Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 133 of 253
Found at i:42363445 original size:21 final size:21
Alignment explanation
Indices: 42363419--42363462 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
42363409 ACATGTGTGT
42363419 ATTTTGATGTTTAAAGGAGGA
1 ATTTTGATGTTTAAAGGAGGA
*
42363440 ATTTTGATGTTTAAGGGAGGA
1 ATTTTGATGTTTAAAGGAGGA
42363461 AT
1 AT
42363463 ATGAATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.39
Consensus pattern (21 bp):
ATTTTGATGTTTAAAGGAGGA
Found at i:42363470 original size:21 final size:21
Alignment explanation
Indices: 42363423--42363472 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
42363413 GTGTGTATTT
*
42363423 TGATGTTTAAAGGAGGAATTT
1 TGATGTTTAAAGGAGGAATTA
*
42363444 TGATGTTTAAGGGAGGAA-TA
1 TGATGTTTAAAGGAGGAATTA
42363464 TGAATGTTT
1 TG-ATGTTT
42363473 GTTGTGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (21 bp):
TGATGTTTAAAGGAGGAATTA
Found at i:42366789 original size:37 final size:37
Alignment explanation
Indices: 42366747--42366822 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
42366737 ATAATTCAGA
42366747 TAATAATAACAAGATTCGTCTTAGGTTTCATTCCCCT
1 TAATAATAACAAGATTCGTCTTAGGTTTCATTCCCCT
42366784 TAATAATAACAAGATTCGTCTTAGGTTTCATTCCCCT
1 TAATAATAACAAGATTCGTCTTAGGTTTCATTCCCCT
42366821 TA
1 TA
42366823 GGTATTTAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (37 bp):
TAATAATAACAAGATTCGTCTTAGGTTTCATTCCCCT
Found at i:42370485 original size:40 final size:40
Alignment explanation
Indices: 42370430--42370693 Score: 356
Period size: 40 Copynumber: 6.7 Consensus size: 40
42370420 CTAACGGGGT
* * * *
42370430 TAAGTCCCGAAGGCATTTGTGCTACTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* * *
42370470 TAAGTCTCGAAGGCATTTGTGTGAGTTTCTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
42370510 TAAGTCCCGAA-GCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
42370549 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
42370589 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * * *
42370629 TAAGTCCCGAAGGCATTTGCGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
42370669 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
42370694 GGTTATATCC
Statistics
Matches: 203, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 47 0.23
40 156 0.77
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:42370562 original size:79 final size:80
Alignment explanation
Indices: 42370430--42370693 Score: 356
Period size: 79 Copynumber: 3.3 Consensus size: 80
42370420 CTAACGGGGT
* * * * * *
42370430 TAAGTCCCGAAGGCATTTGTGCTACTGATTAATTCCGGGCTAAGTCTCGAAGGCATTTGTGTGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
42370495 TTTCTAATTCCGGGC
66 TTACTAATTCCGGGC
42370510 TAAGTCCCGAA-GCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
42370574 TTACTAATTCCGGGC
66 TTACTAATTCCGGGC
* *
42370589 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
* *
42370653 GTGAC-CATATCCGGGC
65 GTTACTAAT-TCCGGGC
* * *
42370669 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
42370694 GGTTATATCC
Statistics
Matches: 167, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
79 86 0.51
80 81 0.49
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAATTCCGGGC
Found at i:42370705 original size:119 final size:119
Alignment explanation
Indices: 42370430--42370694 Score: 338
Period size: 119 Copynumber: 2.2 Consensus size: 119
42370420 CTAACGGGGT
* * * * * * *
42370430 TAAGTCCCGAAGGCATTTGTGCTACTGATTAATTCCGGGCTAAGTCTCGAAGGCATTTGTGTGAG
1 TAAGACCCGAAGGCACTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* * * *
42370495 TTTCTAATTCCGGGCTAAGTCCCGAAGCATTTGTGCGAGTTACTAATTCCGGGC
66 TTACTAATTCCGGGCTAAGTCCCGAAGCATTTGCGCGAGTGACCAATTCCGGGC
* * *
42370549 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCACTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
42370614 TTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACC-ATATCCGGGC
66 TTACTAAT-TCCGGGCTAAGTCCCGAA-GCATTTGCGCGAGTGACCAAT-TCCGGGC
*
42370669 TAAGACCCGACGGC-CTTGTGCGAGTG
1 TAAGACCCGAAGGCACTTGTGCGAGTG
42370695 GTTATATCCG
Statistics
Matches: 128, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
118 2 0.02
119 93 0.73
120 33 0.26
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (119 bp):
TAAGACCCGAAGGCACTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAATTCCGGGCTAAGTCCCGAAGCATTTGCGCGAGTGACCAATTCCGGGC
Found at i:42378708 original size:40 final size:40
Alignment explanation
Indices: 42378653--42378901 Score: 351
Period size: 40 Copynumber: 6.2 Consensus size: 40
42378643 CTAACGGGGT
* * * *
42378653 TAAGTCCCGAAGGCATTTGTGCTACTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
42378693 TAAGTCCTGAAGGCATTTGTGCGAGTTACTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
42378733 TAAGTCCCGAA-GCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
42378772 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
42378812 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * * *
42378852 TAAGTCCCGAAGGCATTTGCGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
*
42378892 TAAGACCCGA
1 TAAGTCCCGA
42378902 CAGCCTTGTG
Statistics
Matches: 192, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
39 40 0.21
40 152 0.79
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:42378785 original size:79 final size:80
Alignment explanation
Indices: 42378653--42378901 Score: 351
Period size: 79 Copynumber: 3.1 Consensus size: 80
42378643 CTAACGGGGT
* * * * *
42378653 TAAGTCCCGAAGGCATTTGTGCTACTGATTAATTCCGGGCTAAGTCCTGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
42378718 TTACTAATTTCGGGC
66 TTACTAATTCCGGGC
42378733 TAAGTCCCGAA-GCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
42378797 TTACTAATTCCGGGC
66 TTACTAATTCCGGGC
* * *
42378812 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCAGGCTAAGTCCCGAAGGCATTTGCGCTA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
* *
42378876 GTGAC-CATATCCGGGC
65 GTTACTAAT-TCCGGGC
*
42378892 TAAGACCCGA
1 TAAGTCCCGA
42378902 CAGCCTTGTG
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
79 77 0.50
80 77 0.50
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAATTCCGGGC
Found at i:42378928 original size:119 final size:119
Alignment explanation
Indices: 42378653--42378917 Score: 331
Period size: 119 Copynumber: 2.2 Consensus size: 119
42378643 CTAACGGGGT
* * * * * *
42378653 TAAGTCCCGAAGGCATTTGTGCTACTGATTAATTCCGGGCTAAGTCCTGAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCACTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* * * * *
42378718 TTACTAATTTCGGGCTAAGTCCCGAAGCATTTGTGCGAGTTACTAATTCCGGGC
66 TTACTAATTCCAGGCTAAGTCCCGAAGCATTTGCGCGAGTGACCAATTCCGGGC
* * *
42378772 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCACTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
42378837 TTACT-ATATCCAGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACC-ATATCCGGGC
66 TTACTAAT-TCCAGGCTAAGTCCCGAA-GCATTTGCGCGAGTGACCAAT-TCCGGGC
42378892 TAAGACCCGACA-GC-CTTGTGCGAGTG
1 TAAGACCCGA-AGGCACTTGTGCGAGTG
42378918 GTTATATCCG
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
118 2 0.02
119 93 0.73
120 32 0.25
121 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (119 bp):
TAAGACCCGAAGGCACTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAATTCCAGGCTAAGTCCCGAAGCATTTGCGCGAGTGACCAATTCCGGGC
Found at i:42381118 original size:15 final size:15
Alignment explanation
Indices: 42381093--42381133 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
42381083 GATATTGTAT
42381093 TTTGAATTTCTATATC
1 TTTG-ATTTCTATATC
*
42381109 TTTGATTTCTTTATC
1 TTTGATTTCTATATC
*
42381124 TTAGATTTCT
1 TTTGATTTCT
42381134 TTGTCCTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.61
Consensus pattern (15 bp):
TTTGATTTCTATATC
Found at i:42381134 original size:15 final size:15
Alignment explanation
Indices: 42381098--42381135 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
42381088 TGTATTTTGA
* *
42381098 ATTTCTATATCTTTG
1 ATTTCTTTATCTTAG
42381113 ATTTCTTTATCTTAG
1 ATTTCTTTATCTTAG
42381128 ATTTCTTT
1 ATTTCTTT
42381136 GTCCTGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.63
Consensus pattern (15 bp):
ATTTCTTTATCTTAG
Found at i:42384034 original size:38 final size:38
Alignment explanation
Indices: 42383991--42384121 Score: 145
Period size: 38 Copynumber: 3.2 Consensus size: 38
42383981 TTTCAAATTA
*
42383991 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
42384029 ACATGTTTAACCGTGGCATATCCACTTAGCACCATGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
42384070 GAATCAATATATTTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
42384114 ACATGTAT
1 ACATGTAT
42384122 CAATATGTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
38 34 0.44
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 28 0.36
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:42384103 original size:47 final size:48
Alignment explanation
Indices: 42384034--42384161 Score: 186
Period size: 48 Copynumber: 2.7 Consensus size: 48
42384024 ACGTTACATG
*
42384034 TTTAACCGTGGCATATCCACTTAGCACCATGTTA-ATGAATCAATATA
1 TTTAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATA
* *
42384081 TTTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATG
1 TTTAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATA
* * * *
42384129 TGTAATCATGGTATATCCACTTAGCACCACGTT
1 TTTAACCGTGGCATATCCACTTAGCACCACGTT
42384162 TTTTCATTCC
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 33 0.45
48 40 0.55
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (48 bp):
TTTAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATA
Found at i:42386898 original size:15 final size:15
Alignment explanation
Indices: 42386875--42386914 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
42386865 GAAGCCTAGA
*
42386875 ATAAGGAAATTCAAG
1 ATAAGGAAATGCAAG
* *
42386890 ATAAAGAAATGCATG
1 ATAAGGAAATGCAAG
42386905 ATAAGGAAAT
1 ATAAGGAAAT
42386915 CCCCTTTACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (15 bp):
ATAAGGAAATGCAAG
Found at i:42390190 original size:38 final size:38
Alignment explanation
Indices: 42390147--42390308 Score: 144
Period size: 38 Copynumber: 4.0 Consensus size: 38
42390137 TTTCAAATTA
42390147 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * * * *
42390185 ACATGTTTAACTGTGGTATATCCACTTAGTACCACATTAGTGA
1 ACATGTATAACCGTGGCATATCCACTTAGCACCAC----GT-T
* *
42390228 ATCAATATATGTAACCGTGGCATATCCACTTAGCACCACATT
1 A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
42390270 ACATGTTTAACTGTGGTATATCCATTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
42390308 A
1 A
42390309 ATGAATCAAT
Statistics
Matches: 97, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
38 59 0.61
40 3 0.03
41 1 0.01
42 3 0.03
43 2 0.02
44 1 0.01
45 3 0.03
47 25 0.26
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:42390249 original size:85 final size:85
Alignment explanation
Indices: 42390154--42390360 Score: 342
Period size: 85 Copynumber: 2.4 Consensus size: 85
42390144 TTAACATGTA
*
42390154 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGTACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
*
42390219 CATTAGTGAATCAATATATG
66 CATTAATGAATCAATATATG
* *
42390239 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACTGTGGTATATCCATTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
