Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 72 of 141
Found at i:23508154 original size:90 final size:90
Alignment explanation
Indices: 23507965--23508154 Score: 224
Period size: 90 Copynumber: 2.1 Consensus size: 90
23507955 TCTTTGTGAT
23507965 AAATGATTTAATCACTATTTGATAGTAATTGACTTTTCATAAAAGAAGATGTAATAGTTACCATA
1 AAATGATTTAATCACTATTTGATAGTAATTGACTTTTCATAAAAGAAGATGTAATAGTTACCATA
* * ** *** * * *
23508030 TTAATGAGTTGCTTGTCTTTGTGAT
66 TCAATAAAATGAAGGTCATTGAGAG
*
23508055 AAATGATTTAATCACTATTTGATAGTAATTGACTTTTCATAAAAGAAGATGTAATGGTTACCATA
1 AAATGATTTAATCACTATTTGATAGTAATTGACTTTTCATAAAAGAAGATGTAATAGTTACCATA
*
23508120 -CGATAAAAT-AAGGTCCAATTGAGAG
66 TCAATAAAATGAAGGT-C-ATTGAGAG
23508145 AATAT-ATTTA
1 AA-ATGATTTA
23508155 TCCTAAAGAG
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
88 2 0.02
89 5 0.06
90 76 0.89
91 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.37
Consensus pattern (90 bp):
AAATGATTTAATCACTATTTGATAGTAATTGACTTTTCATAAAAGAAGATGTAATAGTTACCATA
TCAATAAAATGAAGGTCATTGAGAG
Found at i:23518142 original size:50 final size:50
Alignment explanation
Indices: 23518088--23518267 Score: 195
Period size: 50 Copynumber: 3.6 Consensus size: 50
23518078 TGTGAGCCAT
* ** *
23518088 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCTCAC
* * *
23518138 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCTCAC
* * * * * *
23518188 GTAAGACTATATCTGGGATATGGCATTGGCA--GTACA-GAAAACATCCCAC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC-TCTCAC
*
23518237 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
23518268 TGTTATTATC
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 6 0.06
49 33 0.30
50 70 0.64
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCTCAC
Found at i:23527725 original size:18 final size:18
Alignment explanation
Indices: 23527704--23527740 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23527694 AAAATTCGAA
23527704 TTTATTTCCTAAT-TTAAT
1 TTTATTTCC-AATATTAAT
23527722 TTTATTTCCAATATTAAT
1 TTTATTTCCAATATTAAT
23527740 T
1 T
23527741 GTTTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATTTCCAATATTAAT
Found at i:23537803 original size:3 final size:3
Alignment explanation
Indices: 23537795--23537823 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23537785 GCCTTGTCTT
23537795 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23537824 TTCTTTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23542483 original size:34 final size:34
Alignment explanation
Indices: 23542440--23542507 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
23542430 GCATTTTTGA
* *
23542440 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
23542473 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
23542508 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:23544749 original size:11 final size:12
Alignment explanation
Indices: 23544727--23544752 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23544717 TATATATATA
23544727 TTTTAAATTTTT
1 TTTTAAATTTTT
23544739 TTTTAAATTTTT
1 TTTTAAATTTTT
23544751 TT
1 TT
23544753 ATTTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTAAATTTTT
Found at i:23550792 original size:72 final size:72
Alignment explanation
Indices: 23550670--23550815 Score: 193
Period size: 72 Copynumber: 2.0 Consensus size: 72
23550660 TTTATTATGA
* **
23550670 CCTGACAAATGGTCGTGTCCTTATTGTTGGGTATTTTACACGTCAAACACACGACCTCAGGCTGT
1 CCTGACAAATAGTCGTGTCCTTATCATTGGGTATTTTACACGTCAAACACACGACCTCAGGCTGT
23550735 TACACGG
66 TACACGG
* * ** * * * *
23550742 CCTGACACATAGTCGTGTCCTTATCATTGGGTATTTTGCACGTCGTACACATGGCTTTAGGCTGT
1 CCTGACAAATAGTCGTGTCCTTATCATTGGGTATTTTACACGTCAAACACACGACCTCAGGCTGT
23550807 TACACGG
66 TACACGG
23550814 CC
1 CC
23550816 GTGTACCCCC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (72 bp):
CCTGACAAATAGTCGTGTCCTTATCATTGGGTATTTTACACGTCAAACACACGACCTCAGGCTGT
TACACGG
Found at i:23555715 original size:13 final size:14
Alignment explanation
Indices: 23555681--23555714 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
23555671 ATTTGAAATT
*
23555681 TTAAAAATATATTA
1 TTAAAAAGATATTA
23555695 TTAAAAAGATATTA
1 TTAAAAAGATATTA
23555709 TTAAAA
1 TTAAAA
23555715 GGTTTAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TTAAAAAGATATTA
Found at i:23556049 original size:10 final size:10
Alignment explanation
Indices: 23556024--23556079 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
23556014 TATTTTTAGG
*
23556024 ATTTTTATAA
1 ATTTTTATAT
*
23556034 AATTTTATAT
1 ATTTTTATAT
*
23556044 ATTTTTA-CT
1 ATTTTTATAT
23556053 ATTTTTATA-
1 ATTTTTATAT
* *
23556062 AATTTTAAAT
1 ATTTTTATAT
23556072 ATTTTTAT
1 ATTTTTAT
23556080 TAAAATTTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
9 15 0.43
10 20 0.57
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:23556056 original size:29 final size:28
Alignment explanation
Indices: 23556014--23556078 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
23556004 TTTATAATTT
* *
23556014 TATTTTTAGGATTTTTATAAAATTTTATA
1 TATTTTTACGATTTTTAT-AAATTTTAAA
*
23556043 TATTTTTACTATTTTTATAAATTTTAAA
1 TATTTTTACGATTTTTATAAATTTTAAA
23556071 TATTTTTA
1 TATTTTTA
23556079 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 17 0.52
29 16 0.48
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (28 bp):
TATTTTTACGATTTTTATAAATTTTAAA
Found at i:23556058 original size:19 final size:19
Alignment explanation
Indices: 23556036--23556089 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
23556026 TTTTATAAAA
* * *
23556036 TTTTATATATTTTTACTAT
1 TTTTATAAATTTTAAATAT
23556055 TTTTATAAATTTTAAATAT
1 TTTTATAAATTTTAAATAT
*
23556074 TTTTATTAAAATTTAA
1 TTTTA-TAAATTTTAA
23556090 TAACTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTATAAATTTTAAATAT
Found at i:23556083 original size:20 final size:19
Alignment explanation
Indices: 23556052--23556089 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
23556042 ATATTTTTAC
*
23556052 TATTTTTATAAATTTTAAA
1 TATTTTTATAAAATTTAAA
23556071 TATTTTTATTAAAATTTAA
1 TATTTTTA-TAAAATTTAA
23556090 TAACTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTTTATAAAATTTAAA
Found at i:23556400 original size:87 final size:87
Alignment explanation
Indices: 23556237--23556406 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
23556227 ATTAAATGGT
* * * * *
23556237 CTTTTTGATGCATTTTCACAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAAGGATTAATTGCT
1 CTTTTTGATACATTTTCAAAGTTCAAGTACCCAACTAAGTGCAAAAAAAAAAAGGATTAATTGCA
* *
23556302 TTTTTTGAAAAAGTTTGTGGGC
66 TTTTGTAAAAAAGTTTGTGGGC
* * * * *
23556324 CTTTTTGATACATTTTGAAAGTTCAAGTGCCCAACTAAGTGCAAAAAAAAGTAGGGCTTAATTGC
1 CTTTTTGATACATTTTCAAAGTTCAAGTACCCAACTAAGTGCAAAAAAAA-AAAGGATTAATTGC
23556389 ATTTTGTAAAAAAGTTTG
65 ATTTTGTAAAAAAGTTTG
23556407 AAGGCTTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
87 44 0.63
88 26 0.37
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (87 bp):
CTTTTTGATACATTTTCAAAGTTCAAGTACCCAACTAAGTGCAAAAAAAAAAAGGATTAATTGCA
TTTTGTAAAAAAGTTTGTGGGC
Found at i:23562372 original size:13 final size:13
Alignment explanation
Indices: 23562354--23562379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23562344 AGGTGGTGGC
23562354 AGAGGCTAGGGTT
1 AGAGGCTAGGGTT
23562367 AGAGGCTAGGGTT
1 AGAGGCTAGGGTT
23562380 TCTTTGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.46, T:0.23
Consensus pattern (13 bp):
AGAGGCTAGGGTT
Found at i:23563025 original size:132 final size:132
Alignment explanation
Indices: 23562805--23563210 Score: 706
Period size: 132 Copynumber: 3.1 Consensus size: 132
23562795 CGTTATTGTT
** * * *
23562805 GATCTGCTCCACTACTGCTTAAGGGT-ACAGAATCTACAGTCTTTGACCTACTCCGCTACTGCTT
1 GATCTGCTCCACTACTGCTT-AGGGTGACAGAATCTGTAATCTTTAACCTACTCCACTACTGCTT
* *
23562869 AGAGTGATAGGACTAATGGCTTAAATCTTCTTCTCCACTGTATTGGGAAGATAAGATTCACCATT
65 AGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATT
23562934 TTC
130 TTC
23562937 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTTTAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTTTAACCTACTCCACTACTGCTTA
*
23563002 GGGTGATTGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATTT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATTT
23563067 TC
131 TC
*
23563069 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTTTAACCTACTCCTCTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTTTAACCTACTCCACTACTGCTTA
*
23563134 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATTT
23563199 TC
131 TC
23563201 GATCTGCTCC
1 GATCTGCTCC
23563211 GCTGCGAAAT
Statistics
Matches: 262, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
131 5 0.02
132 257 0.98
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (132 bp):
GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTTTAACCTACTCCACTACTGCTTA
GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATTT
TC
Found at i:23563235 original size:46 final size:46
Alignment explanation
Indices: 23563195--23563431 Score: 375
Period size: 46 Copynumber: 5.2 Consensus size: 46
23563185 AAGATTCACC
* *
23563195 ATCTTCGATCTGCTCCGCTGCGAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
