTTGA-GAAAATTTAGGGGTCAAAATGCAATTTTAAAAAGTTTAGAGGTCAAAATG
12450186 TAAATTTT
1 T-AATTTT
12450194 TTATTTTTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 1 0.02
59 52 0.88
60 6 0.10
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.37
Consensus pattern (59 bp):
TAATTTTGAGAAAATTTAGGGGTCAAAATGCAATTTTAAAAAGTTTAGAGGTCAAAATG
Found at i:12450481 original size:76 final size:76
Alignment explanation
Indices: 12450386--12451043 Score: 1140
Period size: 76 Copynumber: 8.7 Consensus size: 76
12450376 ACATCGGCGT
* *
12450386 GTGACCCGAGGCTTAACTCACCTCTCGTACTATGAGTTAATTTTTGAAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
12450451 AATACCTCAGC
66 AATACCTCAGC
*
12450462 GTGACCCAAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
12450527 AATACCTCAGC
66 AATACCTCAGC
*
12450538 GTGACCCAAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
12450603 AATACCTCAGC
66 AATACCTCAGC
*
12450614 GTGACCCAAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
12450679 AATACCTCAGC
66 AATACCTCAGC
*
12450690 GTGACCCAAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
12450755 AATACCTCAGC
66 AATACCTCAGC
* *
12450766 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAA-AACAAAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
12450830 AATACCTCAGC
66 AATACCTCAGC
** * *
12450841 GTGACCCGAGGCTCAACTCACCTCTCGTTTTATGAGTTGATTTTTGAAAAAAAAACAGTAATTAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTG-AAAAACAACAGAAATTAA
12450906 AAATACCTCAGC
65 AAATACCTCAGC
* * *
12450918 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAATAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
12450983 AATACCTCAGC
66 AATACCTCAGC
* *
12450994 GTGACCCGAGGCTCAACTCACCTC-CGTATTATGAGTTGATTTTTTAAAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAA
12451044 TACCTCAGCG
Statistics
Matches: 567, Mismatches: 13, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
75 93 0.16
76 407 0.72
77 67 0.12
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (76 bp):
GTGACCCGAGGCTCAACTCACCTCTCGTACTATGAGTTGATTTTTGAAAAACAACAGAAATTAAA
AATACCTCAGC
Found at i:12451070 original size:59 final size:60
Alignment explanation
Indices: 12450978--12451104 Score: 238
Period size: 59 Copynumber: 2.1 Consensus size: 60
12450968 AAAATAGAAA
12450978 TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTC-CGTATTATGAGTTGATTTT
1 TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTT
12451037 TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTT
1 TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTT
12451097 TTGAAAAA
1 TT-AAAAA
12451105 CAAAAATTGA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
59 40 0.61
60 21 0.32
61 5 0.08
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (60 bp):
TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTT
Found at i:12452013 original size:6 final size:6