*
42390304 CGTTAATGAATCAATATATG
66 CATTAATGAATCAATATATG
* * *
42390324 TAATCATGGCATATCCACTTAGCACCATGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
42390361 ATCAATATGT
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 113 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
CATTAATGAATCAATATATG
Found at i:42390386 original size:48 final size:47
Alignment explanation
Indices: 42390282--42390402 Score: 179
Period size: 48 Copynumber: 2.6 Consensus size: 47
42390272 ATGTTTAACT
* *
42390282 GTGGTATATCCATTTAGCACCACGTTAATGAATCAATATATGTAATC
1 GTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATGTAATC
* * * *
42390329 ATGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGTAATC
1 GTGGTATATCCACTTAGCACCATGTTA-ATGAATCAATATATGTAATC
42390377 GTGGTATATCCACTTAGCACCATGTT
1 GTGGTATATCCACTTAGCACCATGTT
42390403 TTTTCATTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 23 0.35
48 42 0.65
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (47 bp):
GTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATGTAATC
Found at i:42398850 original size:31 final size:32
Alignment explanation
Indices: 42398812--42398871 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
42398802 GAAATGGGCC
*
42398812 TGCTCACATGAGTTGA-AG-GTATTCACAATAT
1 TGCTCACATGAGCT-ATAGAGTATTCACAATAT
42398843 TGCTCACATGAGCTATAGAGTATTCACAA
1 TGCTCACATGAGCTATAGAGTATTCACAA
42398872 CAAATGCAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 1 0.04
31 15 0.58
32 10 0.38
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (32 bp):
TGCTCACATGAGCTATAGAGTATTCACAATAT
Found at i:42405582 original size:49 final size:49
Alignment explanation
Indices: 42405505--42405736 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
42405495 TCTATTGTGA
* * * *
42405505 GGTCACATGTGTAGTAATAAGTGCAGGCTACTACGTGTAACGGATAATT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* * * *
42405554 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTAATAACTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAA-TT
* * * * * **
42405604 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* *
42405654 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* *
42405704 GGTCGCATGTGTGGTACTAAGTGTAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
42405737 TGCGTGCCAG
Statistics
Matches: 153, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 68 0.44
50 48 0.31
51 37 0.24
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
Found at i:42405695 original size:101 final size:98
Alignment explanation
Indices: 42405507--42405736 Score: 280
Period size: 100 Copynumber: 2.3 Consensus size: 98
42405497 TATTGTGAGG
* ** **
42405507 TCACATGTGTAGTAATAAGTGCAGGCTACTACGTGTAACGGATAATTGGTTGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAAATAATTGGTCACATGTGTAGTACT
* *
42405572 AAGTGCAGGCTACTATGCGTACCTAATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCGAATAA-TT-GA
* * ** *
42405607 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAAATAATT-GGTCACATGTGTAGTAC
* *
42405672 TAAGTGCAGGCTACTACGTGTACCGAATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCGAATAATTGA
* * *
42405706 TCGCATGTGTGGTACTAAGTGTAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
42405737 TGCGTGCCAG
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
99 28 0.25
100 42 0.38
101 41 0.37
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGAATAATTGA
Found at i:42410178 original size:29 final size:29
Alignment explanation
Indices: 42410144--42410220 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
42410134 ATTCATATTC
* *
42410144 ATATGGTCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* * *
42410173 ATATGGCCCATTAGACACAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
42410202 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
42410221 GTCACATTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:42411714 original size:16 final size:16
Alignment explanation
Indices: 42411689--42411721 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
42411679 AAAAATTCAA
42411689 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
42411705 GATTTTAGGATTTTTG
1 GATTTCAGGATTTTTG
42411721 G
1 G
42411722 GGCGTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.27, T:0.52
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:42429560 original size:16 final size:16
Alignment explanation
Indices: 42429539--42429570 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42429529 TCATTCATAT
42429539 GGCCCATCAAGCCCAA
1 GGCCCATCAAGCCCAA
*
42429555 GGCCCATCAGGCCCAA
1 GGCCCATCAAGCCCAA
42429571 ATCACATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.44, G:0.22, T:0.06
Consensus pattern (16 bp):
GGCCCATCAAGCCCAA
Found at i:42433960 original size:29 final size:29
Alignment explanation
Indices: 42433935--42433999 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
42433925 CATATGGCCT
*
42433935 ATCAGGCCCAATT-TACATTCATATGGCCC
1 ATCAGGCCCAATTCT-CATTCATATGGCCT
**
42433964 ATCAGGCCCAATTCTTTTTCATATGGCCT
1 ATCAGGCCCAATTCTCATTCATATGGCCT
*
42433993 ATTAGGC
1 ATCAGGC
42434000 TCAAATCACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (29 bp):
ATCAGGCCCAATTCTCATTCATATGGCCT
Found at i:42434017 original size:58 final size:57
Alignment explanation
Indices: 42433898--42434032 Score: 139
Period size: 58 Copynumber: 2.4 Consensus size: 57
42433888 TACATACACG
* *
42433898 CATATGGCCCA-CATGGCCC-ATCTCATTCATATGGCCTATCAGGCCCAATTTACATT
1 CATATGGCCCATCA-GGCCCAATCTCATTCATATGGCCTATCAGGCCCAAATCACATT
** * * *
42433954 CATATGGCCCATCAGGCCCAATTCTTTTTCATATGGCCTATTAGGCTCAAATCACCTT
1 CATATGGCCCATCAGGCCCAA-TCTCATTCATATGGCCTATCAGGCCCAAATCACATT
* * * *
42434012 TATATGACTCATTAGGCCCAA
1 CATATGGCCCATCAGGCCCAA
42434033 ATCACCTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
56 16 0.25
57 3 0.05
58 46 0.71
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (57 bp):
CATATGGCCCATCAGGCCCAATCTCATTCATATGGCCTATCAGGCCCAAATCACATT
Found at i:42438428 original size:24 final size:24
Alignment explanation
Indices: 42438397--42438442 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
42438387 AGGAAGTGAA
**
42438397 AAAGGGCTTTGCC-CCAGTTATTT
1 AAAGGGCTAGGCCTCCAGTTATTT
42438420 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTAGGCCTCCAGTTAT
42438443 ATGATAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTAGGCCTCCAGTTATTT
Found at i:42448187 original size:15 final size:15
Alignment explanation
Indices: 42448155--42448183 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42448145 ATATTTTGTG
42448155 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
42448170 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
42448184 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:42451037 original size:47 final size:47
Alignment explanation
Indices: 42450974--42451367 Score: 610
Period size: 47 Copynumber: 8.4 Consensus size: 47
42450964 CCCTTCGGGA
* * * *
42450974 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
42451021 CTTATAACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42451068 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
42451115 CTTATCACATATACACACTTTCACATTCATCACATTGGCCGAAT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCC-ATTAGGC
* *
42451162 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42451209 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42451256 CATATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42451303 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42451350 CTTATCACATATACACAC
1 CTTATCACATATATACAC
42451368 CTTGTACACC
Statistics
Matches: 323, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 2 0.01
47 319 0.99
48 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42451312 original size:22 final size:22
Alignment explanation
Indices: 42451284--42451359 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
42451274 TTTCACATTC
42451284 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
42451306 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
42451330 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
42451353 ATCACAT
1 ATCACAT
42451360 ATACACACCT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:42458591 original size:40 final size:39
Alignment explanation
Indices: 42458534--42458654 Score: 170
Period size: 40 Copynumber: 3.0 Consensus size: 39
42458524 GTGCGAGATA
*
42458534 TTGTGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCT
1 TTGTGCGAG-TATTAATTCCGGGTTAAGTCCCGAAGGCAT
*
42458574 TTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCAT
1 TTGTGCGAG-TATTAATTCCGGGTTAAGTCCCGAAGGCAT
* * *
42458614 TCGTGCGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCAT
1 TTGTGCGAGTATT-AATTCCGGGTTAAGTCCCGAAGGCAT
42458654 T
1 T
42458655 GAATGAGTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.03
40 71 0.97
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (39 bp):
TTGTGCGAGTATTAATTCCGGGTTAAGTCCCGAAGGCAT
Found at i:42458675 original size:39 final size:38
Alignment explanation
Indices: 42458552--42458701 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
42458542 GTTATTAATT
* ** * *
42458552 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
42458592 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
42458631 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
42458671 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
42458702 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:42465900 original size:39 final size:39
Alignment explanation
Indices: 42465776--42465940 Score: 228
Period size: 39 Copynumber: 4.2 Consensus size: 39
42465766 CTCATTCAAT
* * * * *
42465776 GCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAAC
1 GCCTTCGGG-CTTAACCCGGA-ATTAGTATCTCGCACAAAG
42465816 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGG-CTTAACCCGGAATTAGTATCTCGCACAAAG
42465856 G-CTTCGGGCTTAACCC-GAATTAAGTATCTCGCACAAAG
1 GCCTTCGGGCTTAACCCGGAATT-AGTATCTCGCACAAAG
42465894 GCCTTCGGGCTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGCTTAACCCGGAATTAGTATCTCGCACAAAG
42465933 GCCTTCGG
1 GCCTTCGG
42465941 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
37 5 0.04
38 25 0.22
39 49 0.42
40 37 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGCTTAACCCGGAATTAGTATCTCGCACAAAG
Found at i:42482927 original size:45 final size:46
Alignment explanation
Indices: 42482878--42483051 Score: 173
Period size: 45 Copynumber: 3.8 Consensus size: 46
42482868 TGGTTGAGCA
42482878 TCCGAACTC-TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42482923 TCCGAACTCGTTGA-TTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
* *
42482966 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TTATGGATGCGAATG
* * *
42483015 -CCGAGGCTCGTTAAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42483052 GCGGTTACAT
Statistics
Matches: 105, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 1 0.01
44 2 0.02
45 36 0.34
46 27 0.26
47 23 0.22
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42491531 original size:39 final size:39
Alignment explanation
Indices: 42491502--42491721 Score: 232
Period size: 39 Copynumber: 5.6 Consensus size: 39
42491492 GCTCCTCGTT
* *
42491502 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGTTATAGTAACTCGCA
42491541 CAAATGCCTTCGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGG-TTATAGTAACTCGCA