23563241 ATCTTCGATCTCCTCCGCTGCCAAATATAGGAAGACAATATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
23563287 ATTTTCGATCTCCTTCGTTGCCAAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
23563333 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
23563379 ATCTTTGATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
23563425 ATCTTCG
1 ATCTTCG
23563432 TTGATCTGTT
Statistics
Matches: 172, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 172 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:23564504 original size:21 final size:21
Alignment explanation
Indices: 23564478--23564524 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23564468 TTTATAGTAA
23564478 GATCACAACATGCCCCAATCT
1 GATCACAACATGCCCCAATCT
** *
23564499 GATCACTCCATGCCCCATTCT
1 GATCACAACATGCCCCAATCT
23564520 GATCA
1 GATCA
23564525 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.38, G:0.11, T:0.23
Consensus pattern (21 bp):
GATCACAACATGCCCCAATCT
Found at i:23564626 original size:7 final size:7
Alignment explanation
Indices: 23564626--23564659 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
23564616 TTTTTCATTT
23564626 TTTTTCA
1 TTTTTCA
23564633 TTTTTCA
1 TTTTTCA
*
23564640 TTCATTCA
1 TT-TTTCA
23564648 TTTTTCA
1 TTTTTCA
23564655 TTTTT
1 TTTTT
23564660 TTGTTTGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:23565505 original size:25 final size:26
Alignment explanation
Indices: 23565477--23565525 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
23565467 TTTTTTCCTA
23565477 TTTTGACTT-TGATTTTTTTTTGATT
1 TTTTGACTTATGATTTTTTTTTGATT
* *
23565502 TTTTGATTTATTATTTTTTTTTGA
1 TTTTGACTTATGATTTTTTTTTGA
23565526 GTCTGAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.73
Consensus pattern (26 bp):
TTTTGACTTATGATTTTTTTTTGATT
Found at i:23571592 original size:13 final size:13
Alignment explanation
Indices: 23571574--23571599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23571564 AGGTGGTGGC
23571574 AGAGGCTAGGGTT
1 AGAGGCTAGGGTT
23571587 AGAGGCTAGGGTT
1 AGAGGCTAGGGTT
23571600 TCTTTGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.46, T:0.23
Consensus pattern (13 bp):
AGAGGCTAGGGTT
Found at i:23581268 original size:18 final size:18
Alignment explanation
Indices: 23581242--23581276 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23581232 ATGATATGCC
*
23581242 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
23581260 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
23581277 ACCATTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:23586166 original size:54 final size:54
Alignment explanation
Indices: 23586108--23586229 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 54
23586098 GTCCTCACCT
* *
23586108 GTGTAACTCACTGGGCTGCCACACACGCCCCTGT-TCCAGACCGTGTGCTAAGCC
1 GTGTAACTCACTGAGCTACCACACACGCCCCTGTGT-CAGACCGTGTGCTAAGCC
* * * * * *
23586162 GTGTAACAT-ACTGAGTTACCATACACGCCCGTGTGTCAGGCCGTGTGTTAGGCC
1 GTGTAAC-TCACTGAGCTACCACACACGCCCCTGTGTCAGACCGTGTGCTAAGCC
*
23586216 GTTTAACTCACTGA
1 GTGTAACTCACTGA
23586230 CTTTAAACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.02
54 53 0.95
55 2 0.04
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (54 bp):
GTGTAACTCACTGAGCTACCACACACGCCCCTGTGTCAGACCGTGTGCTAAGCC
Found at i:23591843 original size:34 final size:34
Alignment explanation
Indices: 23591805--23591872 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
23591795 ATCAAGCTAA
* * *
23591805 AACTTACACATTTAAATCACATCATTTGTACAAG
1 AACTTAAACATTTAAAACACATCATTTGCACAAG
23591839 AACTTAAACATTTAAAACACATCATTTGCACAAG
1 AACTTAAACATTTAAAACACATCATTTGCACAAG
23591873 CATTCATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (34 bp):
AACTTAAACATTTAAAACACATCATTTGCACAAG
Found at i:23592950 original size:40 final size:40
Alignment explanation
Indices: 23592905--23593168 Score: 255
Period size: 40 Copynumber: 6.6 Consensus size: 40
23592895 GTAGATGTAG
* * *
23592905 AACAGGGGCACACATGTGAATTCAGGGGTACCAAAGTATA
1 AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
* * *
23592945 AACAGGGGCACGTATGTGCATTTAGGGGGTA-CTAAGTACA
1 AACAGGGGCACATATGTGCATTCA-GGGGTACCAAAGTACA
* * * **
23592985 AACAGGAGCACATGTGTGCATTCTGGTCTACCAAAGTACA
1 AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
* * * * *
23593025 AACAGGGGCGCGTATGTGCATTTAGGGGTACCGAAGTACG
1 AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
* ** * *
23593065 AATAGGGGCATGTATGTGTATTCAGGGGTACCGAAGTACA
1 AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
**
23593105 AACAGGGGCACGA-ATGTGCATTCAGGGGTATTGAAA-TACA
1 AACAGGGGCAC-ATATGTGCATTCAGGGGTA-CCAAAGTACA
* *
23593145 AATAGGGGCACACATGTGCATTCA
1 AACAGGGGCACATATGTGCATTCA
23593169 AGTACATTTT
Statistics
Matches: 181, Mismatches: 38, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
39 5 0.03
40 168 0.93
41 8 0.04
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (40 bp):
AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
Found at i:23593039 original size:80 final size:79
Alignment explanation
Indices: 23592908--23593168 Score: 297
Period size: 80 Copynumber: 3.3 Consensus size: 79
23592898 GATGTAGAAC
* * * *
23592908 AGGGGCACACATGTGAATTCAGGGGTACCAAAGTATAAACAGGGGCACGTATGTGCATTTAGGGG
1 AGGGGCACATATGTGCATTCAGGGCTACCAAAGTACAAACAGGGGCACGTATGTGCATTTA-GGG
*
23592973 GTACTAAGTACAAAC
65 GTACTAAGTACAAAT
* * * * *
23592988 AGGAGCACATGTGTGCATTCTGGTCTACCAAAGTACAAACAGGGGCGCGTATGTGCATTTAGGGG
1 AGGGGCACATATGTGCATTCAGGGCTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
* *
23593053 TACCGAAGTACGAAT
66 TA-CTAAGTACAAAT
** * * * * *
23593068 AGGGGCATGTATGTGTATTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCATTCAGGGG
1 AGGGGCACATATGTGCATTCAGGGCTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
* *
23593133 TATTGAAATACAAAT
66 TACT-AAGTACAAAT
*
23593148 AGGGGCACACATGTGCATTCA
1 AGGGGCACATATGTGCATTCA
23593169 AGTACATTTT
Statistics
Matches: 147, Mismatches: 32, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
79 6 0.04
80 141 0.96
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.21
Consensus pattern (79 bp):
AGGGGCACATATGTGCATTCAGGGCTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
TACTAAGTACAAAT
Found at i:23593162 original size:120 final size:120
Alignment explanation
Indices: 23592905--23593168 Score: 291
Period size: 120 Copynumber: 2.2 Consensus size: 120
23592895 GTAGATGTAG
* * *
23592905 AACAGGGGCACACATGTGAATTCAGGGGTACCAAAGTATAAACAGGGGCACGTATGTGCATTTAG
1 AACAGGGGCACACATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAG
* * * *
23592970 GGGGTACTAAGTACAAACAGGAGCACATGTGTGCATTCTGGTCTACCAAAGTACA
66 GGGGTACGAAGTACAAACAGGAGCACATATGTGCATTCAGGGCTACCAAAGTACA
* ** * * * * * *
23593025 AACAGGGGCGCGTATGTGCATTTAGGGGTACCGAAGTACGAATAGGGGCATGTATGTGTATTCA-
1 AACAGGGGCACACATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAG
* * **
23593089 GGGGTACCGAAGTACAAACAGGGGCACGA-ATGTGCATTCAGGGGTATTGAAA-TACA
66 GGGGTA-CGAAGTACAAACAGGAGCAC-ATATGTGCATTCAGGGCTA-CCAAAGTACA
*
23593145 AATAGGGGCACACATGTGCATTCA
1 AACAGGGGCACACATGTGCATTCA
23593169 AGTACATTTT
Statistics
Matches: 116, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
119 6 0.05
120 106 0.91
121 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (120 bp):
AACAGGGGCACACATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAG
GGGGTACGAAGTACAAACAGGAGCACATATGTGCATTCAGGGCTACCAAAGTACA
Found at i:23593623 original size:15 final size:14
Alignment explanation
Indices: 23593607--23593642 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
23593597 GATACCTTAT
23593607 TTTAATTTTATTTA
1 TTTAATTTTATTTA
*
23593621 TTTATGTTTTATTTA
1 TTTA-ATTTTATTTA
23593636 TTTAATT
1 TTTAATT
23593643 ACAAGTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
TTTAATTTTATTTA
Found at i:23597710 original size:91 final size:91
Alignment explanation
Indices: 23597606--23597774 Score: 320
Period size: 91 Copynumber: 1.9 Consensus size: 91
23597596 TGACTTACTA
23597606 GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCCGTTTATGGATTTATTCA
1 GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCCGTTTATGGATTTATTCA
23597671 CTTATGACATTCAGAGTGTGATATTG
66 CTTATGACATTCAGAGTGTGATATTG
23597697 GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCCGTTTATGGATTTATTCA
1 GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCCGTTTATGGATTTATTCA
* *
23597762 CTTGTGACGTTCA
66 CTTATGACATTCA
23597775 AAATGTGACA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 76 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (91 bp):
GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCCGTTTATGGATTTATTCA
CTTATGACATTCAGAGTGTGATATTG
Found at i:23601657 original size:7 final size:7
Alignment explanation
Indices: 23601645--23601690 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
23601635 GTATGTAAAC
23601645 ATATAAT
1 ATATAAT
23601652 ATATAAT
1 ATATAAT
23601659 ATATAAT
1 ATATAAT
23601666 ATATAAT
1 ATATAAT
*
23601673 ATATAGT
1 ATATAAT
23601680 ATATAAT
1 ATATAAT
23601687 ATAT
1 ATAT
23601691 GATAAAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (7 bp):