Alignment explanation
Indices: 12451992--12452056 Score: 100
Period size: 6 Copynumber: 11.3 Consensus size: 6
12451982 CTTTTCTTTG
*
12451992 TTGTTT TT-TGT TTGTTT TTGTTT TTG-TT TT-TTT TTGTTT TTGTTT
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT
12452037 TTGTTT TTGTTT TTGTTT TT
1 TTGTTT TTGTTT TTGTTT TT
12452057 AGGCATAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
5 12 0.22
6 42 0.78
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTGTTT
Found at i:12452045 original size:34 final size:34
Alignment explanation
Indices: 12451971--12452056 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 34
12451961 TTCATCTTGA
* *
12451971 TTTTTCTTTTTCTTTTCTTTGTTGTTTTTTGTTTG
1 TTTTTGTTTTTGTTTT-TTTGTTGTTTTTTGTTTG
*
12452006 TTTTTGTTTTTGTTTTTTT-TTGTTTTTGTTTTTG
1 TTTTTGTTTTTGTTTTTTTGTTGTTTTT-TGTTTG
12452040 TTTTTGTTTTTGTTTTT
1 TTTTTGTTTTTGTTTTT
12452057 AGGCATAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 8 0.17
34 25 0.53
35 14 0.30
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (34 bp):
TTTTTGTTTTTGTTTTTTTGTTGTTTTTTGTTTG
Found at i:12462872 original size:18 final size:18
Alignment explanation
Indices: 12462851--12463544 Score: 234
Period size: 18 Copynumber: 39.0 Consensus size: 18
12462841 ACAATTATTT
12462851 TTTTGAAAACACGAAAAA
1 TTTTGAAAACACGAAAAA
* *
12462869 TTTTTAAAACACG-AGAA
1 TTTTGAAAACACGAAAAA
12462886 TTTT-AGAAACACG-AAAA
1 TTTTGA-AAACACGAAAAA
*
12462903 TTCTTAAAAAACACG-AAAA
1 TT-TT-GAAAACACGAAAAA
* **
12462922 TTCTT-AAAACACGGGAATT
1 TT-TTGAAAACAC-GAAAAA
* *
12462941 TTTTGAAAACATGAAAAT
1 TTTTGAAAACACGAAAAA
* * *
12462959 TTTTGAAAACATTG-GAAT
1 TTTTGAAAACA-CGAAAAA
* * *
12462977 TTTTGAAGACACGAAGAT
1 TTTTGAAAACACGAAAAA
* **
12462995 TTTTGAAACACAGGAAATTT
1 TTTTGAAA-ACACGAAA-AA
* * * *
12463015 TTTTTAAAACATGAAGAT
1 TTTTGAAAACACGAAAAA
* **
12463033 TTTTG-AAACA--ATTATT
1 TTTTGAAAACACGA-AAAA
**
12463049 TTTTTTAAA-ACG-AAAA
1 TTTTGAAAACACGAAAAA
* ***
12463065 TTTACG-AAACACGAGATTTT
1 TTT-TGAAAACACGA-A-AAA
12463085 TTTTGAAAACACG-AAAA
1 TTTTGAAAACACGAAAAA
* *
12463102 TTTTCAAAACACCG-AAAT
1 TTTTGAAAACA-CGAAAAA
** *
12463120 TTTTGAAAACACGAGGAT
1 TTTTGAAAACACGAAAAA
*
12463138 TTTTG-AAACACGAAAAG
1 TTTTGAAAACACGAAAAA
* *
12463155 TTTTGAAAATACAAAAAA
1 TTTTGAAAACACGAAAAA
* *
12463173 TTTTTAAAACAC-AGAAA
1 TTTTGAAAACACGAAAAA
* * **
12463190 TTTTTAAAACACGGGAATT
1 TTTTGAAAACAC-GAAAAA
*
12463209 TTTTG-AAACACCG-AAAT
1 TTTTGAAAACA-CGAAAAA
* *
12463226 TTTTGAAAACACGAAGAT
1 TTTTGAAAACACGAAAAA
*
12463244 TTTTG-AAACACGCAAAA
1 TTTTGAAAACACGAAAAA
12463261 TTTTGAAAACACG-AAAA
1 TTTTGAAAACACGAAAAA
*
12463278 TTTT-AGAAATACG-AAAA
1 TTTTGA-AAACACGAAAAA
*
12463295 TTTT-AGAAACAC-AAACA
1 TTTTGA-AAACACGAAAAA
* * * *
12463312 TTTTTAAAACAGGACAAT
1 TTTTGAAAACACGAAAAA
**
12463330 TTTTG-AAACACGAGAATT
1 TTTTGAAAACACGA-AAAA