*
42491580 CAAATGCCTTCGGACTTAACCCGGAT-TAGTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGTTATAGTAACTCGCA
* * * * *
42491618 CCAATGCCTTCGGGCTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAACCCGGTTA-TAGTAACTCGCA
** * * * *
42491657 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAACCCGGTTATAGTAAC-TCGCA
*
42491698 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAACCCGG
42491722 ACATCATTCA
Statistics
Matches: 157, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 34 0.22
39 81 0.52
40 30 0.19
41 12 0.08
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGTTATAGTAACTCGCA
Found at i:42491627 original size:77 final size:78
Alignment explanation
Indices: 42491502--42491722 Score: 275
Period size: 77 Copynumber: 2.8 Consensus size: 78
42491492 GCTCCTCGTT
* * * *
42491502 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
1 CAAATGCCTTCGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAA
42491567 TTAGTAACTCGCA
66 TTAGTAACTCGCA
* * *
42491580 CAAATGCCTTCGGACTTAACCCGGAT-TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAA
*
42491644 TTAGTATCTCGCA
66 TTAGTAACTCGCA
** * * * *
42491657 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTC-GGACTTAACCCG
42491721 GA
63 GA
42491723 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
77 60 0.48
78 33 0.27
79 11 0.09
80 20 0.16
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAA
TTAGTAACTCGCA
Found at i:42499676 original size:119 final size:120
Alignment explanation
Indices: 42499494--42499716 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
42499484 TCCTCGTTCA
*
42499494 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
42499559 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
42499614 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
42499676 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42499717 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:42499716 original size:40 final size:40
Alignment explanation
Indices: 42499492--42499716 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
42499482 GCTCCTCGTT
* *
42499492 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42499532 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42499572 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42499612 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
42499651 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
42499692 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42499717 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:42505008 original size:34 final size:34
Alignment explanation
Indices: 42504970--42505036 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
42504960 GTAACAGTCC
*
42504970 AGTATCAATGTGGGCCTTAGCCCATTACAGTAAT
1 AGTATCAATGTGGGCCTTAGCACATTACAGTAAT
**
42505004 AGTATCCGTGTGGGCCTTAGCACATTACAGTAA
1 AGTATCAATGTGGGCCTTAGCACATTACAGTAA
42505037 CAATAACAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (34 bp):
AGTATCAATGTGGGCCTTAGCACATTACAGTAAT
Found at i:42506134 original size:590 final size:590
Alignment explanation
Indices: 42505016--42506174 Score: 2282
Period size: 590 Copynumber: 2.0 Consensus size: 590
42505006 TATCCGTGTG
42505016 GGCCTTAGCACATTACAGTAACAATAACAGAATGCAACAAAAATCCTACCCATCCATCCTCTACA
1 GGCCTTAGCACATTACAGTAACAATAACAGAATGCAACAAAAATCCTACCCATCCATCCTCTACA
*
42505081 CTCTGTCCAGCCCTACACTCCATATGGGGATAAAATTGACCCACCCATCCCTACACTCCAAATAT
66 CTCCGTCCAGCCCTACACTCCATATGGGGATAAAATTGACCCACCCATCCCTACACTCCAAATAT
*
42505146 AGCACCGGTTCTGGCACTATTAAATAATTGCAGCAAAGCTGCCAGTAATTGCAGCAGAGATGCTA
131 AGCACCGGTCCTGGCACTATTAAATAATTGCAGCAAAGCTGCCAGTAATTGCAGCAGAGATGCTA
42505211 CTACAGTACACTTCCTCTAATATATATATCAAACCCACCCCCATGCAACATGTCATGTCATAATA
196 CTACAGTACACTTCCTCTAATATATATATCAAACCCACCCCCATGCAACATGTCATGTCATAATA
42505276 TATACGTGCATGCAAAATGTCATGCTCTAATACAGTCAAACATAGCATAGGGTATATCAGTCATT
261 TATACGTGCATGCAAAATGTCATGCTCTAATACAGTCAAACATAGCATAGGGTATATCAGTCATT
*
42505341 TTACCTCTAAGGGTATAATAGTCATTTCATCAGTATAAGTTTAAGTGTACTTACCGACCTATCAG
326 TTACCTCTAAGGGTATAATAGTCATTTCATCAGTATAAGTTTAAGTGTACTTACCGACCTATAAG
42505406 TAGGCCCACAGTCGTCTTAGGCGACCCATGCGACCTTAACAGAAAAATAGTGGAAATGGGCCCAA
391 TAGGCCCACAGTCGTCTTAGGCGACCCATGCGACCTTAACAGAAAAATAGTGGAAATGGGCCCAA
42505471 AGCCCATAACACAGCCCATGTAGGCTCACGCGCTAGTGTAGCTCAATTAGCCCAAATAATGGCCT
456 AGCCCATAACACAGCCCATGTAGGCTCACGCGCTAGTGTAGCTCAATTAGCCCAAATAATGGCCT
42505536 TGGCCGTGTAGGCTACATAGCTGGCCCAATTATCTCCACAAAACTGTGTAGCTCAATTAGCCCAA
521 TGGCCGTGTAGGCTACATAGCTGGCCCAATTATCTCCACAAAACTGTGTAGCTCAATTAGCCCAA
42505601 ATAAT
586 ATAAT
42505606 GGCCTTAGCACATTACAGTAACAATAACAGAATGCAACAAAAATCCTACCCATCCATCCTCTACA
1 GGCCTTAGCACATTACAGTAACAATAACAGAATGCAACAAAAATCCTACCCATCCATCCTCTACA
42505671 CTCCGTCCAGCCCTACACTCCATATGGGGATAAAATTGACCCACCCATCCCTACACTCCAAATAT
66 CTCCGTCCAGCCCTACACTCCATATGGGGATAAAATTGACCCACCCATCCCTACACTCCAAATAT
42505736 AGCACCGGTCCTGGCACTATTAAATAATTGCAGCAAAGCTGCCAGTAATTGCAGCAGAGATGCTA
131 AGCACCGGTCCTGGCACTATTAAATAATTGCAGCAAAGCTGCCAGTAATTGCAGCAGAGATGCTA
42505801 CTACAGTACACTTCCTCTAATATATATATCAAACCCACCCCCATGCAACATGTCATGTCATAATA
196 CTACAGTACACTTCCTCTAATATATATATCAAACCCACCCCCATGCAACATGTCATGTCATAATA
42505866 TATACGTGCATGCAAAATGTCATGCTCTAATACAGTCAAACATAGCATAGGGTATATCAGTCATT
261 TATACGTGCATGCAAAATGTCATGCTCTAATACAGTCAAACATAGCATAGGGTATATCAGTCATT
*
42505931 TTACCTCTAAGGGTATAATAGTCATTTCATCAGTATAAGTTTAAGTGTACTTACTGACCTATAAG
326 TTACCTCTAAGGGTATAATAGTCATTTCATCAGTATAAGTTTAAGTGTACTTACCGACCTATAAG
42505996 TAGGCCCACAGTCGTCTTAGGCGACCCATGCGACCTTAACAGAAAAATAGTGGAAATGGGCCCAA
391 TAGGCCCACAGTCGTCTTAGGCGACCCATGCGACCTTAACAGAAAAATAGTGGAAATGGGCCCAA
42506061 AGCCCATAACACAGCCCATGTAGGCTCACGCGCTAGTGTAGCTCAATTAGCCCAAATAATGGCCT
456 AGCCCATAACACAGCCCATGTAGGCTCACGCGCTAGTGTAGCTCAATTAGCCCAAATAATGGCCT
42506126 TGGCCGTGTAGGCTACATAGCTGGCCCAATTATCTCCACAAAACTGTGT
521 TGGCCGTGTAGGCTACATAGCTGGCCCAATTATCTCCACAAAACTGTGT
42506175 GGTTTACCCG
Statistics
Matches: 565, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
590 565 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (590 bp):
GGCCTTAGCACATTACAGTAACAATAACAGAATGCAACAAAAATCCTACCCATCCATCCTCTACA
CTCCGTCCAGCCCTACACTCCATATGGGGATAAAATTGACCCACCCATCCCTACACTCCAAATAT
AGCACCGGTCCTGGCACTATTAAATAATTGCAGCAAAGCTGCCAGTAATTGCAGCAGAGATGCTA
CTACAGTACACTTCCTCTAATATATATATCAAACCCACCCCCATGCAACATGTCATGTCATAATA
TATACGTGCATGCAAAATGTCATGCTCTAATACAGTCAAACATAGCATAGGGTATATCAGTCATT
TTACCTCTAAGGGTATAATAGTCATTTCATCAGTATAAGTTTAAGTGTACTTACCGACCTATAAG
TAGGCCCACAGTCGTCTTAGGCGACCCATGCGACCTTAACAGAAAAATAGTGGAAATGGGCCCAA
AGCCCATAACACAGCCCATGTAGGCTCACGCGCTAGTGTAGCTCAATTAGCCCAAATAATGGCCT
TGGCCGTGTAGGCTACATAGCTGGCCCAATTATCTCCACAAAACTGTGTAGCTCAATTAGCCCAA
ATAAT
Found at i:42514833 original size:45 final size:45
Alignment explanation
Indices: 42514747--42514833 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
42514737 GAACTATGTT
* **
42514747 ATCTAAACTCATTAAGTTCTGGTCTGAGTTCATGGTATATGTGAC
1 ATCTAAACTCATTAAGTTCTGGCCTGAGTTCATAATATATGTGAC
* * * *
42514792 ATCTGAACTCATTGAGTTGTGGCCTGAGTTCATAATGTATGT
1 ATCTAAACTCATTAAGTTCTGGCCTGAGTTCATAATATATGT
42514834 AGCACATGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (45 bp):
ATCTAAACTCATTAAGTTCTGGCCTGAGTTCATAATATATGTGAC
Found at i:42516649 original size:37 final size:39
Alignment explanation
Indices: 42516599--42516695 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 39
42516589 GATGTTACAT
*
42516599 TGAGA-TTATGTGTAAGAC-TA-GGGATATGGCATCTATA
1 TGAGACTTA-GTGTAAGACATATGGGATATGGCATCGATA
42516636 TGAGACTTAGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTTAGTGTAAGA-CATA--TGGGATATGGCATCGATA
*
42516678 TGAGACTTCGTGTAAGAC
1 TGAGACTTAGTGTAAGAC
42516696 CATAGCTGGG
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
37 13 0.25
38 4 0.08
39 2 0.04
41 1 0.02
42 32 0.62
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (39 bp):
TGAGACTTAGTGTAAGACATATGGGATATGGCATCGATA
Found at i:42516666 original size:42 final size:42
Alignment explanation
Indices: 42516619--42516705 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
42516609 TGTAAGACTA
* *
42516619 GGGATATGGCATCTATATGAGACTTAGTGTAAGACCATATCT
1 GGGATATGGCATCGATATGAGACTTAGTGTAAGACCATAGCT
*
42516661 GGGATATGGCATCGATATGAGACTTCGTGTAAGACCATAGCT
1 GGGATATGGCATCGATATGAGACTTAGTGTAAGACCATAGCT
42516703 GGG
1 GGG
42516706 CTATTGGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (42 bp):
GGGATATGGCATCGATATGAGACTTAGTGTAAGACCATAGCT
Found at i:42519755 original size:37 final size:37
Alignment explanation
Indices: 42519703--42519773 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
42519693 ATGTTAGTTT
42519703 ACGTTTAAGCCTGGTAATGCCTCGAACCCTGTCCTTC
1 ACGTTTAAGCCTGGTAATGCCTCGAACCCTGTCCTTC
*
42519740 ACGTTTAAGCTTGGTAATGCCTCGAACCCTGTCC
1 ACGTTTAAGCCTGGTAATGCCTCGAACCCTGTCC
42519774 CAGCGTCGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.30
Consensus pattern (37 bp):
ACGTTTAAGCCTGGTAATGCCTCGAACCCTGTCCTTC
Found at i:42522057 original size:57 final size:57
Alignment explanation
Indices: 42521963--42522126 Score: 240
Period size: 57 Copynumber: 2.9 Consensus size: 57
42521953 CGATATAATA
* * *
42521963 CCTCTCGAGCATATGTTATGAT-TAGGATTTAGATTGGACTGGTAATCCTAATCGAGCT
1 CCTCT-GAGCATACGTTAT-ATAAAGGATTTAGCTTGGACTGGTAATCCTAATCGAGCT
* *
42522021 CCTCTGAGCATACGTTATATAAAGGAGTTAGCTTGGATTGGTAATCCTAATCGAGCT
1 CCTCTGAGCATACGTTATATAAAGGATTTAGCTTGGACTGGTAATCCTAATCGAGCT
* *
42522078 CCTCTGAGCATACATTATATAAAGGATTTAGCCTGGACTGGTAATCCTA
1 CCTCTGAGCATACGTTATATAAAGGATTTAGCTTGGACTGGTAATCCTA
42522127 TTATACGATA
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
56 2 0.02
57 89 0.93
58 5 0.05
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (57 bp):
CCTCTGAGCATACGTTATATAAAGGATTTAGCTTGGACTGGTAATCCTAATCGAGCT
Found at i:42530338 original size:47 final size:47
Alignment explanation
Indices: 42530267--42530529 Score: 234
Period size: 46 Copynumber: 5.6 Consensus size: 47
42530257 GTAAGGTGCT
*
42530267 GATGCCATGTCCCAGACATAGTCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCT-ATCATCTCGAAGCC
* * *
42530314 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAAGCC
* * *
42530362 GGTG-CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTAT-CATCTCGAAGCC
* * * * *
42530408 GATG-CATGTCCTAGACATGTCTTACACTAGCTTTCGTCTC-AATGTC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAA-GCC
* * * * ** ** *
42530454 GATGCCTTGTCCCAAACATGGTCTTACATTGGCTCTCATAACGTGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAAGCC
42530502 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
42530530 AGCCAAATAA
Statistics
Matches: 176, Mismatches: 32, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 74 0.42
47 73 0.41
48 27 0.15
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAAGCC
Found at i:42530524 original size:140 final size:141
Alignment explanation
Indices: 42530267--42530529 Score: 352
Period size: 140 Copynumber: 1.9 Consensus size: 141
42530257 GTAAGGTGCT
* * *
42530267 GATGCCATGTCCCAGACATAGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCTAGACA
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACA
** *
42530332 TGGTCTTACACTGACTATCATCTCGTAGCCGGTGCATGTCCCAGACATGTCTTACACTGGCTTAC
66 TGGTCTTACACTGACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
42530397 GTCTCGAGGCC
131 GTCTCGAGGCC
* * * *
42530408 GATG-CATGTCCTAGACAT-GTCTTACACTAGCT-TTCGTCTCAATGTCGATGCCTTGTCCCAAA