ATATAAT
Found at i:23601719 original size:12 final size:12
Alignment explanation
Indices: 23601702--23601739 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
23601692 ATAAAAACAA
23601702 AATAAAAGAAAT
1 AATAAAAGAAAT
23601714 AATAAAAGAAAT
1 AATAAAAGAAAT
*
23601726 AATAAAAGAGAT
1 AATAAAAGAAAT
23601738 AA
1 AA
23601740 AAAGAAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (12 bp):
AATAAAAGAAAT
Found at i:23601731 original size:24 final size:22
Alignment explanation
Indices: 23601702--23601746 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
23601692 ATAAAAACAA
23601702 AATAAAAGAAATAATAAAAGAAAT
1 AATAAAAGAAAT-A-AAAAGAAAT
*
23601726 AATAAAAGAGATAAAAAGAAA
1 AATAAAAGAAATAAAAAGAAA
23601747 GCTAAGTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 1 0.05
24 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (22 bp):
AATAAAAGAAATAAAAAGAAAT
Found at i:23616630 original size:43 final size:44
Alignment explanation
Indices: 23616582--23616699 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
23616572 AATCTGCCTA
* *
23616582 AAAAAGAGAAGAAGATAATCTTGGGTTGTTG-AAAACATAA-TTT
1 AAAAAGAG-AGAAGATAATCTTGGGTTGTTGAAAAAAAGAATTTT
* **
23616625 AAAAAGAGGAGAAGATAATCCTAAGTTGTTGAAAAAAAGAATTTT
1 AAAAAGA-GAGAAGATAATCTTGGGTTGTTGAAAAAAAGAATTTT
* *
23616670 AAAAAAAGAGAAGATAAACTTGGGTTGTTG
1 AAAAAGAGAGAAGATAATCTTGGGTTGTTG
23616700 GATTTTCCCT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 26 0.42
44 27 0.44
45 9 0.15
ACGTcount: A:0.48, C:0.04, G:0.22, T:0.25
Consensus pattern (44 bp):
AAAAAGAGAGAAGATAATCTTGGGTTGTTGAAAAAAAGAATTTT
Found at i:23623174 original size:9 final size:9
Alignment explanation
Indices: 23623160--23623184 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23623150 CGTTTCAAAA
23623160 TCATTCAAT
1 TCATTCAAT
23623169 TCATTCAAT
1 TCATTCAAT
23623178 TCATTCA
1 TCATTCA
23623185 TCCATTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (9 bp):
TCATTCAAT
Found at i:23624050 original size:13 final size:13
Alignment explanation
Indices: 23624034--23624066 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
23624024 AAATATTTTT
23624034 TTAGTTTATTAAA
1 TTAGTTTATTAAA
*
23624047 TTAGTTTGTTAAA
1 TTAGTTTATTAAA
23624060 TTAGTTT
1 TTAGTTT
23624067 TATTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (13 bp):
TTAGTTTATTAAA
Found at i:23634341 original size:11 final size:11
Alignment explanation
Indices: 23634325--23634353 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
23634315 TGCCAACACT
23634325 AATGCCATGGA
1 AATGCCATGGA
23634336 AATGCCATGGA
1 AATGCCATGGA
23634347 AATGCCA
1 AATGCCA
23634354 GTAAGATGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (11 bp):
AATGCCATGGA
Found at i:23637208 original size:22 final size:22
Alignment explanation
Indices: 23637178--23637288 Score: 102
Period size: 22 Copynumber: 5.0 Consensus size: 22
23637168 ACTCTGCATA
23637178 ACATGCGAGCCTATATGTTAGT
1 ACATGCGAGCCTATATGTTAGT
* *
23637200 -CTATGCGAGCTTATACGTTAGT
1 AC-ATGCGAGCCTATATGTTAGT
* *** *
23637222 ACATGCAAGCCTATCCATTA-C
1 ACATGCGAGCCTATATGTTAGT
*
23637243 ATCAT-CTGAACCTATATGTTAGT
1 A-CATGC-GAGCCTATATGTTAGT
23637266 ACATGCGAGCCTATATGTTAGT
1 ACATGCGAGCCTATATGTTAGT
23637288 A
1 A
23637289 TGTACGAACC
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
21 3 0.04
22 63 0.91
23 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (22 bp):
ACATGCGAGCCTATATGTTAGT
Found at i:23637316 original size:15 final size:15
Alignment explanation
Indices: 23637295--23637334 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
23637285 AGTATGTACG
23637295 AACCCCTAAGG-TAA
1 AACCCCTAAGGTTAA
*
23637309 ACACCCCTAAGGTTCA
1 A-ACCCCTAAGGTTAA
23637325 AACCCCTAAG
1 AACCCCTAAG
23637335 TTTGCAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 19 0.83
16 3 0.13
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (15 bp):
AACCCCTAAGGTTAA
Found at i:23640790 original size:12 final size:12
Alignment explanation
Indices: 23640775--23640799 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23640765 GTGGTTTTTG
23640775 ATGTTTTATGGA
1 ATGTTTTATGGA
23640787 ATGTTTTATGGA
1 ATGTTTTATGGA
23640799 A
1 A
23640800 GAAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (12 bp):
ATGTTTTATGGA
Found at i:23643443 original size:28 final size:28
Alignment explanation
Indices: 23643398--23643458 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
23643388 CTTTCCAGAA
* *
23643398 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGAGCCTTAGCCCAAT
23643425 ACAGTAACAATGTGAGCCTTAGCCCAAT
1 ACAGTAACAATGTGAGCCTTAGCCCAAT
23643453 ACAGTA
1 ACAGTA
23643459 TCGATACAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (28 bp):
ACAGTAACAATGTGAGCCTTAGCCCAAT
Found at i:23648613 original size:42 final size:40
Alignment explanation
Indices: 23648566--23648647 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
23648556 TTGATTTTCT
*
23648566 TCAAGGACTCATAAGAAATTATTCTTTATCCTTCAATTTATC
1 TCAAGGAATCAT-A-AAATTATTCTTTATCCTTCAATTTATC
** *
23648608 TCAAGGAATCATAACTTTATTCTTTGTCCTTCAATTTATC
1 TCAAGGAATCATAAAATTATTCTTTATCCTTCAATTTATC
23648648 AAGGATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 24 0.67
41 1 0.03
42 11 0.31
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (40 bp):
TCAAGGAATCATAAAATTATTCTTTATCCTTCAATTTATC
Found at i:23648850 original size:20 final size:20
Alignment explanation
Indices: 23648808--23648848 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
23648798 TGTTTAGTTA
23648808 TTATTTTGAATATTTATTAT
1 TTATTTTGAATATTTATTAT
* *
23648828 TTATTTTTAA-ATTTCTTAT
1 TTATTTTGAATATTTATTAT
23648847 TT
1 TT
23648849 TAGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATTTTGAATATTTATTAT
Found at i:23649419 original size:18 final size:18
Alignment explanation
Indices: 23649396--23649433 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23649386 TGGAACTTAC
23649396 TTCCTTTGGAGTCGAGTT
1 TTCCTTTGGAGTCGAGTT
23649414 TTCCTTTGGAGTCGAGTT
1 TTCCTTTGGAGTCGAGTT
23649432 TT
1 TT
23649434 GTTAAAGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.16, G:0.26, T:0.47
Consensus pattern (18 bp):
TTCCTTTGGAGTCGAGTT
Found at i:23666528 original size:16 final size:15
Alignment explanation
Indices: 23666507--23666536 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23666497 TATTAATATG
23666507 ATAAATAAATCAAAAA
1 ATAAATAAAT-AAAAA
23666523 ATAAATAAATAAAA
1 ATAAATAAATAAAA
23666537 TAAAAATGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAATAAATAAAAA
Found at i:23668323 original size:44 final size:44
Alignment explanation
Indices: 23668251--23668373 Score: 111
Period size: 44 Copynumber: 2.8 Consensus size: 44
23668241 ATTCCAACCC
* * * * * * *
23668251 ACTACAACTTCAGGGGTATAGGAATTGTAGCTTTAATCTGATCA
1 ACTACAAATTTAGGGATATAAGATTTGTAGCTTTAACCCGATCA
* * * *
23668295 ACTATAAATTTAGGGATATAAGATTTGTAACTTCAACCCGATCC
1 ACTACAAATTTAGGGATATAAGATTTGTAGCTTTAACCCGATCA
* * * *
23668339 ACTACCACTTTAGGGATATAGGATTCGTAGCTTTA
1 ACTACAAATTTAGGGATATAAGATTTGTAGCTTTA
23668374 TCTTCTTCCA
Statistics
Matches: 61, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (44 bp):
ACTACAAATTTAGGGATATAAGATTTGTAGCTTTAACCCGATCA
Found at i:23668478 original size:94 final size:94
Alignment explanation
Indices: 23668350--23668594 Score: 305
Period size: 94 Copynumber: 2.6 Consensus size: 94
23668340 CTACCACTTT
* * *
23668350 AGGGATATAGGATTCGTAGCTTTATCTT-CTTCCACTGCAACTTTAAGGAGATAAGATTCGATAT
1 AGGG-TATAGGATTTGTAGCTTCATCTTGC-TCCACTGCAACTTTAAGGAGATAAGATTCGACAT
*
23668414 CATTATTTCATTCCAACCAACTGCAACTTCA
64 CATAATTTCATTCCAACCAACTGCAACTTCA
* * * *
23668445 AGGGTATAGGATTTGTAGCTTCATATTGCTCCACTGCAAC-TTCAGAGAGATAAGATTCGCCATT
1 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAAG-GAGATAAGATTCGACATC
* *
23668509 GTAATTTCATTCCAACCCACTGCAACTTCA
65 ATAATTTCATTCCAACCAACTGCAACTTCA
* * * * * *
23668539 AGAGTATAGAAATTGTAGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAGAT
1 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAAGGAGATAAGAT
23668595 CCGCTATGGC
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
93 4 0.03
94 118 0.91
95 7 0.05
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (94 bp):
AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAAGGAGATAAGATTCGACATCA
TAATTTCATTCCAACCAACTGCAACTTCA
Found at i:23668573 original size:44 final size:44
Alignment explanation
Indices: 23668433--23668582 Score: 115
Period size: 44 Copynumber: 3.3 Consensus size: 44
23668423 ATTCCAACCA
* * * *
23668433 ACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATATTGCTCC
1 ACTGCAACTTCAAGAGTATAGAAATTGTAGCTTCATCTTGCTCC
* ** ***
23668477 ACTGCAACTTCAGAGAG-ATAAGATTCGCCATTGTAATTTCATTCCAAC-CC
1 ACTGCAACTTCA-AGAGTAT-AGA-----AATTGTAGCTTCA-TCTTGCTCC
23668527 ACTGCAACTTCAAGAGTATAGAAATTGTAGCTTCATCTTGCTCC
1 ACTGCAACTTCAAGAGTATAGAAATTGTAGCTTCATCTTGCTCC
*
23668571 ACTGTAACTTCA
1 ACTGCAACTTCA
23668583 GGGAGATAAG
Statistics
Matches: 79, Mismatches: 17, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 37 0.47
45 5 0.06
49 7 0.09
50 25 0.32