* **
12463348 TTTTAAAAAACATAAAAAAA
1 TTTT-GAAAACA-CGAAAAA
*
12463368 ATTT-AAAACACG-AAAA
1 TTTTGAAAACACGAAAAA
*
12463384 TTTGTG-AAACACG-AGAA
1 TTT-TGAAAACACGAAAAA
* *
12463401 TTGTTGAAAATA-TAAAAA
1 TT-TTGAAAACACGAAAAA
*
12463419 TTTTTGAAAACACGAAAAT
1 -TTTTGAAAACACGAAAAA
12463438 TTTTG-AAACAC-AAAAA
1 TTTTGAAAACACGAAAAA
* * * *
12463454 TTTTAAAAACATGGAAAT
1 TTTTGAAAACACGAAAAA
12463472 TTTTAGAAAACACTG-AAAA
1 TTTT-GAAAACAC-GAAAAA
* ***
12463491 TTTTGAAAA-ATAGAATTT
1 TTTTGAAAACA-CGAAAAA
**
12463509 TTTTGAAAACACGAATATT
1 TTTTGAAAACACGAA-AAA
12463528 TTTTG-AAACACGAAAAA
1 TTTTGAAAACACGAAAAA
12463545 AATTATTTTG
Statistics
Matches: 518, Mismatches: 105, Indels: 107
0.71 0.14 0.15
Matches are distributed among these distances:
15 1 0.00
16 29 0.06
17 181 0.35
18 201 0.39
19 75 0.14
20 30 0.06
21 1 0.00
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.30
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAA
Found at i:12462896 original size:35 final size:35
Alignment explanation
Indices: 12462857--12463544 Score: 267
Period size: 35 Copynumber: 19.3 Consensus size: 35
12462847 ATTTTTTTGA
*
12462857 AAACACGAAAAATTTTTAAAACACGAGAATTTTAG
1 AAACACGAAAAATTTTTAAAACACGAAAATTTTAG
*
12462892 AAACACG-AAAATTCTTAAAAAACACGAAAATTCTTA-
1 AAACACGAAAAATT-TT-TAAAACACGAAAATT-TTAG
** * * *
12462928 AAACACGGGAATTTTTTGAAAACATGAAAATTTTTG
1 AAACACGAAAAATTTTT-AAAACACGAAAATTTTAG
** * * *
12462964 AAA-AC-ATTGGAATTTTTGAAGACACGAAGATTTTTG
1 AAACACGA--AAAATTTTT-AAAACACGAAAATTTTAG
** * * *
12463000 AAACACAGGAAATTTTTTTTAAAACATGAAGATTTTTG
1 AAACAC--GAAA-AATTTTTAAAACACGAAAATTTTAG
* ** *
12463038 AAACA--ATTATTTTTTTTAAA-ACGAAAA-TTTACG
1 AAACACGA-AAAATTTTTAAAACACGAAAATTTTA-G
***
12463071 AAACACGAGATTTTTTTTGAAAACACGAAAATTTTCA-
1 AAACACGA-AAAATTTTT-AAAACACGAAAATTTT-AG
** *
12463108 AAACACCG--AAATTTTTGAAAACACGAGGATTTTTG
1 AAACA-CGAAAAATTTTT-AAAACACGAAAATTTTAG
* * * *
12463143 AAACACGAAAAGTTTTGAAAATACAAAAAATTTTTA-
1 AAACACGAAAAATTTTTAAAACAC-GAAAA-TTTTAG
* * * *
12463179 AAACAC-AGAAATTTTTAAAACACGGGAATTTTTTG
1 AAACACGAAAAATTTTTAAAACAC-GAAAATTTTAG
* *
12463214 AAACACCG--AAATTTTTGAAAACACGAAGATTTTTG
1 AAACA-CGAAAAATTTTT-AAAACACGAAAATTTTAG
* *
12463249 AAACACGCAAAATTTTGAAAACACGAAAATTTTAG
1 AAACACGAAAAATTTTTAAAACACGAAAATTTTAG
*
12463284 AAATACG-AAAA-TTTTAGAAACAC-AAACATTTTTA-
1 AAACACGAAAAATTTTTA-AAACACGAAA-A-TTTTAG
* * * * *
12463318 AAACA-GGACAATTTTTGAAACACGAGAATTTTTTAAA
1 AAACACGAAAAATTTTTAAAACACGA-AA-ATTTT-AG
** **
12463355 AAACATAAAAAAAATTTAAAACACGAAAATTTGT-G
1 AAACACGAAAAATTTTTAAAACACGAAAATTT-TAG
* * * ** *
12463390 AAACACG-AGAATTGTTGAAAATATAAAAATTTTTG
1 AAACACGAAAAATT-TTTAAAACACGAAAATTTTAG
* * *
12463425 AAAACACG-AAAATTTTTGAAACACAAAAATTTTAA
1 -AAACACGAAAAATTTTTAAAACACGAAAATTTTAG
* *
12463460 AAACATG-GAAATTTTTAGAAAACACTGAAAATTTT-G
1 AAACACGAAAAATTTTT--AAAACAC-GAAAATTTTAG