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCAT-ATCTCAA-GTCGATGCCATGTCCCAAA
* * * * *
42530470 CATGGTCTTACATTGGCTCTCATAACGTGGCTGATGCATGTCCCAGACATGTCTTACACT
64 CATGGTCTTACACTGACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACT
42530530 AGCCAAATAA
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 81 0.77
141 4 0.04
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.30
Consensus pattern (141 bp):
GATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACA
TGGTCTTACACTGACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
GTCTCGAGGCC
Found at i:42535705 original size:15 final size:15
Alignment explanation
Indices: 42535685--42535715 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42535675 ATAAGCTCAA
42535685 AAAATTTACTATCAT
1 AAAATTTACTATCAT
42535700 AAAATTTACTATCAT
1 AAAATTTACTATCAT
42535715 A
1 A
42535716 TCCAAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTTACTATCAT
Found at i:42538044 original size:18 final size:21
Alignment explanation
Indices: 42538021--42538061 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 21
42538011 AATAACATAC
42538021 AATAAT-GTTG-ACAAAT-AT
1 AATAATAGTTGAACAAATCAT
42538039 AATAATAGTTGAACAAATCAT
1 AATAATAGTTGAACAAATCAT
42538060 AA
1 AA
42538062 ACCATAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 4 0.20
20 6 0.30
21 4 0.20
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (21 bp):
AATAATAGTTGAACAAATCAT
Found at i:42539525 original size:19 final size:19
Alignment explanation
Indices: 42539501--42539540 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
42539491 ACTTACATAA
*
42539501 AATAATTATAAAAGAAGCC
1 AATAATTATAAAAGAAACC
42539520 AATAATTATAAAAGAAACC
1 AATAATTATAAAAGAAACC
42539539 AA
1 AA
42539541 AAGTAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.20
Consensus pattern (19 bp):
AATAATTATAAAAGAAACC
Found at i:42542331 original size:46 final size:46
Alignment explanation
Indices: 42542264--42542355 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
42542254 TTGTTATTTT
*
42542264 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
1 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATAGGGTTCAA
*
42542310 CTTATTCGTTACTTAATCGAGTCGAAATCCTAACAATAGGGTTCAA
1 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATAGGGTTCAA
42542356 GAATATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (46 bp):
CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATAGGGTTCAA
Found at i:42548461 original size:31 final size:31
Alignment explanation
Indices: 42548423--42548488 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
42548413 GAACTCTTTG
42548423 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
1 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
42548454 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
1 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
42548485 GAAA
1 GAAA
42548489 TGGAAGTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (31 bp):
GAAAAGTTATTATGGAAGTAAAAGAATGGGT
Found at i:42554737 original size:926 final size:926
Alignment explanation
Indices: 42552946--42554801 Score: 3712
Period size: 926 Copynumber: 2.0 Consensus size: 926
42552936 ACATGCCATT
42552946 GAACAAAATAAACAGAGTCTTTATACCAAAGCTTGTTTAGTTAATAGTGTGTTGCTTCTCCTACC
1 GAACAAAATAAACAGAGTCTTTATACCAAAGCTTGTTTAGTTAATAGTGTGTTGCTTCTCCTACC
42553011 CGTCTTCCAATCCTTATGAGTCCTCAAGCTCTGTAAAATAGGGAAAAGAGAAGGGTAATCATTTT
66 CGTCTTCCAATCCTTATGAGTCCTCAAGCTCTGTAAAATAGGGAAAAGAGAAGGGTAATCATTTT
42553076 CATGCTTAGTAAGCTCGAATAACCGAAGAGTAAACTTAACGAGTGATTAGCATACATCCATACTT
131 CATGCTTAGTAAGCTCGAATAACCGAAGAGTAAACTTAACGAGTGATTAGCATACATCCATACTT
42553141 AAATCATGAAATCATCCAATATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGTCA
196 AAATCATGAAATCATCCAATATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGTCA
42553206 CATAATCATTTATCATGTAATTTAACTAGATGAGCTCATCATTCAACATTTCATTCATACATGTA
261 CATAATCATTTATCATGTAATTTAACTAGATGAGCTCATCATTCAACATTTCATTCATACATGTA
42553271 TCTTACGTTAATCTCGTTGAGTTTCTAGGAAATCTCGATGCAATACCCATTATCCGTCAATTCAT
326 TCTTACGTTAATCTCGTTGAGTTTCTAGGAAATCTCGATGCAATACCCATTATCCGTCAATTCAT
42553336 TCAAATGATCTTTTCATATATGCGCTCTCACGAACCTCACATCATATGGCGGGATTACCAGTCCA
391 TCAAATGATCTTTTCATATATGCGCTCTCACGAACCTCACATCATATGGCGGGATTACCAGTCCA
42553401 GGCTAAATTCCCCATTGTATGGACTCATAGGGTGATGTCGGGATTGCCAGTCCAGGCTAAATCCC
456 GGCTAAATTCCCCATTGTATGGACTCATAGGGTGATGTCGGGATTGCCAGTCCAGGCTAAATCCC
42553466 TTATAGCGACAAACACCCTTATTGAGCTCGGATCTGAATTACTAGTCCAGGCTAAATTTAGACCC
521 TTATAGCGACAAACACCCTTATTGAGCTCGGATCTGAATTACTAGTCCAGGCTAAATTTAGACCC
42553531 TAATCGGATTACCCGTCCGGGCTAAATCCATAATGCACACATATTCTTCGGGAGGCTTGATCATT
586 TAATCGGATTACCCGTCCGGGCTAAATCCATAATGCACACATATTCTTCGGGAGGCTTGATCATT
42553596 CAAGGAACACCCATCTGGGTTAGATCCTTTCTATACTTGAGATCACGGATTACCCCGTCCGGGCT
651 CAAGGAACACCCATCTGGGTTAGATCCTTTCTATACTTGAGATCACGGATTACCCCGTCCGGGCT
42553661 AAATCCTTACTGCAACACATGCAGGATCTCAGTTCACATGTCAAATAGGGTTTGTCCATCGAATT
716 AAATCCTTACTGCAACACATGCAGGATCTCAGTTCACATGTCAAATAGGGTTTGTCCATCGAATT
42553726 CCCCTTTTCAACCCCAACCGAGACATTTTTCACATGTTATCATCAAATGTACATTTCTATGATAT
781 CCCCTTTTCAACCCCAACCGAGACATTTTTCACATGTTATCATCAAATGTACATTTCTATGATAT
42553791 TGCATGCCAATAATAAACGCAATCATCAAGCATTCATAAATCATACAATTATGCATATTAAGGGT
846 TGCATGCCAATAATAAACGCAATCATCAAGCATTCATAAATCATACAATTATGCATATTAAGGGT
42553856 TTACTTTAAGTTATCC
911 TTACTTTAAGTTATCC
42553872 GAACAAAATAAACAGAGTCTTTATACCAAAGCTTGTTTAGTTAATAGTGTGTTGCTTCTCCTACC
1 GAACAAAATAAACAGAGTCTTTATACCAAAGCTTGTTTAGTTAATAGTGTGTTGCTTCTCCTACC
42553937 CGTCTTCCAATCCTTATGAGTCCTCAAGCTCTGTAAAATAGGGAAAAGAGAAGGGTAATCATTTT
66 CGTCTTCCAATCCTTATGAGTCCTCAAGCTCTGTAAAATAGGGAAAAGAGAAGGGTAATCATTTT
42554002 CATGCTTAGTAAGCTCGAATAACCGAAGAGTAAACTTAACGAGTGATTAGCATACATCCATACTT
131 CATGCTTAGTAAGCTCGAATAACCGAAGAGTAAACTTAACGAGTGATTAGCATACATCCATACTT
42554067 AAATCATGAAATCATCCAATATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGTCA
196 AAATCATGAAATCATCCAATATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGTCA
42554132 CATAATCATTTATCATGTAATTTAACTAGATGAGCTCATCATTCAACATTTCATTCATACATGTA
261 CATAATCATTTATCATGTAATTTAACTAGATGAGCTCATCATTCAACATTTCATTCATACATGTA
42554197 TCTTACGTTAATCTCGTTGAGTTTCTAGGAAATCTCGATGCAATACCCATTATCCGTCAATTCAT
326 TCTTACGTTAATCTCGTTGAGTTTCTAGGAAATCTCGATGCAATACCCATTATCCGTCAATTCAT
42554262 TCAAATGATCTTTTCATATATGCGCTCTCACGAACCTCACATCATATGGCGGGATTACCAGTCCA
391 TCAAATGATCTTTTCATATATGCGCTCTCACGAACCTCACATCATATGGCGGGATTACCAGTCCA
42554327 GGCTAAATTCCCCATTGTATGGACTCATAGGGTGATGTCGGGATTGCCAGTCCAGGCTAAATCCC
456 GGCTAAATTCCCCATTGTATGGACTCATAGGGTGATGTCGGGATTGCCAGTCCAGGCTAAATCCC
42554392 TTATAGCGACAAACACCCTTATTGAGCTCGGATCTGAATTACTAGTCCAGGCTAAATTTAGACCC
521 TTATAGCGACAAACACCCTTATTGAGCTCGGATCTGAATTACTAGTCCAGGCTAAATTTAGACCC
42554457 TAATCGGATTACCCGTCCGGGCTAAATCCATAATGCACACATATTCTTCGGGAGGCTTGATCATT
586 TAATCGGATTACCCGTCCGGGCTAAATCCATAATGCACACATATTCTTCGGGAGGCTTGATCATT
42554522 CAAGGAACACCCATCTGGGTTAGATCCTTTCTATACTTGAGATCACGGATTACCCCGTCCGGGCT
651 CAAGGAACACCCATCTGGGTTAGATCCTTTCTATACTTGAGATCACGGATTACCCCGTCCGGGCT
42554587 AAATCCTTACTGCAACACATGCAGGATCTCAGTTCACATGTCAAATAGGGTTTGTCCATCGAATT
716 AAATCCTTACTGCAACACATGCAGGATCTCAGTTCACATGTCAAATAGGGTTTGTCCATCGAATT
42554652 CCCCTTTTCAACCCCAACCGAGACATTTTTCACATGTTATCATCAAATGTACATTTCTATGATAT
781 CCCCTTTTCAACCCCAACCGAGACATTTTTCACATGTTATCATCAAATGTACATTTCTATGATAT
42554717 TGCATGCCAATAATAAACGCAATCATCAAGCATTCATAAATCATACAATTATGCATATTAAGGGT
846 TGCATGCCAATAATAAACGCAATCATCAAGCATTCATAAATCATACAATTATGCATATTAAGGGT
42554782 TTACTTTAAGTTATCC
911 TTACTTTAAGTTATCC
42554798 GAAC
1 GAAC
42554802 TTACCTGGTA
Statistics
Matches: 930, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
926 930 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (926 bp):
GAACAAAATAAACAGAGTCTTTATACCAAAGCTTGTTTAGTTAATAGTGTGTTGCTTCTCCTACC
CGTCTTCCAATCCTTATGAGTCCTCAAGCTCTGTAAAATAGGGAAAAGAGAAGGGTAATCATTTT
CATGCTTAGTAAGCTCGAATAACCGAAGAGTAAACTTAACGAGTGATTAGCATACATCCATACTT
AAATCATGAAATCATCCAATATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGTCA
CATAATCATTTATCATGTAATTTAACTAGATGAGCTCATCATTCAACATTTCATTCATACATGTA
TCTTACGTTAATCTCGTTGAGTTTCTAGGAAATCTCGATGCAATACCCATTATCCGTCAATTCAT
TCAAATGATCTTTTCATATATGCGCTCTCACGAACCTCACATCATATGGCGGGATTACCAGTCCA
GGCTAAATTCCCCATTGTATGGACTCATAGGGTGATGTCGGGATTGCCAGTCCAGGCTAAATCCC
TTATAGCGACAAACACCCTTATTGAGCTCGGATCTGAATTACTAGTCCAGGCTAAATTTAGACCC
TAATCGGATTACCCGTCCGGGCTAAATCCATAATGCACACATATTCTTCGGGAGGCTTGATCATT
CAAGGAACACCCATCTGGGTTAGATCCTTTCTATACTTGAGATCACGGATTACCCCGTCCGGGCT
AAATCCTTACTGCAACACATGCAGGATCTCAGTTCACATGTCAAATAGGGTTTGTCCATCGAATT
CCCCTTTTCAACCCCAACCGAGACATTTTTCACATGTTATCATCAAATGTACATTTCTATGATAT
TGCATGCCAATAATAAACGCAATCATCAAGCATTCATAAATCATACAATTATGCATATTAAGGGT
TTACTTTAAGTTATCC
Found at i:42556860 original size:62 final size:62
Alignment explanation
Indices: 42556784--42556910 Score: 209
Period size: 62 Copynumber: 2.0 Consensus size: 62
42556774 ATCACCAGCG
* * *
42556784 TTTAGAAGAGAAAAATAAAAGAAACAAGTGAAAAATACTATTCCTAGACAACTTGGCTTGAA
1 TTTAGAAAAGAAAAATAAAAGAAACAAGTGAAAAATACTATTCCTAGACAACTCGACTTGAA
* *
42556846 TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAATACTATTCCTAGACATCTCGACTTGAA
1 TTTAGAAAAGAAAAATAAAAGAAACAAGTGAAAAATACTATTCCTAGACAACTCGACTTGAA
42556908 TTT
1 TTT
42556911 GTCTATTCCT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (62 bp):
TTTAGAAAAGAAAAATAAAAGAAACAAGTGAAAAATACTATTCCTAGACAACTCGACTTGAA
Found at i:42560312 original size:22 final size:22
Alignment explanation
Indices: 42560286--42560330 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
42560276 ATTATGTGTA
42560286 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
42560308 TTAATTTTCATATAATTTAATT
1 TTAATTATAATATAATTTAATT
42560330 T
1 T
42560331 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:42562111 original size:21 final size:21
Alignment explanation
Indices: 42562087--42562131 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
42562077 CGAAGATATG
42562087 AATTTTGAAAATCCAAACCAA
1 AATTTTGAAAATCCAAACCAA
*
42562108 AATTTTGAAAATCTAAACCAA
1 AATTTTGAAAATCCAAACCAA
42562129 AAT
1 AAT
42562132 CTAGAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (21 bp):
AATTTTGAAAATCCAAACCAA
Found at i:42563946 original size:30 final size:30
Alignment explanation
Indices: 42563910--42563967 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
42563900 CTTTACGAGC
* *
42563910 TTAGGGGCAAAAGTGTAATTTTGACAAAGT
1 TTAGGGGCAAAAATATAATTTTGACAAAGT
* *
42563940 TTAGGGGTAAAAATATAATTTTGCCAAA
1 TTAGGGGCAAAAATATAATTTTGACAAA
42563968 ATGTGATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (30 bp):
TTAGGGGCAAAAATATAATTTTGACAAAGT
Found at i:42566154 original size:30 final size:30
Alignment explanation
Indices: 42566120--42566179 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
42566110 ATTTAATACG
42566120 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
42566150 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
42566180 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:42572402 original size:40 final size:39
Alignment explanation
Indices: 42572292--42572510 Score: 289
Period size: 39 Copynumber: 5.6 Consensus size: 39
42572282 TATTCGAATG
* * *
42572292 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTATTGATT
*
42572332 ACATCCGGGCTAAGTCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTATTGATT
*
42572371 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTATTGATT
* *
42572411 ATATCCGGGCTAAGTCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTATTGATT
* * *
42572450 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTA-TTGATT
*
42572490 ATATCC-GGCTAAATCCGAAGG
1 ATATCCGGGCTAAGTCCGAAGG
42572511 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
38 7 0.04
39 77 0.48
40 75 0.46
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTATTGATT
Found at i:42572423 original size:79 final size:79
Alignment explanation
Indices: 42572292--42572510 Score: 334
Period size: 79 Copynumber: 2.8 Consensus size: 79
42572282 TATTCGAATG
* * *
42572292 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATTACATCCGGGCTAAGTCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCGAAGGCAT
*
42572357 TTGTGCTATTGATT
66 TTGTGCTATTGACT
*
42572371 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCGAAGGCTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCGAAGGCAT
42572436 TTGTGCTATTGACT
66 TTGTGCTATTGACT
* * * *
42572450 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTATATCCGGGCTAAGTCCGAAGG
42572511 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
78 14 0.11
79 114 0.88
80 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCGAAGGCAT
TTGTGCTATTGACT
Found at i:42579850 original size:30 final size:30
Alignment explanation
Indices: 42579816--42579875 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
42579806 ATTTAATACG
42579816 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
42579846 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
42579876 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:42581129 original size:50 final size:50
Alignment explanation
Indices: 42581059--42581559 Score: 465
Period size: 50 Copynumber: 10.0 Consensus size: 50
42581049 TAAAATGGTT
* *
42581059 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
** * * * * *
42581109 TTAGGTTGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACTC-GAAAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAG-ATAG
* * * * *
42581160 TTCA-ATCACGTGTGTAGTACTAAGTGCACGCTACTACGTGTATCAGATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * ** *
42581210 TTAGGTCACGTGTGTAGTACTAATTGCACACTACTATGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * * *
42581260 TTAGGTCGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTACCCGAAAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAG
* * * * *
42581311 TTCA-ATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * *
42581361 TTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * *
42581411 TTAGGTCGCATGTGTAGTACTAAGTGCACGCTACTATGTGTACCAGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* * * * *
42581462 TTCA-ATCACATATGTAGTACTAAGTGCAGGATACTACGTGTACCGGAT-T
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * *
42581511 TTTGGTCGCATGTGTAGTACTAAGTGCAGGCT-CTATGCGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
42581560 CTTCGATTAC
Statistics
Matches: 360, Mismatches: 79, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
48 12 0.03
49 28 0.08
50 204 0.57
51 113 0.31
52 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:42581195 original size:101 final size:99
Alignment explanation
Indices: 42581064--42581556 Score: 501
Period size: 101 Copynumber: 4.9 Consensus size: 99
42581054 TGGTTTTAGG
* *
42581064 TCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
*
42581129 TAAGTGCAAGCTACTATGCGTACTC-GAAAACTTCAA
66 TAAGTGCAAGCTACTATGTGTAC-CAG-AAACTT-AA
* * * * *
42581165 TCACGTGTGTAGTACTAAGTGCACGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
* * * *
42581230 TAATTGCACA-CTACTATGTGTACCAGATAGTTAGG
66 TAAGTGCA-AGCTACTATGTGTACCAGAAACTTA-A
* * * * * * * * * * *
42581265 TCGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTACCCGAAAACTTCA-ATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGTT-AGGTCGCATGTGTAGT
* * * * ***
42581329 ACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAA
64 ACTAAGTGCAAGCTACTATGTGTACCAGAAACTTAA
*
42581365 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATAGTTAGGTCGCATGTGTAGTA
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTA
*
42581430 CTAAGTGCACGCTACTATGTGTACCAGACAACTTCAA
65 CTAAGTGCAAGCTACTATGTGTACCAGA-AACTT-AA
* * * * * *
42581467 TCACATATGTAGTACTAAGTGCAGGATACTACGTGTACCGGAT-TTTTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
* *
42581531 TAAGTGCAGGCT-CTATGCGTACCAGA
66 TAAGTGCAAGCTACTATGTGTACCAGA
42581557 TAGCTTCGAT
Statistics
Matches: 323, Mismatches: 59, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
99 15 0.05
100 108 0.33
101 196 0.61
102 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
TAAGTGCAAGCTACTATGTGTACCAGAAACTTAA
Found at i:42581295 original size:151 final size:150
Alignment explanation
Indices: 42581019--42581559 Score: 737
Period size: 151 Copynumber: 3.6 Consensus size: 150
42581009 AGAACAAATT
* * * * * *
42581019 TGTAGTATTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAAGT
* * *
42581084 GCAGTCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAGTGCAAGCTACTATGCG
64 GCAGGCTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCG
42581149 TACTCGAAAACTTCAATCACGTG
129 TAC-CGAAAACTTCAATCACGTG
* *
42581172 TGTAGTACTAAGTGCACGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAATTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
** **
42581237 ACACTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTA
66 AGGCTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTA
42581302 CCCGAAAACTTCAATCACGTG
131 -CCGAAAACTTCAATCACGTG
* *
42581323 TGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
* *
42581388 AGGCTACTACT-TGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCACGCTACTATGTGT
66 AGGCTACTA-TGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGT
* * *
42581452 ACCAGACAACTTCAATCACATA
130 ACC-GAAAACTTCAATCACGTG
* * * * * * *
42581474 TGTAGTACTAAGTGCAGGATACTACGTGTACCGGAT-TTTTGGTCGCATGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
*
42581538 AGGCT-CTATGCGTACCAGATAG
66 AGGCTACTATGTGTACCAGATAG
42581560 CTTCGATTAC
Statistics
Matches: 348, Mismatches: 36, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
148 1 0.00
149 14 0.04
150 30 0.09
151 270 0.78
152 2 0.01
153 31 0.09
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (150 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
AGGCTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTA
CCGAAAACTTCAATCACGTG
Found at i:42585851 original size:27 final size:27
Alignment explanation
Indices: 42585803--42585863 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
42585793 GCGAGGCTAC
* *
42585803 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGAAA
* * *
42585830 CAGATATTGTGGCTAGGCCACCAGAAA
1 CAGATATTGTGACGAAGCCACCAGAAA
*
42585857 AAGATAT
1 CAGATAT
42585864 ATATATATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGAAA
Found at i:42585952 original size:27 final size:26
Alignment explanation
Indices: 42585904--42585955 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
42585894 GCGAGGCTGT
*
42585904 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
42585930 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
42585956 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:42586225 original size:27 final size:27
Alignment explanation
Indices: 42586195--42586407 Score: 238
Period size: 27 Copynumber: 8.0 Consensus size: 27
42586185 CCGTAGGGGA
* * *
42586195 AAAATGGTAATTTTATAAATCGAAGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
*
42586222 AAAACGGTAATTC-AGTAAATTGAGGGT
1 AAAACGGTAATTCTA-TAAATCGAGGGT
*
42586249 AAAATGGTAATTCTATAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
** * *
42586276 AAAATAGTAATT-TGTAAATCAAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
42586302 AAAACGGTAATTCTATAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
*
42586329 AAAACGG---TTCTATAAATTGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
* *
42586353 AAAACAGTAATTCTGTAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
** * *
42586380 AAAATAGTAATTTTTTAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
42586407 A
1 A
42586408 TTTCAGTAAT
Statistics
Matches: 160, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
24 22 0.14
26 23 0.14
27 114 0.71
28 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
AAAACGGTAATTCTATAAATCGAGGGT
Found at i:42586383 original size:104 final size:107
Alignment explanation
Indices: 42586195--42586407 Score: 308
Period size: 104 Copynumber: 2.0 Consensus size: 107
42586185 CCGTAGGGGA
* * **
42586195 AAAATGGTAATTTTATAAATCGAAGGTAAAACGGTAATTCAGTAAATTGAGGGTAAAATGGTAAT
1 AAAACGGTAATTCTATAAATCGAAGGTAAAACGGT-ATTCAGTAAATTGAGGGTAAAACAGTAAT
42586260 TCTATAAATCGAGGGTAAAATAGTAA-TTTGTAAATCAAGGGT
65 TCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAGGGT
*
42586302 AAAACGGTAATTCTATAAATCGAGGGTAAAACGG--TTCTA-TAAATTGAGGGTAAAACAGTAAT
1 AAAACGGTAATTCTATAAATCGAAGGTAAAACGGTATTC-AGTAAATTGAGGGTAAAACAGTAAT
* * *
42586364 TCTGTAAATCGAGGGTAAAATAGTAATTTTTTAAATCGAGGGT
65 TCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAGGGT
42586407 A
1 A
42586408 TTTCAGTAAT
Statistics
Matches: 96, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
104 49 0.51
105 16 0.17
107 31 0.32
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.30
Consensus pattern (107 bp):
AAAACGGTAATTCTATAAATCGAAGGTAAAACGGTATTCAGTAAATTGAGGGTAAAACAGTAATT
CTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCAAGGGT
Found at i:42586399 original size:78 final size:77
Alignment explanation
Indices: 42586201--42586407 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 77
42586191 GGGAAAAATG
* * * *
42586201 GTAATTTTATAAATCGAA-GGTAAAACGGTAATTC-AGTAAATTGAGGGTAAAATGGTAATTCTA
1 GTAA-TTTGTAAATC-AAGGGTAAAACAGTAATTCTA-TAAATCGAGGGTAAAACGG---TTCTA
*
42586264 TAAATCGAGGGTAAAATA
60 TAAATCGAGGGTAAAACA
* *
42586282 GTAATTTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTTCTATAAATT
1 GTAATTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTTCTATAAATC
42586347 GAGGGTAAAACA
66 GAGGGTAAAACA
* * * *
42586359 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTTTAAATCGAGGGTA
1 GTAATT-TGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
42586408 TTTCAGTAAT
Statistics
Matches: 113, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
77 27 0.24
78 37 0.33
79 2 0.02
80 42 0.37
81 5 0.04
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (77 bp):
GTAATTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTTCTATAAATC
GAGGGTAAAACA
Found at i:42589595 original size:22 final size:22
Alignment explanation
Indices: 42589570--42589613 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42589560 AAATATTAAC
*
42589570 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
42589592 ATAATAAATTTTTATTAATTTT
1 ATAATAAATTTTAAATAATTTT
42589614 GATTATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:42602960 original size:29 final size:29
Alignment explanation
Indices: 42602918--42602975 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
42602908 CTATTCTTAA
42602918 GGTTCAACCGGACTTCCAATTGTTGAATC
1 GGTTCAACCGGACTTCCAATTGTTGAATC
42602947 GGTTCAACCGGACTTCCAATTGTTGAATC
1 GGTTCAACCGGACTTCCAATTGTTGAATC
42602976 ATCGTCGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (29 bp):