51 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAAGAGTATAGAAATTGTAGCTTCATCTTGCTCC
Found at i:23668621 original size:94 final size:94
Alignment explanation
Indices: 23668418--23668623 Score: 270
Period size: 94 Copynumber: 2.2 Consensus size: 94
23668408 CGATATCATT
* * * * *
23668418 ATTTCATTCCAACCAACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATATTGCTCCACTGCA
1 ATTTCAATCCAACCCACTGCAACTTCAAGAGTATAGAAATTGTAGCTTCATATTGCTCCACTGCA
* * *
23668483 ACTTCAGAGAGATAAGATTCGCCATTGTA
66 ACTTCAGAGAGATAAGATCCGCCATGGCA
* * *
23668512 ATTTCATTCCAACCCACTGCAACTTCAAGAGTATAGAAATTGTAGCTTCATCTTGCTCCACTGTA
1 ATTTCAATCCAACCCACTGCAACTTCAAGAGTATAGAAATTGTAGCTTCATATTGCTCCACTGCA
* *
23668577 ACTTCAGGGAGATAAGATCCGCTATGGCA
66 ACTTCAGAGAGATAAGATCCGCCATGGCA
*
23668606 GA-TTCAATCCGACCCACT
1 -ATTTCAATCCAACCCACT
23668624 AACACTTTAG
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
94 97 0.99
95 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (94 bp):
ATTTCAATCCAACCCACTGCAACTTCAAGAGTATAGAAATTGTAGCTTCATATTGCTCCACTGCA
ACTTCAGAGAGATAAGATCCGCCATGGCA
Found at i:23675113 original size:28 final size:27
Alignment explanation
Indices: 23675080--23675178 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
23675070 TAATGAGATT
23675080 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* **
23675107 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
23675136 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
23675164 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
23675179 TACTTGTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 56 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:23676162 original size:25 final size:24
Alignment explanation
Indices: 23676128--23676353 Score: 174
Period size: 25 Copynumber: 9.6 Consensus size: 24
23676118 TTAATGTATA
23676128 ATGCTGTCCAATTTTGAGTATATT
1 ATGCTGTCCAATTTTGAGTATATT
*
23676152 GATGCTGTCC-ATTTTAATGTATA--
1 -ATGCTGTCCAATTTTGA-GTATATT
*
23676175 ATGCTGTCCAATTTTAAGTATATT
1 ATGCTGTCCAATTTTGAGTATATT
*
23676199 GATGCTGTCC-ATTTTAATGTATA--
1 -ATGCTGTCCAATTTTGA-GTATATT
*
23676222 GTGCTGTCCAATTTTGAGTATATT
1 ATGCTGTCCAATTTTGAGTATATT
* *
23676246 GATGCTGTCC-GTTTTAATGTATA--
1 -ATGCTGTCCAATTTTGA-GTATATT
*
23676269 ATGTTGTCCAATTTTGAGTATATTT
1 ATGCTGTCCAATTTTGAGTATA-TT
*
23676294 AAT-CTGTCTAA-TTTGATGTATA--
1 -ATGCTGTCCAATTTTGA-GTATATT
* *
23676316 ATGCTGTCC-ATTTAGAGCATATT
1 ATGCTGTCCAATTTTGAGTATATT
23676339 ATTGCTGTCCAATTT
1 A-TGCTGTCCAATTT
23676354 GATGAATAAT
Statistics
Matches: 164, Mismatches: 14, Indels: 46
0.73 0.06 0.21
Matches are distributed among these distances:
21 7 0.04
22 49 0.30
23 19 0.12
24 31 0.19
25 56 0.34
26 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (24 bp):
ATGCTGTCCAATTTTGAGTATATT
Found at i:23676186 original size:47 final size:47
Alignment explanation
Indices: 23676117--23676373 Score: 349
Period size: 47 Copynumber: 5.5 Consensus size: 47
23676107 GTGTTATAAA
23676117 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
*
23676164 TTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
* *
23676211 TTTAATGTATAGTGCTGTCCAATTTTGAGTATATTGATGCTGTCCGT
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
* * * *
23676258 TTTAATGTATAATGTTGTCCAATTTTGAGTATATTTAAT-CTGTCTAA
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATA-TTGATGCTGTCCAT
* * * *
23676305 TTTGATGTATAATGCTGTCC-ATTTAGAGCATATT-ATTGCTGTCCAA
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGA-TGCTGTCCAT
* *
23676351 TTTGATGAATAATTGCTGTCCAA
1 TTTAATGTATAA-TGCTGTCCAA
23676374 AACAGGGTTG
Statistics
Matches: 189, Mismatches: 16, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 28 0.15
47 152 0.80
48 5 0.03
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.44
Consensus pattern (47 bp):
TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
Found at i:23676369 original size:23 final size:23
Alignment explanation
Indices: 23676297--23676373 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
23676287 TATATTTAAT
* *
23676297 CTGTCTAATTTGATGTATAA-TG
1 CTGTCCAATTTGATGAATAATTG
*
23676319 CTGTCC-ATTTAGA-GCATATTATTG
1 CTGTCCAATTT-GATG-A-ATAATTG
23676343 CTGTCCAATTTGATGAATAATTG
1 CTGTCCAATTTGATGAATAATTG
23676366 CTGTCCAA
1 CTGTCCAA
23676374 AACAGGGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
21 5 0.11
22 7 0.16
23 17 0.38
24 11 0.24
25 5 0.11
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (23 bp):
CTGTCCAATTTGATGAATAATTG
Found at i:23679815 original size:43 final size:43
Alignment explanation
Indices: 23679754--23679839 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
23679744 AAAAGAACTA
23679754 TCCGACGCACGATCTAGAATTGGCCGCTATTGTGTTTGCGTTG
1 TCCGACGCACGATCTAGAATTGGCCGCTATTGTGTTTGCGTTG
23679797 TCCGACGCACGATCTAGAATTGGCCGCTATTGTGTTTGCGTTG
1 TCCGACGCACGATCTAGAATTGGCCGCTATTGTGTTTGCGTTG
23679840 AAAATATGGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (43 bp):
TCCGACGCACGATCTAGAATTGGCCGCTATTGTGTTTGCGTTG
Found at i:23683675 original size:22 final size:22
Alignment explanation
Indices: 23683644--23683817 Score: 147
Period size: 22 Copynumber: 7.5 Consensus size: 22
23683634 GTGTTATAAA
**
23683644 TTTAATGTATAATGCAATCCAAT
1 TTTAA-GTATAATGCTGTCCAAT
*
23683667 TTTGAGTATATTGATGCTGTCC-AT
1 TTTAAGTATA---ATGCTGTCCAAT
23683691 TTTAATGTATAATGCTGTCCAAT
1 TTTAA-GTATAATGCTGTCCAAT
23683714 TTTAAGTATATTGATGCTGTCC-AT
1 TTTAAGTATA---ATGCTGTCCAAT
23683738 TTTAATGTATAATGCTGTCCAAT
1 TTTAA-GTATAATGCTGTCCAAT
*
23683761 TTTGAGTATATTAATGCTGTCC-AT
1 TTTAAG--TA-TAATGCTGTCCAAT
**
23683785 TTTAATGTATAATGCTACCCAAT
1 TTTAA-GTATAATGCTGTCCAAT
*
23683808 TTTGAGTATA
1 TTTAAGTATA
23683818 TTTAAGCTGT
Statistics
Matches: 127, Mismatches: 9, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
22 43 0.34
23 25 0.20
24 21 0.17
25 38 0.30
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (22 bp):
TTTAAGTATAATGCTGTCCAAT
Found at i:23683689 original size:25 final size:24
Alignment explanation
Indices: 23683661--23683880 Score: 169
Period size: 25 Copynumber: 9.3 Consensus size: 24
23683651 TATAATGCAA
23683661 TCCAATTTTGAGTATATTGATGCTG
1 TCCAATTTTGAGTATATT-ATGCTG
*
23683686 TCC-ATTTTAATGTATA--ATGCTG
1 TCCAATTTTGA-GTATATTATGCTG
*
23683708 TCCAATTTTAAGTATATTGATGCTG
1 TCCAATTTTGAGTATATT-ATGCTG
*
23683733 TCC-ATTTTAATGTATA--ATGCTG
1 TCCAATTTTGA-GTATATTATGCTG
23683755 TCCAATTTTGAGTATATTAATGCTG
1 TCCAATTTTGAGTATATT-ATGCTG
* *
23683780 TCC-ATTTTAATGTATA--ATGCTA
1 TCCAATTTTGA-GTATATTATGCTG
* *
23683802 CCCAATTTTGAGTATATTTAAGCTG
1 TCCAATTTTGAGTATA-TTATGCTG
* *
23683827 TCTAA-TTCGATGTATA--ATGCTG
1 TCCAATTTTGA-GTATATTATGCTG
* *
23683849 TCC-ATTTAGAGCATATTATTGCTG
1 TCCAATTTTGAGTATATTA-TGCTG
23683873 TCCAATTT
1 TCCAATTT
23683881 GATGAATAAT
Statistics
Matches: 159, Mismatches: 15, Indels: 42
0.74 0.07 0.19
Matches are distributed among these distances:
21 5 0.03
22 51 0.32
23 20 0.13
24 31 0.19
25 52 0.33
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (24 bp):
TCCAATTTTGAGTATATTATGCTG
Found at i:23683713 original size:47 final size:47
Alignment explanation
Indices: 23683644--23683900 Score: 329
Period size: 47 Copynumber: 5.5 Consensus size: 47
23683634 GTGTTATAAA
**
23683644 TTTAATGTATAATGCAATCCAATTTTGAGTATATTGATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
*
23683691 TTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
*
23683738 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTAATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
** * * * *
23683785 TTTAATGTATAATGCTACCCAATTTTGAGTATATTTAAGCTGTCTAA
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
** * * *
23683832 TTCGATGTATAATGCTGTCC-ATTTAGAGCATATT-ATTGCTGTCCAA
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGA-TGCTGTCCAT
* *
23683878 TTTGATGAATAATTGCTGTCCAA
1 TTTAATGTATAA-TGCTGTCCAA
23683901 AACAGGATTG
Statistics
Matches: 186, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 30 0.16
47 154 0.83
48 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (47 bp):
TTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAT
Found at i:23689077 original size:21 final size:21
Alignment explanation
Indices: 23689053--23689117 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
23689043 TTTTTTGGTC
23689053 AAATTTTATATTTTTGTATAT
1 AAATTTTATATTTTTGTATAT
* *
23689074 AAATTTTATACTTTGGTATAT
1 AAATTTTATATTTTTGTATAT
23689095 AAATTTTATATATTTTCGTATAT
1 AAATTTTATAT-TTTT-GTATAT
23689118 TAGTTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 29 0.76
22 3 0.08
23 6 0.16
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (21 bp):
AAATTTTATATTTTTGTATAT
Found at i:23697655 original size:20 final size:20
Alignment explanation
Indices: 23697614--23697658 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
23697604 TTATGATATT
*
23697614 TTTTTAAAATTTTTTGAATA
1 TTTTTAAAATTTTTTAAATA
*
23697634 TTTTTATAA-TTTTTAAATTA
1 TTTTTAAAATTTTTTAAA-TA
23697654 TTTTT
1 TTTTT
23697659 TGACATGGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTAAAATTTTTTAAATA
Found at i:23702174 original size:25 final size:24
Alignment explanation