** ** * *
12463496 AAA-AATAGAATTTTTTTGAAAACACGAATATTTTTTG
1 AAACACGA-AAAATTTTT-AAAACACGAA-AATTTTAG
12463533 AAACACGAAAAA
1 AAACACGAAAAA
12463545 AATTATTTTG
Statistics
Matches: 496, Mismatches: 102, Indels: 108
0.70 0.14 0.15
Matches are distributed among these distances:
32 3 0.01
33 19 0.04
34 67 0.14
35 169 0.34
36 136 0.27
37 53 0.11
38 42 0.08
39 6 0.01
40 1 0.00
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.30
Consensus pattern (35 bp):
AAACACGAAAAATTTTTAAAACACGAAAATTTTAG
Found at i:12463088 original size:37 final size:38
Alignment explanation
Indices: 12463046--12463123 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 38
12463036 TGAAACAATT
* *
12463046 ATTTTTTTT--AAA-ACGAAAATTTACGAAACA-CGAG
1 ATTTTTTTTGAAAACACGAAAATTTACAAAACACCGAA
*
12463080 ATTTTTTTTGAAAACACGAAAATTTTCAAAACACCGAA
1 ATTTTTTTTGAAAACACGAAAATTTACAAAACACCGAA
12463118 ATTTTT
1 ATTTTT
12463124 GAAAACACGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 9 0.24
36 3 0.08
37 16 0.43
38 9 0.24
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (38 bp):
ATTTTTTTTGAAAACACGAAAATTTACAAAACACCGAA
Found at i:12463332 original size:51 final size:51
Alignment explanation
Indices: 12463091--12463498 Score: 206
Period size: 53 Copynumber: 7.7 Consensus size: 51
12463081 TTTTTTTTGA
* * * ** *
12463091 AAACACGAAAATTTTCAAAACACCG-AAATTTTTGAAAACACGAGGATTTTTG
1 AAACACCAAAATTTTGAAAACA-CGAAAATTTTAG-AAACACGAAAATTTTAG
* * * *
12463143 AAACACGAAAAGTTTTGAAAATACAAAAAATTTTTA-AAACACAGAAATTTTTA-
1 AAACACCAAAA-TTTTGAAAACAC-GAAAA-TTTTAGAAACAC-GAAAATTTTAG
* ** * * *
12463196 AAACACGGGAATTTTTTG-AAACACCG-AAATTTTTGAAAACACGAAGATTTTTG
1 AAACAC--CAAAATTTTGAAAACA-CGAAAATTTTAG-AAACACGAAAATTTTAG
*
12463249 AAACACGCAAAATTTTGAAAACACGAAAATTTTAGAAATACGAAAATTTTAG
1 AAACAC-CAAAATTTTGAAAACACGAAAATTTTAGAAACACGAAAATTTTAG
* * * * * *
12463301 AAACA-CAAACATTTTTAAAACAGGACAATTTTTGAAACACGAGAATTTTTTAAA
1 AAACACCAAA-ATTTTGAAAACACGAAAATTTTAGAAACACGA-AA-ATTTT-AG
** * *
12463355 AAACATAAAAAAAATTT-AAAACACGAAAATTTGT-GAAACACGAGAATTGTT-G
1 AAAC--ACCAAAATTTTGAAAACACGAAAATTT-TAGAAACACGAAAATT-TTAG
* ** * * *
12463407 AAAATATAAAAATTTTTGAAAACACGAAAATTTTTGAAACACAAAAATTTTAA
1 -AAACACCAAAA-TTTTGAAAACACGAAAATTTTAGAAACACGAAAATTTTAG
** *
12463460 AAACATGGAAATTTTTAGAAAACACTGAAAATTTT-GAAA
1 AAACA-CCAAAATTTT-GAAAACAC-GAAAATTTTAGAAA
12463499 AATAGAATTT
Statistics
Matches: 279, Mismatches: 47, Indels: 59
0.72 0.12 0.15
Matches are distributed among these distances:
50 4 0.01
51 37 0.13
52 67 0.24
53 101 0.36
54 32 0.11
55 29 0.10
56 6 0.02
57 3 0.01
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (51 bp):
AAACACCAAAATTTTGAAAACACGAAAATTTTAGAAACACGAAAATTTTAG
Found at i:12463437 original size:53 final size:51
Alignment explanation
Indices: 12463208--12463498 Score: 239
Period size: 52 Copynumber: 5.5 Consensus size: 51