GGTTCAACCGGACTTCCAATTGTTGAATC
Found at i:42604270 original size:36 final size:36
Alignment explanation
Indices: 42604230--42604302 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
42604220 CATAAGACTT
42604230 TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
1 TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
42604266 TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
1 TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
42604302 T
1 T
42604303 CTCTCGAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (36 bp):
TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
Found at i:42612667 original size:27 final size:27
Alignment explanation
Indices: 42612637--42612814 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42612627 ATATTAAGTC
* * *
42612637 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
42612664 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
42612692 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
42612719 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
42612746 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
42612773 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
42612800 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42612815 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:42612721 original size:55 final size:54
Alignment explanation
Indices: 42612637--42612814 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
42612627 ATATTAAGTC
* * *
42612637 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
42612692 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
42612746 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
42612800 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42612815 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:42612803 original size:81 final size:82
Alignment explanation
Indices: 42612658--42612813 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
42612648 TGCTATATAA
* *
42612658 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
42612723 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
42612740 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
42612803 ACACTTAGTGC
65 ACACTTAGTGC
42612814 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:42620923 original size:27 final size:27
Alignment explanation
Indices: 42620893--42621070 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42620883 ATATTAAGTC
* * *
42620893 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
42620920 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
42620948 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
42620975 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
42621002 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
42621029 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
42621056 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42621071 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:42620977 original size:55 final size:54
Alignment explanation
Indices: 42620893--42621070 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
42620883 ATATTAAGTC
* * *
42620893 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
42620948 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
42621002 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
42621056 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42621071 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:42621059 original size:81 final size:82
Alignment explanation
Indices: 42620914--42621069 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
42620904 TGCTATATAA
* *
42620914 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
42620979 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
42620996 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
42621059 ACACTTAGTGC
65 ACACTTAGTGC
42621070 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:42632892 original size:27 final size:26
Alignment explanation
Indices: 42632854--42632968 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
42632844 CAGCATGGCT
*
42632854 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGACAGAGCC
**
42632880 ACCAGATACAGATATTGTGGGAGAGCC
1 ACCAGA-ACAGATATTGTGACAGAGCC
** *
42632907 ACCAGAACAGATATTTGTTTCATAGCC
1 ACCAGAACAGATA-TTGTGACAGAGCC
* * *
42632934 ACCAGAAACAAATATTTGTGGCATAGCC
1 ACCAG-AACAGATA-TTGTGACAGAGCC
42632962 ACCAGAA
1 ACCAGAA
42632969 TGCTTCCTCC
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 13 0.17
27 39 0.51
28 24 0.32
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGACAGAGCC
Found at i:42639100 original size:56 final size:56
Alignment explanation
Indices: 42639014--42639133 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
42639004 ACAAGGGATG
42639014 ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
42639070 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
42639126 ATGGGCAA
1 ATGGGCAA
42639134 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:42640660 original size:49 final size:47
Alignment explanation
Indices: 42640581--42641127 Score: 775
Period size: 47 Copynumber: 11.6 Consensus size: 47
42640571 TATTTGAATA
*
42640581 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
42640628 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
42640677 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
42640726 TATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
42640773 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC-ATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
42640821 AATGTGAAAGTG--TATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
42640866 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
42640913 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
42640960 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
42641007 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
42641054 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
42641101 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
42641128 TCCCGAAGGG
Statistics
Matches: 471, Mismatches: 20, Indels: 18
0.93 0.04 0.04
Matches are distributed among these distances:
44 22 0.05
45 18 0.04
46 2 0.00
47 289 0.61
48 20 0.04
49 120 0.25
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:42641005 original size:22 final size:22
Alignment explanation
Indices: 42640978--42641099 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
42640968 CATGTGTATG
42640978 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
42641000 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
42641025 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
42641047 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
42641072 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
42641094 TGTGAT
1 TGTGAT
42641100 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:42654439 original size:42 final size:42
Alignment explanation
Indices: 42654329--42654443 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
42654319 AAAGCTTGTA
* *
42654329 CAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGT-CCAGACATGGTCTTACATGAAATCAAATAC
*
42654372 CAATGCC-ACTGTCCTAGACAGGGTCTTACATGAAATCAAAT-C
1 CAATGCCAAC-GTCC-AGACATGGTCTTACATGAAATCAAATAC
* *
42654414 CGATGCCAACGTCTCAGACTTGGTCTTACA
1 CAATGCCAACGTC-CAGACATGGTCTTACA
42654444 CGAGAACACA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
42 26 0.42
43 36 0.58
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
CAATGCCAACGTCCAGACATGGTCTTACATGAAATCAAATAC
Found at i:42659768 original size:47 final size:47
Alignment explanation
Indices: 42659710--42659830 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 47
42659700 TACCTTGGTT
* * *
42659710 TGGCTACGGGCCATGGTATAGGTATTTTGAGAGGAGCTACCTGGATA
1 TGGCTACGGGCCATGGTATAGGTATTTCGACAGAAGCTACCTGGATA
* * * * * * *
42659757 TGGCT-CTGGGCCTTGGTATAGGTACTCCGACATAAGTTACCTTGATT
1 TGGCTAC-GGGCCATGGTATAGGTATTTCGACAGAAGCTACCTGGATA
42659804 TGGCTACGGGCCATGGTATAGGTATTT
1 TGGCTACGGGCCATGGTATAGGTATTT
42659831 ATCGATTGTG
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
46 1 0.02
47 57 0.97
48 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (47 bp):
TGGCTACGGGCCATGGTATAGGTATTTCGACAGAAGCTACCTGGATA
Found at i:42661062 original size:27 final size:26
Alignment explanation
Indices: 42661021--42661129 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 26
42661011 CATGGCTGCT
* *
42661021 AGAACAGATATTGTGACAGAGTCACC
1 AGAACAGATATTGTGGCAGAGCCACC
* *
42661047 AGATACAGGTATTGTGGCAGAGCCACT
1 AGA-ACAGATATTGTGGCAGAGCCACC
*
42661074 AGAACAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-TTGTGGCAGAGCCACC
*
42661101 AGAAACAGATATTTGTGGCATAGCCACC
1 AG-AACAGATA-TTGTGGCAGAGCCACC
42661129 A
1 A
42661130 TAACGCTTCC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 9 0.12
27 38 0.52
28 26 0.36
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACC
Found at i:42661473 original size:47 final size:47
Alignment explanation
Indices: 42661419--42661526 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 47
42661409 GCTACGTGCC
* * * * *
42661419 ATGGTATAAGTATTTTTAGAGGAGCTACCTTGATTTGGCTATAGGCA
1 ATGGTATAAGTACTCTGAGAGAAGCTACCTTGATTTAGCTATAGGCA
* * * * *
42661466 ATGGTATAGGTACTCTGGGATAAGTTACCTTGATTTAGCTATAGGCC
1 ATGGTATAAGTACTCTGAGAGAAGCTACCTTGATTTAGCTATAGGCA
*
42661513 ATGGTATAGGTACT
1 ATGGTATAAGTACT
42661527 TATCGATTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (47 bp):
ATGGTATAAGTACTCTGAGAGAAGCTACCTTGATTTAGCTATAGGCA
Found at i:42663813 original size:19 final size:19
Alignment explanation
Indices: 42663777--42663815 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
42663767 TTTTCATCAT
* *
42663777 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
42663796 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
42663815 A
1 A
42663816 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:42664319 original size:55 final size:56
Alignment explanation
Indices: 42664254--42664368 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
42664244 AGCATGGCTG
* *
42664254 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
42664310 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
42664365 CCAG
1 CCAG
42664369 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:42664331 original size:27 final size:27
Alignment explanation
Indices: 42664279--42664368 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
42664269 GTGACAGAGT
42664279 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
42664308 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
42664335 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
42664363 CACCAG
1 CACCAG
42664369 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:42664521 original size:28 final size:28
Alignment explanation
Indices: 42664474--42664538 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
42664464 AAATTAACCC
*
42664474 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
42664502 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
42664530 TAGGGGTAT
1 TAGGGGTAT
42664539 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:42665624 original size:12 final size:13
Alignment explanation
Indices: 42665605--42665637 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
42665595 GGGTTCGGCT
42665605 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