Indices: 23702119--23702174 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
23702109 ATATTTATGA
* *
23702119 TTTTTAAACATTAAATATAATCTC
1 TTTTTTAACATAAAATATAATCTC
* *
23702143 TTATTTTAACATAAAATTATGATTTC
1 TT-TTTTAACATAAAA-TATAATCTC
23702169 TTTTTT
1 TTTTTT
23702175 TCTTTTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 15 0.58
26 9 0.35
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTTTAACATAAAATATAATCTC
Found at i:23704370 original size:221 final size:222
Alignment explanation
Indices: 23703977--23704419 Score: 870
Period size: 221 Copynumber: 2.0 Consensus size: 222
23703967 TCCTCATTCA
23703977 AATTATATTAACTTTTTTTAAAAATTCGAATATAGTACTAATAAAAATAATCTAACCATTATTAA
1 AATTATATTAACTTTTTTTAAAAATTCGAATATAGTACTAATAAAAATAATCTAACCATTATTAA
23704042 AACTTTTTTATAAACTATTAAAAAATTATATATTGTAAAGTAAATTATAAATTATTAAATTTTAT
66 AACTTTTTTATAAACTATTAAAAAATTATATATTGTAAAGTAAATTATAAATTATTAAATTTTAT
23704107 TTTATTTATGGTTCGAACAACACTTGGTACAACAAGTTAGGACAACATTTGAAACAATAAAATGC
131 TTTATTTATGGTTCGAACAACACTTGGTACAACAAGTTAGGACAACATTTGAAACAATAAAATGC
23704172 AATGAGTTTATTGTCATGTTTTACTTG
196 AATGAGTTTATTGTCATGTTTTACTTG
*
23704199 AATTATATT-ACTTTTTTTAAAAATTCGAATATAGTACTAATAAAAATATTCTAACCATTATTAA
1 AATTATATTAACTTTTTTTAAAAATTCGAATATAGTACTAATAAAAATAATCTAACCATTATTAA
23704263 AACTTTTTTATAAACTATTAAAAAATTATATATTGTAAAGTAAATTATAAATTATTAAATTTTAT
66 AACTTTTTTATAAACTATTAAAAAATTATATATTGTAAAGTAAATTATAAATTATTAAATTTTAT
23704328 TTTATTTATGGTTCGAACAACACTTGGTACAACAAGTTAGGACAACATTTGAAACAATAAAATGC
131 TTTATTTATGGTTCGAACAACACTTGGTACAACAAGTTAGGACAACATTTGAAACAATAAAATGC
23704393 AATGAGTTTATTGTCATGTTTTACTTG
196 AATGAGTTTATTGTCATGTTTTACTTG
23704420 GTTAATTTTT
Statistics
Matches: 220, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
221 211 0.96
222 9 0.04
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (222 bp):
AATTATATTAACTTTTTTTAAAAATTCGAATATAGTACTAATAAAAATAATCTAACCATTATTAA
AACTTTTTTATAAACTATTAAAAAATTATATATTGTAAAGTAAATTATAAATTATTAAATTTTAT
TTTATTTATGGTTCGAACAACACTTGGTACAACAAGTTAGGACAACATTTGAAACAATAAAATGC
AATGAGTTTATTGTCATGTTTTACTTG
Found at i:23714786 original size:22 final size:22
Alignment explanation
Indices: 23714755--23714805 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
23714745 TTTATCTACT
23714755 AATTAATGAGATGATATTAATGA
1 AATT-ATGAGATGATATTAATGA
23714778 AATTATGAGATGATATTAATGA
1 AATTATGAGATGATATTAATGA
23714800 AATTAT
1 AATTAT
23714806 AAACAGATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (22 bp):
AATTATGAGATGATATTAATGA
Found at i:23719012 original size:2 final size:2
Alignment explanation
Indices: 23719005--23719032 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23718995 AAATTTTGAA
23719005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23719033 TGAATTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23724772 original size:30 final size:30
Alignment explanation
Indices: 23724736--23724796 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
23724726 CTGCCCAGTG
23724736 TTAGTGGACACATCCGGTAAAAGGAAAGGA
1 TTAGTGGACACATCCGGTAAAAGGAAAGGA
*
23724766 TTAGTGGATACATCCGGTAAAAGGAAAGGA
1 TTAGTGGACACATCCGGTAAAAGGAAAGGA
23724796 T
1 T
23724797 CCCAAGTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.20
Consensus pattern (30 bp):
TTAGTGGACACATCCGGTAAAAGGAAAGGA
Found at i:23741473 original size:3 final size:3
Alignment explanation
Indices: 23741467--23741495 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23741457 ATAAATTATT
23741467 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
23741496 ATTAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:23742584 original size:23 final size:24
Alignment explanation
Indices: 23742554--23742621 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
23742544 CTTGATTGTT
* *
23742554 AGAATATGTCACACAGGCTTT-CC
1 AGAATATGCCACAAAGGCTTTACC
*
23742577 AGAATATGCCACATAGGCTTTACC
1 AGAATATGCCACAAAGGCTTTACC
*
23742601 -GAATACGCCACAAAGGCTTTA
1 AGAATATGCCACAAAGGCTTTA
23742622 TAGGACATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 38 0.95
24 2 0.05
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (24 bp):
AGAATATGCCACAAAGGCTTTACC
Found at i:23746623 original size:14 final size:15
Alignment explanation
Indices: 23746604--23746633 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
23746594 ATCGTTATCG
23746604 AGTTTAAAA-CTTTC
1 AGTTTAAAATCTTTC
23746618 AGTTTAAAATCTTTC
1 AGTTTAAAATCTTTC
23746633 A
1 A
23746634 TTTGGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (15 bp):
AGTTTAAAATCTTTC
Found at i:23748112 original size:20 final size:19
Alignment explanation
Indices: 23748074--23748118 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
23748064 GGTTTGACCA
* *
23748074 AGTTTAGGGTCTTGGTCCC
1 AGTTTTGGGTCTAGGTCCC
23748093 AGTTTTGGGCTCTAGGTCCC
1 AGTTTTGGG-TCTAGGTCCC
*
23748113 AATTTT
1 AGTTTT
23748119 CGATCTCAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (19 bp):
AGTTTTGGGTCTAGGTCCC
Found at i:23752027 original size:27 final size:27
Alignment explanation
Indices: 23751996--23752052 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
23751986 ATCCATTCAC
23751996 TCAATACAATTTTATTTTATCTCAATG
1 TCAATACAATTTTATTTTATCTCAATG
23752023 TCAATACAATTTTATTTTATCTCAATG
1 TCAATACAATTTTATTTTATCTCAATG
23752050 TCA
1 TCA
23752053 CCATTGTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (27 bp):
TCAATACAATTTTATTTTATCTCAATG
Found at i:23752841 original size:27 final size:27
Alignment explanation
Indices: 23752787--23752842 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
23752777 CTTTCAATCG
* *
23752787 TTCAAATAAATAGAAAATAGTTATAAA
1 TTCAAATAAATAGAAAATAGCTAAAAA
*
23752814 TTCAAATAAATATAAAATA-CTACAAAA
1 TTCAAATAAATAGAAAATAGCTA-AAAA
23752841 TT
1 TT
23752843 TCCCAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (27 bp):
TTCAAATAAATAGAAAATAGCTAAAAA
Found at i:23758214 original size:22 final size:22
Alignment explanation
Indices: 23758186--23758228 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23758176 CTTATATATA
23758186 GATATTG-TAAACCTTTTGTTTG
1 GATATTGTTAAA-CTTTTGTTTG
*
23758208 GATATTGTTGAACTTTTGTTT
1 GATATTGTTAAACTTTTGTTT
23758229 AAAAGCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.21, C:0.07, G:0.19, T:0.53
Consensus pattern (22 bp):
GATATTGTTAAACTTTTGTTTG
Found at i:23779201 original size:1 final size:1
Alignment explanation
Indices: 23779195--23779220 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
23779185 CAATATATGG
23779195 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
23779221 GCGGTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:23787390 original size:85 final size:83
Alignment explanation
Indices: 23787295--23787462 Score: 300
Period size: 85 Copynumber: 2.0 Consensus size: 83
23787285 ACTAATATCG
23787295 AATTCGAATGATATAAGAGGAGTTTAGAGTACATCTATTTATAGCTTAAAAAAAACCTTATTCTA
1 AATTCGAATGATATAAGAGGAGTTTAGAGTACATCTATTTATAGCTT--AAAAAACCTTATTCTA
23787360 ATCAATGTCAAATAGATGAA
64 ATCAATGTCAAATAGATGAA
* *
23787380 AATTCGAATGATATAAGAGGAGTTTAGAGTACATCTATTTATAGCTTAAATAATCTTATTCTAAT
1 AATTCGAATGATATAAGAGGAGTTTAGAGTACATCTATTTATAGCTTAAAAAACCTTATTCTAAT
23787445 CAATGTCAAATAGATGAA
66 CAATGTCAAATAGATGAA
23787463 GTGTAGTAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
83 34 0.42
85 47 0.58
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (83 bp):
AATTCGAATGATATAAGAGGAGTTTAGAGTACATCTATTTATAGCTTAAAAAACCTTATTCTAAT
CAATGTCAAATAGATGAA
Found at i:23790555 original size:25 final size:24
Alignment explanation
Indices: 23790501--23790548 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
23790491 TTTACCATAG
* *
23790501 TTTAATATTAAATATTAGATTAAA
1 TTTAATATTAAATATTAAAATAAA
23790525 TTTAATATTAAACTATTAAAATAA
1 TTTAATATTAAA-TATTAAAATAA
23790549 TATTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTAATATTAAATATTAAAATAAA
Found at i:23791984 original size:77 final size:77
Alignment explanation
Indices: 23791891--23792045 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
23791881 CTTCTCAGTA
23791891 TTTGAATCAAATTCTCACTTTGATTCTTTTACGGGATTACGAATTTATTTAGATTATCTACTGAA
1 TTTGAATCAAATTCTCACTTTGATTCTTTTACGGGATTACGAATTTATTTAGATTATCTACTGAA
23791956 GTAAGTTGTCTT
66 GTAAGTTGTCTT
23791968 TTTGAATCAAATTCTCACTTTGATTCTTTTACGGGATTACGAATTTATTTAGATTATCTACTGAA
1 TTTGAATCAAATTCTCACTTTGATTCTTTTACGGGATTACGAATTTATTTAGATTATCTACTGAA
23792033 GTAAGTTGTCTT
66 GTAAGTTGTCTT
23792045 T
1 T
23792046 CTCGCAATGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (77 bp):
TTTGAATCAAATTCTCACTTTGATTCTTTTACGGGATTACGAATTTATTTAGATTATCTACTGAA
GTAAGTTGTCTT
Found at i:23793467 original size:23 final size:23
Alignment explanation
Indices: 23793441--23793495 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
23793431 GTCAATGTCG
23793441 AAGGCATCTCATCTAACCTTAGC
1 AAGGCATCTCATCTAACCTTAGC
23793464 AAGGCATCTCATCTAACCTTAGC
1 AAGGCATCTCATCTAACCTTAGC
23793487 AAGGCATCT
1 AAGGCATCT
23793496 TTCAAATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (23 bp):
AAGGCATCTCATCTAACCTTAGC
Found at i:23794818 original size:21 final size:22
Alignment explanation