12463198 ACACGGGAAT
* * ** **
12463208 TTTTTG-AAACACCGAAATTTTTGAAAACACGAAGATTTTTGAAACACGCAAAA
1 TTTTTGAAAACA-CGAAAATTTTG-AAACACGAAAATTTTAAAAACA-TAAAAA
* * * *
12463261 -TTTTGAAAACACGAAAATTTTAGAAATACGAAAATTTTAGAAACACAAACA
1 TTTTTGAAAACACGAAAATTTT-GAAACACGAAAATTTTAAAAACATAAAAA
* * *
12463312 TTTTT-AAAACAGGACAATTTTTGAAACACGAGAATTTTTTAAAAAACATAAAAAA
1 TTTTTGAAAACACGA-AAATTTTGAAACACGA-AA-ATTTT-AAAAACAT-AAAAA
** * * *
12463367 AATTT-AAAACACGAAAATTTGTGAAACACGAGAATTGTTGAAAATATAAAAA
1 TTTTTGAAAACACGAAAATTT-TGAAACACGAAAATT-TTAAAAACATAAAAA
* **
12463419 TTTTTGAAAACACGAAAATTTTTGAAACACAAAAATTTTAAAAACATGGAAA
1 TTTTTGAAAACACGAAAA-TTTTGAAACACGAAAATTTTAAAAACATAAAAA
12463471 TTTTTAGAAAACACTGAAAATTTTGAAA
1 TTTTT-GAAAACAC-GAAAATTTTGAAA
12463499 AATAGAATTT
Statistics
Matches: 194, Mismatches: 30, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
51 19 0.10
52 69 0.36
53 59 0.30
54 22 0.11
55 25 0.13
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (51 bp):
TTTTTGAAAACACGAAAATTTTGAAACACGAAAATTTTAAAAACATAAAAA
Found at i:12463611 original size:18 final size:18
Alignment explanation
Indices: 12462812--12463543 Score: 441
Period size: 17 Copynumber: 41.2 Consensus size: 18
12462802 ATACGGTAAA
12462812 AAAATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
* **
12462829 AATATTTTTG-AAACAAT
1 AAAATTTTTGAAAACACG
* **
12462846 TATTTTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
12462864 AAAAATTTTT-AAAACACG
1 -AAAATTTTTGAAAACACG
* *
12462882 AGAATTTTAG-AAACACG
1 AAAATTTTTGAAAACACG
**
12462899 AAAATTCTTAAAAAACACG
1 AAAATT-TTTGAAAACACG
*
12462918 AAAATTCTT-AAAACACGG
1 AAAATTTTTGAAAACAC-G
* * *
12462936 GAATTTTTTGAAAACATG
1 AAAATTTTTGAAAACACG
*
12462954 AAAATTTTTGAAAACATTG
1 AAAATTTTTGAAAACA-CG
* *
12462973 -GAATTTTTGAAGACACG
1 AAAATTTTTGAAAACACG
* *
12462990 AAGATTTTTGAAACACAGG
1 AAAATTTTTGAAA-ACACG
* * *
12463009 AAATTTTTTTTAAAACATG
1 AAA-ATTTTTGAAAACACG
*
12463028 AAGATTTTTG-AAACA--
1 AAAATTTTTGAAAACACG
* * **
12463043 ATTATTTTTTTTAAA-ACG
1 A-AAATTTTTGAAAACACG
**
12463061 AAAATTTACG-AAACACG
1 AAAATTTTTGAAAACACG
**
12463078 AGATTTTTTTTGAAAACACG
1 A-A-AATTTTTGAAAACACG
*
12463098 AAAA-TTTTCAAAACACCG
1 AAAATTTTTGAAAACA-CG
12463116 -AAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
**
12463133 AGGATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
* * *
12463150 AAAAGTTTTGAAAATACAA
1 AAAATTTTTGAAAACAC-G
12463169 AAAATTTTT-AAAACAC-
1 AAAATTTTTGAAAACACG
12463185 AGAAATTTTT-AAAACACGG
1 A-AAATTTTTGAAAACAC-G
* *
12463204 GAATTTTTTG-AAACACCG
1 AAAATTTTTGAAAACA-CG
12463222 -AAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
*
12463239 AAGATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
12463256 CAAAA-TTTTGAAAACACG
1 -AAAATTTTTGAAAACACG
* *
12463274 AAAATTTTAG-AAATACG
1 AAAATTTTTGAAAACACG
*
12463291 AAAATTTTAG-AAACAC-