42665618 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
42665630 ATGGAGAA
1 ATGGAGAA
42665638 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:42668073 original size:40 final size:40
Alignment explanation
Indices: 42668029--42668142 Score: 174
Period size: 40 Copynumber: 2.9 Consensus size: 40
42668019 AAGTTATTTT
* *
42668029 TGGCACTTTGTGTGTGATACGACATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGTGATTCGACATAGCTTCAGCTATATA
*
42668069 TGGCACTTAGTGTGTGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGTGATTCGACATAGCTTCAGCTATATA
* * *
42668109 TGGCACTTAGTGTGCGATTTGAGATAGCTTCAGC
1 TGGCACTTAGTGTGTGATTCGACATAGCTTCAGC
42668143 CATGTACGAC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGTGATTCGACATAGCTTCAGCTATATA
Found at i:42673206 original size:24 final size:24
Alignment explanation
Indices: 42673178--42673238 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
42673168 AACCGTATTT
*
42673178 GCACACATAGTGCTAAT-TACACTC
1 GCACACATAGTGCTAATGTAAAC-C
*
42673202 GCACACATAGTG-TCATGGTAAACC
1 GCACACATAGTGCTAAT-GTAAACC
42673226 GCACACATAGTGC
1 GCACACATAGTGC
42673239 ATTGGATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 3 0.09
24 25 0.78
25 4 0.12
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCTAATGTAAACC
Found at i:42682448 original size:47 final size:44
Alignment explanation
Indices: 42682378--42682550 Score: 179
Period size: 47 Copynumber: 3.8 Consensus size: 44
42682368 AACCCGCCCC
*
42682378 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCACCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCACCA
* * *
42682423 TCAAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CA
1 T--AAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCG-CACCA
* * *
42682471 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCA-CCA
42682518 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
42682551 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
45 5 0.05
46 30 0.29
47 61 0.58
48 5 0.05
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCACCA
Found at i:42682547 original size:93 final size:93
Alignment explanation
Indices: 42682383--42682554 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
42682373 GCCCCTAAGT
* *
42682383 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCACCATCAAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCACCAT-AAAGTGAACTCGGACTCAACTCA
42682448 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
42682477 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCA-CCATAAAGTGAACTCGGACTCAACTCA
42682541 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
42682555 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
93 36 0.49
94 34 0.46
95 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCACCATAAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:42689166 original size:46 final size:46
Alignment explanation
Indices: 42689099--42689191 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
42689089 CTGTTTTGTT
42689099 CAATTCAAATGAAAATAGACTCATTAATATTCAATTTCATAACTTA
1 CAATTCAAATGAAAATAGACTCATTAATATTCAATTTCATAACTTA
*
42689145 CAATTCAAATGAAAATAGACTCATTAATATTCAGTTTCATAACTTA
1 CAATTCAAATGAAAATAGACTCATTAATATTCAATTTCATAACTTA
42689191 C
1 C
42689192 TCATCATTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (46 bp):
CAATTCAAATGAAAATAGACTCATTAATATTCAATTTCATAACTTA
Found at i:42690053 original size:93 final size:93
Alignment explanation
Indices: 42689925--42690095 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
42689915 GCCCCTAAGT
* * * *
42689925 GAACTCGGGCTCAAGTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
42689990 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
42690018 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTGAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
42690083 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42690096 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:42690092 original size:46 final size:46
Alignment explanation
Indices: 42689920--42690092 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
42689910 AACCCGCCCC
* * * * * *
42689920 TAAGTGAACTCGGGCTCAAGTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
42689966 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
42690014 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
42690059 TAAGTGAACTCAGACTGAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
42690093 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 56 0.55
47 28 0.28
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:42690111 original size:46 final size:43
Alignment explanation
Indices: 42689963--42690103 Score: 115
Period size: 47 Copynumber: 3.1 Consensus size: 43
42689953 GCGTTCGCAT
*
42689963 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CCATTAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCC-A---A
* * * *
42690010 -CATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TT-AGTGAACTCAGACTCAACTCAACGAGTTCGG--ATGC-CAA
* *
42690056 CCATAAGTGAACTCAGACTGAACTCAACGAGTTCGGATGCTCAA
1 CCATTAGTGAACTCAGACTCAACTCAACGAGTTCGGATGC-CAA
42690100 CCAT
1 CCAT
42690104 CCTAGTGACA
Statistics
Matches: 75, Mismatches: 12, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 29 0.39
47 30 0.40
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
CCATTAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCAA
Found at i:42690549 original size:14 final size:14
Alignment explanation
Indices: 42690530--42690556 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42690520 AAAAAACTAC
42690530 ACTTTTGCCCCTAA
1 ACTTTTGCCCCTAA
42690544 ACTTTTGCCCCTA
1 ACTTTTGCCCCTA
42690557 GGATCGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.37, G:0.07, T:0.37
Consensus pattern (14 bp):
ACTTTTGCCCCTAA
Found at i:42698281 original size:42 final size:42
Alignment explanation
Indices: 42698168--42698290 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 42
42698158 TAGAAAGCTC
* * *
42698168 ATACAATGCCAACGTCCCAGAGGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAA
*
42698210 ATATCGATGCC-ACTGTCCTAGACAG-GGTCTTACATGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAA
*
42698253 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACATGAAA
42698291 ACACATATCG
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 33 0.47
43 35 0.50
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAA
Found at i:42704888 original size:15 final size:15
Alignment explanation
Indices: 42704870--42704911 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
42704860 TCCATAACAG
*
42704870 AGAAATCCAGAATAT
1 AGAAATCCAGAATAA
42704885 AGAAATCCA-ACATAA
1 AGAAATCCAGA-ATAA
*
42704900 AAAAATCCAGAA
1 AGAAATCCAGAA
42704912 CAAGAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.14
Consensus pattern (15 bp):
AGAAATCCAGAATAA
Found at i:42707490 original size:49 final size:49
Alignment explanation
Indices: 42707423--42707647 Score: 254
Period size: 49 Copynumber: 4.5 Consensus size: 49
42707413 CTGGTACGCA
* * * * *
42707423 TAGTAGCCTGCCCATAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCTGTACACG
*
42707472 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCTGTACACG
**
42707521 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCTG-TACACG
* * * ** * *
42707571 TAGTAGCCCGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCTGTACACG
* *
42707622 TAGTAGCTTGCACTTAGTACAACACA
1 TAGTAGCCTGCACTTAGTACTACACA
42707648 TGCGACCTCA
Statistics
Matches: 150, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 78 0.52
50 40 0.27
51 30 0.20
52 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCTGTACACG
Found at i:42707593 original size:99 final size:100
Alignment explanation
Indices: 42707410--42707654 Score: 280
Period size: 98 Copynumber: 2.5 Consensus size: 100
42707400 TAGCCGAAGC
* * * * * **
42707410 TATCTGGTACGCATAGTAGCCTGCCCATAGTACTACACATGCGACCAATTATCCAGTACACGTAG
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCAGTACACGTAG
*
42707475 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCCGCACTTAGTACTACACACGTGATCACAAT
** * * *
42707508 TATCTTGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACACGT
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCAG-TACACGT
*
42707572 AGTAGCCCGCACTTAGTACTACACACGTGATCACAGT
64 AGTAGCCCGCACTTAGTACTACACACGTGATCACAAT
* * * * *
42707609 TTTCGGGTACGCATAGTAGCTTGCACTTAGTACAACACATGCGACC
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
42707655 TCACAATAGA
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
98 41 0.34
99 40 0.33
100 1 0.01
101 40 0.33
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (100 bp):
TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCAGTACACGTAG
TAGCCCGCACTTAGTACTACACACGTGATCACAAT
Found at i:42712740 original size:34 final size:34
Alignment explanation
Indices: 42712697--42712764 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
42712687 TGAAAATGGA
42712697 CAAAAATTGGCTTTTAATTTTGTTTTTAATTCAT
1 CAAAAATTGGCTTTTAATTTTGTTTTTAATTCAT
42712731 CAAAAATTGGCTTTTAATTTTGTTTTTAATTCAT
1 CAAAAATTGGCTTTTAATTTTGTTTTTAATTCAT
42712765 TTTAATAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (34 bp):
CAAAAATTGGCTTTTAATTTTGTTTTTAATTCAT
Found at i:42713339 original size:27 final size:27
Alignment explanation
Indices: 42713309--42713362 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
42713299 TAAGCAATCG
* *
42713309 GCCCGATACGCTCAATAATCTCATACA
1 GCCCAATACGCTCAAGAATCTCATACA
* *
42713336 GCCCAATATGCTGAAGAATCTCATACA
1 GCCCAATACGCTCAAGAATCTCATACA
42713363 ACCTCGAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (27 bp):
GCCCAATACGCTCAAGAATCTCATACA
Found at i:42719238 original size:43 final size:42
Alignment explanation
Indices: 42719170--42719328 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 42
42719160 AGCTCATATA
* * *
42719170 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGATGTGATCTTACACGAAATCAAATA-CG
42719213 ATGCC-ACTGTCCCAGATAG-GATCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGAT-GTGATCTTACACGAAATCAAATACG
* *
42719255 ATACCAACGTCCCAGGCATG-G-TCTTACACATAAATCATAAGT-CG
1 ATGCCAACGTCCCA-G-ATGTGATCTTACAC-GAAATCA-AA-TACG
* ** *
42719299 ATGCCAACGTACTGGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGATGTGATCTTACACG
42719329 TAAACACATA
Statistics
Matches: 96, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
42 25 0.26
43 45 0.47
44 25 0.26
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGATCTTACACGAAATCAAATACG
Found at i:42722542 original size:43 final size:43
Alignment explanation
Indices: 42722440--42722591 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 43
42722430 GTTCCAAACG
* * *
42722440 TGGTCTTACATGT-AATCAAACATCTATGCCACTGTCCCAGACA
1 TGGTCTTACACGTAAATCAAATAT-GATGCCACTGTCCCAGACA
* *
42722483 GGGTCTTACACG-AAATCAAATATGATGCCGA-TGTCCTAGACA
1 TGGTCTTACACGTAAATCAAATATGATGCC-ACTGTCCCAGACA
* **
42722525 TGGTCTTACACGTAAATCTCAAAT-TGATGCCAAC-GTCTCAGATG
1 TGGTCTTACACGTAAA--TCAAATATGATGCC-ACTGTCCCAGACA
* *
42722569 TGGTCTTACATG-AAATCACATAT
1 TGGTCTTACACGTAAATCAAATAT
42722592 CGAAATCCTA
Statistics
Matches: 89, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
41 5 0.06
42 27 0.30
43 26 0.29
44 25 0.28
45 6 0.07
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
TGGTCTTACACGTAAATCAAATATGATGCCACTGTCCCAGACA