Indices: 23794794--23794840 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
23794784 GGTTCGCATT
* *
23794794 ACATATAGGCTT-GCATATGAC
1 ACATATAAGCTTCACATATGAC
*
23794815 ACATATAAGCTTCACATATTAC
1 ACATATAAGCTTCACATATGAC
23794837 ACAT
1 ACAT
23794841 GTTATAGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (22 bp):
ACATATAAGCTTCACATATGAC
Found at i:23795120 original size:38 final size:38
Alignment explanation
Indices: 23795065--23795142 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
23795055 TTCACATGTA
* **
23795065 ATATTTTGACTCACATGTAATAATTACAGGTGACTCGC
1 ATATATTGACTCACATGTAATAACAACAGGTGACTCGC
*
23795103 ATATATTGACTCTCATGTAATAACAACAGGTGACTCGC
1 ATATATTGACTCACATGTAATAACAACAGGTGACTCGC
23795141 AT
1 AT
23795143 GGCATAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (38 bp):
ATATATTGACTCACATGTAATAACAACAGGTGACTCGC
Found at i:23795143 original size:24 final size:24
Alignment explanation
Indices: 23795109--23795174 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
23795099 TCGCATATAT
* * *
23795109 TGACTCTCATGTAATAACAACAGG
1 TGACTCACATGGAATAACAACAAG
* *
23795133 TGACTCGCATGGCATAACAACAAG
1 TGACTCACATGGAATAACAACAAG
*
23795157 TGACTCACATGGTATAAC
1 TGACTCACATGGAATAAC
23795175 CTAGGGTTCG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (24 bp):
TGACTCACATGGAATAACAACAAG
Found at i:23795352 original size:53 final size:53
Alignment explanation
Indices: 23795295--23795396 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 53
23795285 GCACACATGT
*
23795295 TCACACACAT-GCTCACACACGGGCTCGCACCTATAGGGGGTTCGCACATAGGC
1 TCACACAC-TGGCTCACACACGGACTCGCACCTATAGGGGGTTCGCACATAGGC
* *
23795348 TCACACACTGGCTCGCACACGGACTCGCACCTATAGGGGGTTTGCACAT
1 TCACACACTGGCTCACACACGGACTCGCACCTATAGGGGGTTCGCACAT
23795397 GCTAGTTCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.02
53 44 0.98
ACGTcount: A:0.24, C:0.33, G:0.25, T:0.19
Consensus pattern (53 bp):
TCACACACTGGCTCACACACGGACTCGCACCTATAGGGGGTTCGCACATAGGC
Found at i:23813456 original size:31 final size:31
Alignment explanation
Indices: 23813429--23813489 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
23813419 TAATTTATAT
23813429 TTTATGTATCATTATATTAAATTATTTAAAC
1 TTTATGTATCATTATATTAAATTATTTAAAC
* * * *
23813460 TTTATTTATTATTATATTTAATTTTTTAAA
1 TTTATGTATCATTATATTAAATTATTTAAA
23813490 ATATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTATGTATCATTATATTAAATTATTTAAAC
Found at i:23838644 original size:43 final size:43
Alignment explanation
Indices: 23838597--23838742 Score: 172
Period size: 43 Copynumber: 3.4 Consensus size: 43
23838587 ATTTTTGGTC
23838597 AAAGCGCCGCTAAAGATAAGGGTTTTTAGCGGCGTTTGTGGGG
1 AAAGCGCCGCTAAAGATAAGGGTTTTTAGCGGCGTTTGTGGGG
* * **
23838640 AAAGCGCCGCTAAAGATTA-GGTTCTTTAGTGGCGTTTTGTTGTCG
1 AAAGCGCCGCTAAAGATAAGGGTT-TTTAGCGGCG-TTTG-TGGGG
* * * *
23838685 -AAGCGCCGCTATAGATCAGGGTTATT-GCGGCGTTTGAGGGG
1 AAAGCGCCGCTAAAGATAAGGGTTTTTAGCGGCGTTTGTGGGG
23838726 AAAGCGCCGCTAAAGAT
1 AAAGCGCCGCTAAAGAT
23838743 TAGGTTCTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.02
42 23 0.27
43 32 0.37
44 22 0.26
45 7 0.08
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATAAGGGTTTTTAGCGGCGTTTGTGGGG
Found at i:23839068 original size:22 final size:22
Alignment explanation
Indices: 23839040--23839082 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23839030 CTGCGGCGCT
*
23839040 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
23839062 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
23839083 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:23848102 original size:15 final size:15
Alignment explanation
Indices: 23848082--23848111 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23848072 TAATCAAACC
23848082 CTCAAGAATGTCTAA
1 CTCAAGAATGTCTAA
23848097 CTCAAGAATGTCTAA
1 CTCAAGAATGTCTAA
23848112 GGGTACCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
CTCAAGAATGTCTAA
Found at i:23851624 original size:51 final size:51
Alignment explanation
Indices: 23851548--23851737 Score: 283
Period size: 51 Copynumber: 3.7 Consensus size: 51
23851538 TAATCAATGA
* * * **
23851548 CAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATTGGTGACAAGTGG
1 CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGG
*
23851599 CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACATA-TGA
1 CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA-AGTGG
* * *
23851650 CAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAGTGG
1 CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGG
23851701 CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGA
1 CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGA
23851738 GGTGCCCGAG
Statistics
Matches: 124, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
50 1 0.01
51 122 0.98
52 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (51 bp):
CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGG
Found at i:23851714 original size:102 final size:102
Alignment explanation
Indices: 23851544--23851737 Score: 352
Period size: 102 Copynumber: 1.9 Consensus size: 102
23851534 CTTCTAATCA
**
23851544 ATGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATTGGTGACAAGTGGCAAGTGATAA
1 ATGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATAA
23851609 GTGATAGCTTCAGCTACACTTATCTGATCAGTGACAT
66 GTGATAGCTTCAGCTACACTTATCTGATCAGTGACAT
* *
23851646 ATGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAGTGGCAAGTGATAA
1 ATGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATAA
23851711 GTGATAGCTTCAGCTACACTTATCTGA
66 GTGATAGCTTCAGCTACACTTATCTGA
23851738 GGTGCCCGAG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 88 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (102 bp):
ATGACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATAA
GTGATAGCTTCAGCTACACTTATCTGATCAGTGACAT
Found at i:23861980 original size:6 final size:6
Alignment explanation
Indices: 23861969--23861997 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23861959 ATTAAAATTT
23861969 AATAAC AATAAC AATAAC AATAAC AATAA
1 AATAAC AATAAC AATAAC AATAAC AATAA
23861998 TCATCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAC
Found at i:23862564 original size:21 final size:21
Alignment explanation
Indices: 23862538--23862580 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23862528 TGGTTGTTAT
23862538 ACACCTATAACAACACTTGAG
1 ACACCTATAACAACACTTGAG
* *
23862559 ACACCTATAATAACATTTGAG
1 ACACCTATAACAACACTTGAG
23862580 A
1 A
23862581 TTTAGGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.23
Consensus pattern (21 bp):
ACACCTATAACAACACTTGAG
Found at i:23862698 original size:15 final size:15
Alignment explanation
Indices: 23862676--23862719 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
23862666 AATGTAATTC
23862676 TATTAATTAAAAATA
1 TATTAATTAAAAATA
*
23862691 TTTTAATTTAAATAATA
1 TATTAA-TTAAA-AATA
23862708 TATTAATTAAAA
1 TATTAATTAAAA
23862720 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 6 0.24
16 10 0.40
17 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTAATTAAAAATA
Found at i:23862713 original size:17 final size:17
Alignment explanation
Indices: 23862676--23862720 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
23862666 AATGTAATTC
23862676 TATTAA-TTAAA-AATA
1 TATTAATTTAAATAATA
*
23862691 TTTTAATTTAAATAATA
1 TATTAATTTAAATAATA
*
23862708 TATTAATTAAAAT
1 TATTAATTTAAAT
23862721 TTATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.20
16 5 0.20
17 15 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTAATTTAAATAATA
Found at i:23863532 original size:32 final size:32
Alignment explanation
Indices: 23863491--23863555 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
23863481 AAAGATGAAA
*
23863491 AATTAAATAAAAGGTTAAAATGACTTTTTTTT
1 AATTAAATAAAAGGTTAAAATGAATTTTTTTT
23863523 AATTAAATAAAAGGTTAAAATGAATTTTTTTT
1 AATTAAATAAAAGGTTAAAATGAATTTTTTTT
23863555 A
1 A
23863556 TAAAATTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (32 bp):
AATTAAATAAAAGGTTAAAATGAATTTTTTTT
Found at i:23864254 original size:70 final size:71
Alignment explanation
Indices: 23864148--23864296 Score: 282
Period size: 70 Copynumber: 2.1 Consensus size: 71
23864138 TCAGTCTTAA
23864148 TAAAAATTATAAAGATATTCAAAATATTTATAAAAATCTAAAATATCATAATTTTTTTTAAAACT
1 TAAAAA-TATAAAGATATTCAAAATATTTATAAAAATCTAAAATATCATAATTTTTTTTAAAACT
23864213 AAAAAAT
65 AAAAAAT
23864220 TAAAAATATAAAGATA-TCAAAATATTTATAAAAATCTAAAATATCATAATTTTTTTTAAAACTA
1 TAAAAATATAAAGATATTCAAAATATTTATAAAAATCTAAAATATCATAATTTTTTTTAAAACTA
23864284 AAAAAT
66 AAAAAT
23864290 TAAAAAT
1 TAAAAAT
23864297 TCTAAAAAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 61 0.79
71 10 0.13
72 6 0.08
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (71 bp):
TAAAAATATAAAGATATTCAAAATATTTATAAAAATCTAAAATATCATAATTTTTTTTAAAACTA
AAAAAT
Found at i:23864279 original size:28 final size:28
Alignment explanation
Indices: 23864219--23864280 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
23864209 AACTAAAAAA
23864219 TTAAAAATATAAAGATATCAAAATATTT
1 TTAAAAATATAAAGATATCAAAATATTT