1 AAAATTTTTGAAAACACG
*
12463307 AAACATTTTT-AAAACAGG
1 AAA-ATTTTTGAAAACACG
*
12463325 ACAATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
* * **
12463342 AGAATTTTTTAAAAAACATAA
1 A-AAATTTTT-GAAAACA-CG
**
12463363 AAAAAATTT-AAAACACG
1 AAAATTTTTGAAAACACG
*
12463380 AAAATTTGTG-AAACACG
1 AAAATTTTTGAAAACACG
* * * **
12463397 AGAATTGTTGAAAATATA
1 AAAATTTTTGAAAACACG
12463415 AAAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
12463433 AAAATTTTTG-AAACAC-
1 AAAATTTTTGAAAACACG
* * *
12463449 AAAAATTTTAAAAACATG
1 AAAATTTTTGAAAACACG
*
12463467 GAAATTTTTAGAAAACACTG
1 AAAATTTTT-GAAAACAC-G
*
12463487 AAAA-TTTTGAAAA-ATAG
1 AAAATTTTTGAAAACA-CG
**
12463504 AATTTTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
*
12463522 AATATTTTTTG-AAACACG
1 AA-AATTTTTGAAAACACG
12463540 AAAA
1 AAAA
12463544 AAATTATTTT
Statistics
Matches: 551, Mismatches: 112, Indels: 104
0.72 0.15 0.14
Matches are distributed among these distances:
15 1 0.00
16 21 0.04
17 215 0.39
18 212 0.38
19 71 0.13
20 30 0.05
21 1 0.00
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (18 bp):
AAAATTTTTGAAAACACG
Found at i:12463954 original size:14 final size:14
Alignment explanation
Indices: 12463937--12464010 Score: 63
Period size: 13 Copynumber: 5.7 Consensus size: 14
12463927 CTCTTTTTTT
12463937 CTTTTTTCTT-TTC
1 CTTTTTTCTTCTTC
12463950 GCTTTTTTCTTCTT-
1 -CTTTTTTCTTCTTC
12463964 C-TTTTT-TTC-TC
1 CTTTTTTCTTCTTC
12463975 CTTTTTTCTT-TTC
1 CTTTTTTCTTCTTC
* *
12463988 TTTTTTTC-CCTTC
1 CTTTTTTCTTCTTC
*
12464001 TTTTTTTCTT
1 CTTTTTTCTT
12464011 TGGCCTGCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
10 1 0.02
11 4 0.08
12 10 0.20
13 23 0.46
14 10 0.20
15 2 0.04
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (14 bp):
CTTTTTTCTTCTTC
Found at i:12463967 original size:13 final size:13
Alignment explanation
Indices: 12463935--12464006 Score: 64
Period size: 12 Copynumber: 5.7 Consensus size: 13
12463925 ACCTCTTTTT
12463935 TTCTTTTTTCTT-
1 TTCTTTTTTCTTC
12463947 TTCGCTTTTTTCTTC
1 TT--CTTTTTTCTTC
12463962 TTC-TTTTT-TTC
1 TTCTTTTTTCTTC
*
12463973 TCCTTTTTTCTT-
1 TTCTTTTTTCTTC
*
12463985 TTCTTTTTT-TCCC
1 TTCTTTTTTCT-TC
12463998 TTCTTTTTT
1 TTCTTTTTT
12464007 TCTTTGGCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
11 6 0.12
12 20 0.40
13 12 0.24
14 10 0.20
15 2 0.04
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.76
Consensus pattern (13 bp):
TTCTTTTTTCTTC
Found at i:12463981 original size:26 final size:23
Alignment explanation
Indices: 12463931--12464010 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
12463921 TTGAACCTCT
* *
12463931 TTTTTTCTT-TT-TTCTTTTCGC
1 TTTTTTCTTCTTCTTTTTTTCCC
12463952 TTTTTTCTTCTTCTTTTTTTCTCC
1 TTTTTTCTTCTTCTTTTTTTC-CC
12463976 TTTTTTCTT-TTCTTTTTTTCCC
1 TTTTTTCTTCTTCTTTTTTTCCC
*
12463998 TTCTTTTTTTCTT