Found at i:42722573 original size:44 final size:42
Alignment explanation
Indices: 42722417--42722591 Score: 124
Period size: 43 Copynumber: 4.1 Consensus size: 42
42722407 CGAAAAGTTC
* * * * *
42722417 ATATAATGCCAACGTTCC-AAACGTGGTCTTACATGTAATCAA
1 ATATGATGCCAACG-TCCTAGACATGGTCTTACACGAAATCAA
* * * *
42722459 ACATCTATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAA
1 ATAT-GATGCCAAC-GTCCTAGACATGGTCTTACACGAAATCAA
* *
42722502 ATATGATGCCGATGTCCTAGACATGGTCTTACACGTAAATCTCAA
1 ATATGATGCCAACGTCCTAGACATGGTCTTACACG-AAA--TCAA
** * *
42722547 AT-TGATGCCAACGT-CTCAGATGTGGTCTTACATGAAATCAC
1 ATATGATGCCAACGTCCT-AGACATGGTCTTACACGAAATCAA
42722588 ATAT
1 ATAT
42722592 CGAAATCCTA
Statistics
Matches: 106, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
41 5 0.05
42 34 0.32
43 37 0.35
44 24 0.23
45 6 0.06
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
ATATGATGCCAACGTCCTAGACATGGTCTTACACGAAATCAA
Found at i:42723831 original size:22 final size:22
Alignment explanation
Indices: 42723790--42723831 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
42723780 ATTGTCAAGA
**
42723790 TGGCACAAAGCCATTTTTAGGT
1 TGGCACAAAGCCATAATTAGGT
*
42723812 TGGCACAGAGCCATAATTAG
1 TGGCACAAAGCCATAATTAG
42723832 ATTAAGCAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (22 bp):
TGGCACAAAGCCATAATTAGGT
Found at i:42724219 original size:27 final size:27
Alignment explanation
Indices: 42724193--42724431 Score: 134
Period size: 27 Copynumber: 8.9 Consensus size: 27
42724183 TTTGCCCTAT
* *
42724193 AGAGGTATTTCAATAATTTTACACTAT
1 AGAGGTATTTCAGTAATTTTACACTAC
*
42724220 A-AGGATATTTCAGTAATTTTAAACTAC
1 AGAGG-TATTTCAGTAATTTTACACTAC
*
42724247 AGTGGTATTTCAGTAATTTTACACTAC
1 AGAGGTATTTCAGTAATTTTACACTAC
* ** ** *
42724274 AGGGGTATTTTGGTAATTTTA-AAAATT
1 AGAGGTATTTCAGTAATTTTACACTA-C
* ** *
42724301 AGGGGTATTTTGGTAATTTTACA-AAC
1 AGAGGTATTTCAGTAATTTTACACTAC
* * *
42724327 TAGGGGTATTTTAGTAATTTTACA-AATC
1 -AGAGGTATTTCAGTAATTTTACACTA-C
* *
42724355 A-AGGGTATTTCGGTAATTTTACA-AATC
1 AGA-GGTATTTCAGTAATTTTACACTA-C
* ** *
42724382 AGGGGTATTTTGGTAATTTTACA-AAC
1 AGAGGTATTTCAGTAATTTTACACTAC
*
42724408 CGAGAGTATTTC-GATAATTTTACA
1 AGAG-GTATTTCAG-TAATTTTACA
42724432 AATCGAGGTA
Statistics
Matches: 181, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.05
27 168 0.93
28 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
AGAGGTATTTCAGTAATTTTACACTAC
Found at i:42724308 original size:54 final size:53
Alignment explanation
Indices: 42724196--42724433 Score: 212
Period size: 54 Copynumber: 4.4 Consensus size: 53
42724186 GCCCTATAGA
* * * * * * * *
42724196 GGTATTTCAATAATTTTACACTATAAGGATATTTCAGTAATTTT-AAACTACAGT
1 GGTATTTCAGTAATTTTACA-AACAGGGGTATTTTAGTAATTTTAAAAAT-CAGG
* * *
42724250 GGTATTTCAGTAATTTTACACTACAGGGGTATTTTGGTAATTTTAAAAATTAGG
1 GGTATTTCAGTAATTTTACA-AACAGGGGTATTTTAGTAATTTTAAAAATCAGG
** * *
42724304 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCAAG
1 GGTATTTCAGTAATTTTACAAAC-AGGGGTATTTTAGTAATTTTAAAAATCAGG
* * * *
42724358 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-CCGAG
1 GGTATTTCAGTAATTTTACAAA-CAGGGGTATTTTAGTAATTTTAAAAATCAG-G
*
42724412 AGTATTTC-GATAATTTTACAAA
1 GGTATTTCAG-TAATTTTACAAA
42724434 TCGAGGTATT
Statistics
Matches: 158, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.03
54 149 0.94
55 5 0.03
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (53 bp):
GGTATTTCAGTAATTTTACAAACAGGGGTATTTTAGTAATTTTAAAAATCAGG
Found at i:42724317 original size:81 final size:81
Alignment explanation
Indices: 42724250--42724443 Score: 252
Period size: 81 Copynumber: 2.4 Consensus size: 81
42724240 AAACTACAGT
* * * *
42724250 GGTATTTCAGTAATTTTAC-ACTACAGGGGTATTTTGGTAATTTTAAAAATTAGGGGTATTTTGG
1 GGTATTTCAGTAATTTTACAAAT-CAAGGGTATTTCGGTAATTTTAAAAATCAGGGGTATTTTGG
42724314 TAATTTTACAAACTAGG
65 TAATTTTACAAACTAGG
* *
42724331 GGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGT
1 GGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTAAAAATCAGGGGTATTTTGGT
*
42724396 AATTTTACAAAC-CGAG
66 AATTTTACAAACTAG-G
* *
42724412 AGTATTTC-GATAATTTTACAAATCGA-GGTATT
1 GGTATTTCAG-TAATTTTACAAATCAAGGGTATT
42724444 AATGACCGAA
Statistics
Matches: 100, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
80 8 0.08
81 90 0.90
82 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTAAAAATCAGGGGTATTTTGGT
AATTTTACAAACTAGG
Found at i:42724432 original size:27 final size:27
Alignment explanation
Indices: 42724225--42724443 Score: 175
Period size: 27 Copynumber: 8.1 Consensus size: 27
42724215 ACTATAAGGA
* *
42724225 TATTTCAGTAATTTTA-AACTAC-AGTGG
1 TATTTCGGTAATTTTACAAAT-CGAG-GG
* *
42724252 TATTTCAGTAATTTTAC-ACTAC-AGGGG
1 TATTTCGGTAATTTTACAAAT-CGA-GGG
* * *
42724279 TATTTTGGTAATTTTAAAAAT-TAGGGG
1 TATTTCGGTAATTTTACAAATCGA-GGG
* *
42724306 TATTTTGGTAATTTTACAAA-CTAGGGG
1 TATTTCGGTAATTTTACAAATCGA-GGG
** *
42724333 TATTTTAGTAATTTTACAAATCAAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
42724360 TATTTCGGTAATTTTACAAATC-AGGGG
1 TATTTCGGTAATTTTACAAATCGA-GGG
* * *
42724387 TATTTTGGTAATTTTACAAACCGAGAG
1 TATTTCGGTAATTTTACAAATCGAGGG
*
42724414 TATTTCGATAATTTTACAAATCGA-GG
1 TATTTCGGTAATTTTACAAATCGAGGG
42724440 TATT
1 TATT
42724444 AATGACCGAA
Statistics
Matches: 168, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.04
27 156 0.93
28 6 0.04
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAATCGAGGG
Found at i:42729999 original size:48 final size:48
Alignment explanation
Indices: 42729925--42730212 Score: 445
Period size: 48 Copynumber: 6.0 Consensus size: 48
42729915 CAAGATAAAT
* * *
42729925 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
42729973 ATATGTATATGTGGTAAAGCCGAATGGCTAGCGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
42730021 ATATGTATATGTGGTAAAGCCGAATGGCTACTGGGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
42730069 ATATGTATATGTGGTAAAGTCAAATGGCTAATGTGAAATA--TATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* **
42730115 ATATGTATATGTGGCAAAGTTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
42730163 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
42730211 AT
1 AT
42730213 GTGTGTATAT
Statistics
Matches: 219, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 42 0.19
48 177 0.81
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:42730145 original size:142 final size:143
Alignment explanation
Indices: 42729925--42730212 Score: 461
Period size: 142 Copynumber: 2.0 Consensus size: 143
42729915 CAAGATAAAT
* * *
42729925 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATA-GTATGAGATATGTATATGTGGCAA
42729990 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGG
65 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGG
*
42730055 GAAATATGTATGAG
130 GAAATATGTAGGAG
* *
42730069 ATATGTATATGTGGTAAAGTCAAATGGCTAATGTGAAATA-TATGAGATATGTATATGTGGCAAA
1 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATAGTATGAGATATGTATATGTGGCAAA
** * * *
42730133 GTTGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
66 GCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGGG
42730198 AAATATGTAGGAG
131 AAATATGTAGGAG
42730211 AT
1 AT
42730213 GTGTGTATAT
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
142 97 0.73
144 36 0.27
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (143 bp):
ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATAGTATGAGATATGTATATGTGGCAAA
GCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGGG
AAATATGTAGGAG
Found at i:42730169 original size:94 final size:94
Alignment explanation
Indices: 42729925--42730203 Score: 423
Period size: 94 Copynumber: 2.9 Consensus size: 94
42729915 CAAGATAAAT
* * * *
42729925 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGCAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
*
42729990 AGCCGAATGGCTAGCGTGAAATATGTATGAG
66 AGCCGAATGGCTAGTGTGAAATA--TATGAG
* * *
42730021 ATATGTATATGTGGTAAAGCCGAATGGCTACTGGGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGCAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
* * *
42730086 AGTCAAATGGCTAATGTGAAATATATGAG
66 AGCCGAATGGCTAGTGTGAAATATATGAG
**
42730115 ATATGTATATGTGGCAAAGTTGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGCAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
42730180 AGCCGAATGGCTAGTGTGAAATAT
66 AGCCGAATGGCTAGTGTGAAATAT
42730204 GTAGGAGATG
Statistics
Matches: 166, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
94 87 0.52
96 79 0.48
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (94 bp):
ATATGTATATGTGGCAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAGTGTGAAATATATGAG
Found at i:42730234 original size:94 final size:93
Alignment explanation
Indices: 42729947--42730234 Score: 352
Period size: 94 Copynumber: 3.0 Consensus size: 93
42729937 GGTAAAGCCA
*
42729947 AATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGCGTGAAAT
1 AATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
* *
42730012 ATGTATGAGA-TATGTATATGTGGTAAAGCCG
66 ATGTATGAGATTGTGTATAT-T-GT--GGCCG
* * * * *
42730043 AATGGCTACTGGGAAATATGTATGAGATATGTATATGTGGTAAAGTCAAATGGCTAATGTGAAAT
1 AATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
* *
42730108 A--TATGAGA-TATGTATA-TGTGGCAAAGTTG
66 ATGTATGAGATTGTGTATATTGTGGC-----CG
42730137 AATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 AATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
*
42730202 ATGTAGGAGATGTGTGTATATTGTGGCCG
66 ATGTATGAGAT-TGTGTATATTGTGGCCG
42730231 AATG
1 AATG
42730235 ACCAAATGTG
Statistics
Matches: 166, Mismatches: 16, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
89 2 0.01
91 2 0.01
92 1 0.01
94 82 0.49
96 66 0.40
98 7 0.04
99 6 0.04
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.31
Consensus pattern (93 bp):
AATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
ATGTATGAGATTGTGTATATTGTGGCCG
Found at i:42730403 original size:37 final size:37
Alignment explanation
Indices: 42730353--42730492 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
42730343 GGAAGTATAT
42730353 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
42730390 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
42730427 TCCGGGTAAGATCCGAAGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
42730464 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
42730493 GGACTATTTG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:42736741 original size:14 final size:14
Alignment explanation
Indices: 42736722--42736748 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42736712 CTATGTTTAT
42736722 TATGTGTGAATTTG
1 TATGTGTGAATTTG
42736736 TATGTGTGAATTT
1 TATGTGTGAATTT
42736749 TTTGTGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (14 bp):
TATGTGTGAATTTG
Found at i:42753073 original size:42 final size:43
Alignment explanation
Indices: 42752971--42753115 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
42752961 AGCTTGTACA
* * *
42752971 ATGCCAACGTCCCAGA-TGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAATCAAATATCG
** * *
42753014 ATGCCATTGTCCTAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
* *
42753056 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACG-AAATCA-AATATCG
42753100 ATGCCAACGTCCCAGA
1 ATGCCAACGTCCCAGA
42753116 TGTGGTCTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 29 0.34
43 38 0.44
44 19 0.22
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
Done.