* * * *
23864247 ATAAAAATCTAAA-ATATCATAATTTTT
1 TTAAAAATATAAAGATATCAAAATATTT
*
23864274 TTTAAAA
1 TTAAAAA
23864281 CTAAAAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (28 bp):
TTAAAAATATAAAGATATCAAAATATTT
Found at i:23864296 original size:35 final size:35
Alignment explanation
Indices: 23864179--23864294 Score: 114
Period size: 35 Copynumber: 3.3 Consensus size: 35
23864169 AAATATTTAT
23864179 AAAAATCTAAAATATCATAATTTTTTTTAAAACTA
1 AAAAATCTAAAATATCATAATTTTTTTTAAAACTA
*** * ** *
23864214 AAAAAT-TAAAA-AT-ATAAAGATATCAAAATATTTA
1 AAAAATCTAAAATATCATAATTTTTTTTAAA-A-CTA
23864248 TAAAAATCTAAAATATCATAATTTTTTTTAAAACTA
1 -AAAAATCTAAAATATCATAATTTTTTTTAAAACTA
23864284 AAAAAT-TAAAA
1 AAAAATCTAAAA
23864295 ATTCTAAAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
32 9 0.15
33 3 0.05
34 12 0.20
35 18 0.30
36 7 0.11
37 3 0.05
38 9 0.15
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (35 bp):
AAAAATCTAAAATATCATAATTTTTTTTAAAACTA
Found at i:23865581 original size:196 final size:196
Alignment explanation
Indices: 23865247--23865647 Score: 658
Period size: 196 Copynumber: 2.0 Consensus size: 196
23865237 GAAGATACCC
* *
23865247 CACAATTCCGTTAATAATGCAAATTTCACAAAGGATTGAGAAGCCAACATTCTTAGCTCCATGGT
1 CACAATTCCGTTAATAATGCAAATTCCACAAAGGATTGAGAAGCCAACATTCTTAGCTCCATGGC
* *
23865312 AGTCCCAAATAGCTCCACCTGCCCTAACTTTCTCACCTAAAAAGACTCAACTACCATCAACATTC
66 AATCCCAAATAGCTCCACCTGCCCTAACTCTCTCACCTAAAAAGACTCAACTACCATCAACATTC
* * *
23865377 AACTTAAACCAATCATGTGGAGGTTTCTCCCAACTTAACATCACAGTACTCTTTTTCCTTATCAT
131 AACTTAAACCAATCATGTGGAGGTTTCTCCCAACATAACATCACAATACTCTTTTTCCTTAGCAT
23865442 A
196 A
* *
23865443 CACAATTCTGTTAATACTGCAAATTCCACAAAGGATTGAGAAGCCAACATTCTTAGCTCCATGGC
1 CACAATTCCGTTAATAATGCAAATTCCACAAAGGATTGAGAAGCCAACATTCTTAGCTCCATGGC
* * * *
23865508 AATCCCGAATAGCTCCACCTGCCCTAGCTCTCTTACCTAAAAAGACTCAACTACCATTAACATTC
66 AATCCCAAATAGCTCCACCTGCCCTAACTCTCTCACCTAAAAAGACTCAACTACCATCAACATTC
*
23865573 AACTTAAACCAATCATGTGGAGGTTTCTCCCAACATAACATCATAATACTCTTTTTCCTTAGCAT
131 AACTTAAACCAATCATGTGGAGGTTTCTCCCAACATAACATCACAATACTCTTTTTCCTTAGCAT
23865638 A
196 A
*
23865639 GACTAATTC
1 CAC-AATTC
23865648 GTTCAAAATT
Statistics
Matches: 189, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
196 184 0.97
197 5 0.03
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.28
Consensus pattern (196 bp):
CACAATTCCGTTAATAATGCAAATTCCACAAAGGATTGAGAAGCCAACATTCTTAGCTCCATGGC
AATCCCAAATAGCTCCACCTGCCCTAACTCTCTCACCTAAAAAGACTCAACTACCATCAACATTC
AACTTAAACCAATCATGTGGAGGTTTCTCCCAACATAACATCACAATACTCTTTTTCCTTAGCAT
A
Found at i:23868594 original size:24 final size:25
Alignment explanation
Indices: 23868562--23868609 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
23868552 GGATGTTGCA
* *
23868562 AAGAGCTAT-TAACGGTAAGCTCGC
1 AAGAACTATATAACGGGAAGCTCGC
*
23868586 AAGAACTATATAATGGGAAGCTCG
1 AAGAACTATATAACGGGAAGCTCG
23868610 AGTGGGCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (25 bp):
AAGAACTATATAACGGGAAGCTCGC
Found at i:23868690 original size:164 final size:163
Alignment explanation
Indices: 23868485--23868976 Score: 664
Period size: 164 Copynumber: 3.0 Consensus size: 163
23868475 CTCATGAAGA
* * * * * *
23868485 GCCATATAACGGGATGCTTATAAAAGTTACGGTGTGTCTACAACACACGTAGGATCACAACCGAT
1 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCTACAACACATGCAGGATCACAACCGAT
* * * * *
23868550 CGGGATGTTGCAAAGAGCTATTAACGGTAAGCTCGCAAGAACTATATAATGGGAAGCTCGAGTGG
66 CGGGATGTTGC-AAGAGCTATTAACGGTAAGCTCGCAATAACCATATAACGAGAAGCTCGAGAGG
* *
23868615 GCTAAATATCAGGATGCTCATTAGAGATAATAAC
130 GCCAAATATCAGGATGCTCATGAGAGATAATAAC
23868649 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCTACAACACATGCAGGATCACAACCGAT
1 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCTACAACACATGCAGGATCACAACCGAT
*
23868714 CGGGATGCTTTG-AATAGCTATTAACGGTAAGCTCGCAATAACCATATAAC-ATGAAGCTCGAGA
66 CGGGATG--TTGCAAGAGCTATTAACGGTAAGCTCGCAATAACCATATAACGA-GAAGCTCGAGA
**
23868777 ATGCCAAATATCAGGATGCTCATGAGAGATAATAAC
128 GGGCCAAATATCAGGATGCTCATGAGAGATAATAAC
* ** * * *
23868813 GTCATATAACGAGATGCTCATAAGAGCTGTGGTGTGTCCACAACACATGCAGAATCACAACCAAT
1 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCTACAACACATGCAGGATCACAACCGAT
* * * * *
23868878 CGGGATGCTCCGAAGAGCTATTAACGGTAAGCTTGCAATAACCATATAACGAGAAGTTCAAGAGG
66 CGGGATGTTGC-AAGAGCTATTAACGGTAAGCTCGCAATAACCATATAACGAGAAGCTCGAGAGG
**
23868943 GCCAAATATCAATATGCTCATGAGAGATAATAAC
130 GCCAAATATCAGGATGCTCATGAGAGATAATAAC
23868977 AGGATGCTCT
Statistics
Matches: 290, Mismatches: 32, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
162 1 0.00
164 285 0.98
165 1 0.00
166 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (163 bp):
GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCTACAACACATGCAGGATCACAACCGAT
CGGGATGTTGCAAGAGCTATTAACGGTAAGCTCGCAATAACCATATAACGAGAAGCTCGAGAGGG
CCAAATATCAGGATGCTCATGAGAGATAATAAC
Found at i:23869325 original size:21 final size:21
Alignment explanation
Indices: 23869301--23869342 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23869291 TAAATTTAAA
*
23869301 TCAATTTAATACAATTCACAT
1 TCAACTTAATACAATTCACAT
* *
23869322 TCAACTTATTCCAATTCACAT
1 TCAACTTAATACAATTCACAT
23869343 CTTAGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAACTTAATACAATTCACAT
Found at i:23871628 original size:54 final size:54
Alignment explanation
Indices: 23871562--23871667 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
23871552 CCATGTGACC
* * * *
23871562 CAAGTCAGTGAGTTACACAGGTAGAGACACGATCTGGGACACGA-CTGTGTGTTT
1 CAAGTCAATGAGTTACACAGGCAAAGACACGAGCTGGGACACGATC-GTGTGTTT
* *
23871616 CAAGTCAATGAGTTACACGGGCAAAGACACGGGCTGGGACACGATCGTGTGT
1 CAAGTCAATGAGTTACACAGGCAAAGACACGAGCTGGGACACGATCGTGTGT
23871668 CCCAACTTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (54 bp):
CAAGTCAATGAGTTACACAGGCAAAGACACGAGCTGGGACACGATCGTGTGTTT
Found at i:23874360 original size:81 final size:82
Alignment explanation
Indices: 23874225--23874386 Score: 290
Period size: 81 Copynumber: 2.0 Consensus size: 82
23874215 ATCAGGATGT
* *
23874225 TACAAATTTACCTTAAACTTTTAGAATTATTTCAAATTATCCCCTATTTTTTCTTAGA-ATTTTT
1 TACAAATTTACCCTAAACTTTTAGAATTATTTCAAATTAGCCCCTATTTTTTCTTAGACATTTTT
23874289 AGCCCCTATTTTTCTTA
66 AGCCCCTATTTTTCTTA
*
23874306 TACAAATTTACCCTAAACTTTTAGAATTATTTCAAATTAGCCCCTATTTTTTCTTAGACTTTTTT
1 TACAAATTTACCCTAAACTTTTAGAATTATTTCAAATTAGCCCCTATTTTTTCTTAGACATTTTT
23874371 AGCCCCTATTTTTCTT
66 AGCCCCTATTTTTCTT
23874387 GTACTTTTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 56 0.73
82 21 0.27
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (82 bp):
TACAAATTTACCCTAAACTTTTAGAATTATTTCAAATTAGCCCCTATTTTTTCTTAGACATTTTT
AGCCCCTATTTTTCTTA
Found at i:23874399 original size:27 final size:27
Alignment explanation
Indices: 23874342--23874396 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
23874332 TTATTTCAAA
23874342 TTAGCCCCTATTTTTTCTTAGACTTTT
1 TTAGCCCCTATTTTTTCTTAGACTTTT
23874369 TTAGCCCCTA-TTTTTCTT-GTACTTTT
1 TTAGCCCCTATTTTTTCTTAG-ACTTTT
23874395 TT
1 TT
23874397 TAGGGTCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.59
27 10 0.37
ACGTcount: A:0.13, C:0.22, G:0.07, T:0.58
Consensus pattern (27 bp):
TTAGCCCCTATTTTTTCTTAGACTTTT
Found at i:23876089 original size:2 final size:2
Alignment explanation
Indices: 23876084--23876108 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23876074 AAGCAAAAAA
23876084 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
23876109 AAAAGCTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23878807 original size:21 final size:21
Alignment explanation
Indices: 23878778--23878861 Score: 123
Period size: 21 Copynumber: 4.0 Consensus size: 21
23878768 CGAACATGCC
* *
23878778 AACAAAAGCTCATAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
23878799 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
* * *
23878820 AATAGAAGCTCATAAGAGCTT
1 AACAGAAGCTCAAAAGAGCTG
23878841 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
23878862 GTCCACCCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTG
Found at i:23881128 original size:13 final size:13
Alignment explanation
Indices: 23881110--23881137 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23881100 GGTAGAGAGT
23881110 ATGGTGATTTTAA
1 ATGGTGATTTTAA
23881123 ATGGTGATTTTAA
1 ATGGTGATTTTAA
23881136 AT
1 AT
23881138 AAATAGAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (13 bp):
ATGGTGATTTTAA
Found at i:23883608 original size:9 final size:9
Alignment explanation
Indices: 23883596--23883625 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
23883586 GAATTAAATA
23883596 ATTTAAGTT
1 ATTTAAGTT
23883605 ATTTAAGTT
1 ATTTAAGTT
*
23883614 AATTAAGTT
1 ATTTAAGTT
23883623 ATT
1 ATT
23883626 CAGATAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (9 bp):
ATTTAAGTT
Found at i:23888577 original size:16 final size:18
Alignment explanation
Indices: 23888551--23888591 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23888541 TGTGCATTGG
23888551 AATTTTT-TTACTT-TTT
1 AATTTTTATTACTTATTT
23888567 -ATTTTTATTACTTATTT
1 AATTTTTATTACTTATTT
23888584 AATTTTTA
1 AATTTTTA