1 TT-TTTTCTTCTT
12464011 TGGCCTGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
21 9 0.18
22 6 0.12
23 24 0.47
24 12 0.24
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.78
Consensus pattern (23 bp):
TTTTTTCTTCTTCTTTTTTTCCC
Found at i:12463991 original size:36 final size:36
Alignment explanation
Indices: 12463930--12464009 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
12463920 ATTGAACCTC
*
12463930 TTTTTT-TCTTTTTTCTTTTCGC-TTTTTTCTTCTTCT
1 TTTTTTCTCTTTTTTCTTTTC-CTTTTTTTC-CCTTCT
12463966 TTTTTTCTCCTTTTTTCTTTT-CTTTTTTTCCCTTCT
1 TTTTTTCT-CTTTTTTCTTTTCCTTTTTTTCCCTTCT
12464002 TTTTTTCT
1 TTTTTTCT
12464010 TTGGCCTGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
36 20 0.50
37 8 0.20
38 12 0.30
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.78
Consensus pattern (36 bp):
TTTTTTCTCTTTTTTCTTTTCCTTTTTTTCCCTTCT
Found at i:12464300 original size:6 final size:6
Alignment explanation
Indices: 12464275--12464338 Score: 67
Period size: 6 Copynumber: 10.3 Consensus size: 6
12464265 TATAATAAGT
*
12464275 TTTTTCC TTTTT- TTTCTC TTTTTC TTTTTC TTTTTC TTTTTTC TTTTTTC
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC -TTTTTC
* *
12464325 TTCTTC TTCTTC TT
1 TTTTTC TTTTTC TT
12464339 CTTCCTCCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
5 4 0.08
6 30 0.58
7 18 0.35
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:12464314 original size:26 final size:26
Alignment explanation
Indices: 12464284--12464338 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
12464274 TTTTTTCCTT
* *
12464284 TTTTTTCTCTTTTTCTTTTTCTTTTTC
1 TTTTTTCT-TTTTTCTTCTTCTTCTTC
12464311 TTTTTTCTTTTTTCTTCTTCTTCTTC
1 TTTTTTCTTTTTTCTTCTTCTTCTTC
12464337 TT
1 TT
12464339 CTTCCTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTTCTTTTTTCTTCTTCTTCTTC
Found at i:12464337 original size:12 final size:11
Alignment explanation
Indices: 12464300--12464342 Score: 54
Period size: 10 Copynumber: 4.0 Consensus size: 11
12464290 CTCTTTTTCT
*
12464300 TTTTCTTTTTC
1 TTTTCTTCTTC
12464311 TTTT-TTCTT-
1 TTTTCTTCTTC
12464320 TTTTCTTCTTC
1 TTTTCTTCTTC
12464331 TTCTTCTTCTTC
1 TT-TTCTTCTTC
12464343 CTCCTTGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 4 0.14
10 9 0.32
11 6 0.21
12 9 0.32
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTCTTC
Found at i:12464794 original size:30 final size:28
Alignment explanation
Indices: 12464701--12464845 Score: 130
Period size: 30 Copynumber: 4.9 Consensus size: 28
12464691 GCCAAAACAT
*
12464701 AATTTTGAGAAAATTTAGGGGTTAAAATGT
1 AATTTT-AG-AAATTTAGGGGTTAAAATGC
* * * * * *
12464731 AATTTCAAAAAGTTTATGTGTCAAAATGT
1 AATTTTAGAAA-TTTAGGGGTTAAAATGC
12464760 AATTTTATTGAAATTTAGGGGTTAAAATGC
1 AATTTTA--GAAATTTAGGGGTTAAAATGC
*
12464790 AATTTTAGGAAAATTTAGGGGTTAAGATGC
1 AATTTTA-G-AAATTTAGGGGTTAAAATGC
*
12464820 AATTTTA-AAAGTTTAGGGGTCAAAAT
1 AATTTTAGAAA-TTTAGGGGTTAAAAT
12464846 ATAATTTTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
27 3 0.03
28 16 0.17
29 22 0.23
30 51 0.54
31 3 0.03
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (28 bp):
AATTTTAGAAATTTAGGGGTTAAAATGC
Found at i:12469173 original size:14 final size:14
Alignment explanation
Indices: 12469156--12469229 Score: 63
Period size: 13 Copynumber: 5.7 Consensus size: 14
12469146 CTCTTTTTTT
12469156 CTTTTTTCTT-TTC
1 CTTTTTTCTTCTTC
12469169 GCTTTTTTCTTCTT-
1 -CTTTTTTCTTCTTC
12469183 C-TTTTT-TTC-TC
1 CTTTTTTCTTCTTC
12469194 CTTTTTTCTT-TTC
1 CTTTTTTCTTCTTC
* *
12469207 TTTTTTTC-CCTTC
1 CTTTTTTCTTCTTC
*
12469220 TTTTTTTCTT
1 CTTTTTTCTT
12469230 TGGCCTGCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
10 1 0.02
11 4 0.08
12 10 0.20
13 23 0.46
14 10 0.20
15 2 0.04
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (14 bp):
CTTTTTTCTTCTTC
Found at i:12469186 original size:13 final size:13
Alignment explanation
Indices: 12469154--12469225 Score: 64
Period size: 12 Copynumber: 5.7 Consensus size: 13
12469144 ACCTCTTTTT
12469154 TTCTTTTTTCTT-
1 TTCTTTTTTCTTC
12469166 TTCGCTTTTTTCTTC
1 TT--CTTTTTTCTTC
12469181 TTC-TTTTT-TTC
1 TTCTTTTTTCTTC
*
12469192 TCCTTTTTTCTT-
1 TTCTTTTTTCTTC
*
12469204 TTCTTTTTT-TCCC
1 TTCTTTTTTCT-TC
12469217 TTCTTTTTT
1 TTCTTTTTT
12469226 TCTTTGGCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
11 6 0.12
12 20 0.40
13 12 0.24
14 10 0.20
15 2 0.04
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.76
Consensus pattern (13 bp):
TTCTTTTTTCTTC
Found at i:12469200 original size:26 final size:23
Alignment explanation
Indices: 12469150--12469229 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
12469140 TTGAACCTCT
* *
12469150 TTTTTTCTT-TT-TTCTTTTCGC
1 TTTTTTCTTCTTCTTTTTTTCCC
12469171 TTTTTTCTTCTTCTTTTTTTCTCC
1 TTTTTTCTTCTTCTTTTTTTC-CC
12469195 TTTTTTCTT-TTCTTTTTTTCCC
1 TTTTTTCTTCTTCTTTTTTTCCC
*
12469217 TTCTTTTTTTCTT
1 TT-TTTTCTTCTT
12469230 TGGCCTGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
21 9 0.18
22 6 0.12
23 24 0.47
24 12 0.24
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.78
Consensus pattern (23 bp):
TTTTTTCTTCTTCTTTTTTTCCC
Found at i:12469210 original size:36 final size:36
Alignment explanation
Indices: 12469149--12469228 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
12469139 ATTGAACCTC
*
12469149 TTTTTT-TCTTTTTTCTTTTCGC-TTTTTTCTTCTTCT
1 TTTTTTCTCTTTTTTCTTTTC-CTTTTTTTC-CCTTCT
12469185 TTTTTTCTCCTTTTTTCTTTT-CTTTTTTTCCCTTCT
1 TTTTTTCT-CTTTTTTCTTTTCCTTTTTTTCCCTTCT
12469221 TTTTTTCT
1 TTTTTTCT
12469229 TTGGCCTGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
36 20 0.50
37 8 0.20
38 12 0.30
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.78
Consensus pattern (36 bp):
TTTTTTCTCTTTTTTCTTTTCCTTTTTTTCCCTTCT
Done.