23888592 GTTTTTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.27
16 6 0.27
17 3 0.14
18 7 0.32
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
AATTTTTATTACTTATTT
Found at i:23893770 original size:34 final size:35
Alignment explanation
Indices: 23893726--23893793 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
23893716 GCACAGTTGA
* **
23893726 ACAGTCTTGGG-CTTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTT-AGCCCATCACAGTATCAGTG
23893761 ACAGT-TTGGGCCTTAGCCCATCACAGTATCAGT
1 ACAGTCTTGGGCCTTAGCCCATCACAGTATCAGT
23893794 AGCAGTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 21 0.72
35 8 0.28
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (35 bp):
ACAGTCTTGGGCCTTAGCCCATCACAGTATCAGTG
Found at i:23903563 original size:26 final size:26
Alignment explanation
Indices: 23903527--23903588 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
23903517 CCTGTAAGTG
23903527 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* *
23903553 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
23903579 TTCTGAAACT
1 TTCTGAAACT
23903589 ACTGTAGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:23912111 original size:42 final size:42
Alignment explanation
Indices: 23911986--23912117 Score: 201
Period size: 42 Copynumber: 3.1 Consensus size: 42
23911976 CGACATGGTA
* *
23911986 ATGTGACCCACACAGCCTAGACACACGGATGTGTCCTTGGCA
1 ATGTGACCCACACAGCCTAGACACACGGGTGTGTCCTTGGCC
*
23912028 ATGTGACCCACACAGCCTAGACACACTGGTGTGTCCTTGGCC
1 ATGTGACCCACACAGCCTAGACACACGGGTGTGTCCTTGGCC
* * *
23912070 ATGTGACCCATACGGCCTACACACACGGGTGTGTCCTTGGCC
1 ATGTGACCCACACAGCCTAGACACACGGGTGTGTCCTTGGCC
*
23912112 GTGTGA
1 ATGTGA
23912118 GTTTTGGACT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.22, C:0.31, G:0.26, T:0.21
Consensus pattern (42 bp):
ATGTGACCCACACAGCCTAGACACACGGGTGTGTCCTTGGCC
Found at i:23914088 original size:9 final size:9
Alignment explanation
Indices: 23914074--23914129 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
23914064 TGCCATCGAG
23914074 CAAACAAAA
1 CAAACAAAA
23914083 CAAACAAAA
1 CAAACAAAA
*
23914092 CAAACGAAA
1 CAAACAAAA
* *
23914101 TAACCCAAAA
1 CAA-ACAAAA
23914111 -AAACAAAAA
1 CAAAC-AAAA
23914120 CAAACTAAAA
1 CAAAC-AAAA
23914130 ACAAGAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 1 0.03
9 25 0.66
10 12 0.32
ACGTcount: A:0.73, C:0.21, G:0.02, T:0.04
Consensus pattern (9 bp):
CAAACAAAA
Found at i:23919069 original size:29 final size:28
Alignment explanation
Indices: 23919016--23919071 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
23919006 CAACACCCAT
23919016 TTTACTATTTTTTTATTAAAATTTAATC
1 TTTACTATTTTTTTATTAAAATTTAATC
*
23919044 TTTA-TATTTTTATTTTTCAAAATTTAAT
1 TTTACTATTTTT-TTATT-AAAATTTAAT
23919072 TCCTCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 7 0.28
28 8 0.32
29 10 0.40
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTACTATTTTTTTATTAAAATTTAATC
Found at i:23935767 original size:12 final size:11
Alignment explanation
Indices: 23935705--23935763 Score: 79
Period size: 11 Copynumber: 5.5 Consensus size: 11
23935695 GGCCCATTTT
23935705 TATTTT-AAAA
1 TATTTTAAAAA
23935715 -ATTTTAAAAA
1 TATTTTAAAAA
23935725 -ATTTTAAAAAA
1 TATTTT-AAAAA
23935736 TATTTTAAAAA
1 TATTTTAAAAA
*
23935747 TATTTTAAAAT
1 TATTTTAAAAA
23935758 TATTTT
1 TATTTT
23935764 TAAATGCCGG
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
9 5 0.11
10 9 0.20
11 26 0.58
12 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:23942180 original size:16 final size:16
Alignment explanation
Indices: 23942156--23942186 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23942146 GTGATTAAAT
23942156 TGACAAAAAAATAGAG
1 TGACAAAAAAATAGAG
*
23942172 TGACCAAAAAATAGA
1 TGACAAAAAAATAGA
23942187 TTTTGTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.16, T:0.13
Consensus pattern (16 bp):
TGACAAAAAAATAGAG
Found at i:23943564 original size:23 final size:23
Alignment explanation
Indices: 23943498--23943971 Score: 441
Period size: 23 Copynumber: 20.2 Consensus size: 23
23943488 TCTACCATGT
23943498 TTGGACAGC-TCTTATACATCAAAA
1 TTGGACAGCAT-TTATACA-CAAAA
*
23943522 TT-GAGCAGCATATATATATATACAAAA
1 TTGGA-CAGC--AT-T-TATACACAAAA
23943549 TTGGACAGCATTTATACACCAAAA
1 TTGGACAGCATTTATACA-CAAAA
* * *
23943573 TTTGACAGCATATATATACAAAA
1 TTGGACAGCATTTATACACAAAA
*
23943596 TTGGACAGCATTTATACCCTAAAA
1 TTGGACAGCATTTATACAC-AAAA
* * * * *
23943620 TTGGGCAGCATATATATACCAAT
1 TTGGACAGCATTTATACACAAAA
* *
23943643 TTGGACAACACTTATACACAAAA
1 TTGGACAGCATTTATACACAAAA
* * *
23943666 TTTGACAGCATGTATATACAAAA
1 TTGGACAGCATTTATACACAAAA
*
23943689 TTGGACAGCACTTATACACAAAA
1 TTGGACAGCATTTATACACAAAA
*
23943712 TTGGACAGCACTTATACACAAAA
1 TTGGACAGCATTTATACACAAAA
* * *
23943735 TTTGACAGCATGTATATACAAAA
1 TTGGACAGCATTTATACACAAAA
*
23943758 TTTGACAGCATTTATACACTAAAA
1 TTGGACAGCATTTATACAC-AAAA
* * * * * *
23943782 TTGGGCAGCGTATATATACCAAT
1 TTGGACAGCATTTATACACAAAA
*
23943805 TTGGACAGCACTTATACACAAAA
1 TTGGACAGCATTTATACACAAAA
* * *
23943828 TTTGACAGCATGTATATACAAAA
1 TTGGACAGCATTTATACACAAAA
23943851 TTGGACAGCATTTATACACTAAAA
1 TTGGACAGCATTTATACAC-AAAA
* * * *
23943875 TTGGGA-AGCATATATATACCAAT
1 TT-GGACAGCATTTATACACAAAA
*
23943898 TTGGACAGCACTTATACACAAAA
1 TTGGACAGCATTTATACACAAAA
** * * *
23943921 TTTAACAGTATATATATACAAAA
1 TTGGACAGCATTTATACACAAAA
23943944 TTGGACAGCATTTATACACCAAAA
1 TTGGACAGCATTTATACA-CAAAA
23943968 TTGG
1 TTGG
23943972 GTAGCATATA
Statistics
Matches: 358, Mismatches: 79, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
22 3 0.01
23 240 0.67
24 90 0.25
25 5 0.01
27 13 0.04
28 7 0.02
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (23 bp):
TTGGACAGCATTTATACACAAAA
Found at i:23943812 original size:93 final size:92
Alignment explanation
Indices: 23943538--23943982 Score: 506
Period size: 93 Copynumber: 4.8 Consensus size: 92
23943528 AGCATATATA
* * * * * * *
23943538 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGGACA
1 TATACACAAAATTTGACAGCATGTATATA-CAAAATTTGACAGCATTTATACACAAAATTGGGCA
*
23943603 GCAT-T-TATACCCTAAAATTGGGCAGCA-T
65 GCATATATATA-CC--AAATTGGACAGCACT
* * * * * * *
23943631 ATATATAC-CAATTTGGACAACACT-TATACACAAAATTTGACAGCATGTATATACAAAATTGGA
1 -TATACACAAAATTT-GACAGCA-TGTATATACAAAATTTGACAGCATTTATACACAAAATTGGG
* *
23943694 CAGCACT-TATACACAAAATTGGACAGCACT
63 CAGCA-TATATATACCAAATTGGACAGCACT
23943724 TATACACAAAATTTGACAGCATGTATATACAAAATTTGACAGCATTTATACACTAAAATTGGGCA
1 TATACACAAAATTTGACAGCATGTATATACAAAATTTGACAGCATTTATACAC-AAAATTGGGCA
* *
23943789 GCGTATATATACCAATTTGGACAGCACT
65 GCATATATATACCAAATTGGACAGCACT
* *
23943817 TATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATACACTAAAATTGGGAA
1 TATACACAAAATTTGACAGCATGTATATACAAAATTTGACAGCATTTATACAC-AAAATTGGGCA
*
23943882 GCATATATATACCAATTTGGACAGCACT
65 GCATATATATACCAAATTGGACAGCACT
* * * * *
23943910 TATACACAAAATTTAACAGTATATATATACAAAATTGGACAGCATTTATACACCAAAATTGGGTA
1 TATACACAAAATTTGACAGCATGTATATACAAAATTTGACAGCATTTATACA-CAAAATTGGGCA
23943975 GCATATAT
65 GCATATAT
23943983 TCGATTTTTG
Statistics
Matches: 316, Mismatches: 25, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
91 1 0.00
92 52 0.16
93 236 0.75
94 23 0.07
95 4 0.01
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (92 bp):
TATACACAAAATTTGACAGCATGTATATACAAAATTTGACAGCATTTATACACAAAATTGGGCAG
CATATATATACCAAATTGGACAGCACT
Found at i:23944359 original size:16 final size:15
Alignment explanation
Indices: 23944340--23944387 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
23944330 ATATATATAT
*
23944340 ATATATATACATTACC
1 ATATATATAC-TAACC
*
23944356 ATATAAATACTAACC
1 ATATATATACTAACC
23944371 ATA-ATATACTAATCC
1 ATATATATACTAA-CC
23944386 AT
1 AT
23944388 GATCTTAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 8 0.29
15 11 0.39
16 9 0.32
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATATATACTAACC
Found at i:23944986 original size:43 final size:43
Alignment explanation
Indices: 23944891--23945003 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 43
23944881 TCGTACAATG
* * * *
23944891 CCAACGTCCCAGAC-GTGGTCCTACATGTAATCACATATAGATG
1 CCAACGTCCCAGACAG-GGTCTTACACGTAAACACATATAGATA
*
23944934 CC-ACTGTCCCAGACAGGGTCTTACACGTAAACACA-AGTCGATA
1 CCAAC-GTCCCAGACAGGGTCTTACACGTAAACACATA-TAGATA
*
23944977 CCAACGTCCCAGACATGGTCTTACACG
1 CCAACGTCCCAGACAGGGTCTTACACG
23945004 ATAGTACATA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
42 3 0.05
43 54 0.90
44 3 0.05
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (43 bp):
CCAACGTCCCAGACAGGGTCTTACACGTAAACACATATAGATA
Found at i:23951980 original size:94 final size:94
Alignment explanation
Indices: 23951819--23952676 Score: 1572
Period size: 94 Copynumber: 9.1 Consensus size: 94
23951809 NNNNNNNNNN
23951819 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
1 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
23951884 ACATGCTGTTAAATTTTGTGTATAAGTGC
66 ACATGCTGTTAAATTTTGTGTATAAGTGC
23951913 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
1 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
23951978 ACATGCTGTTAAATTTTGTGTATAAGTGC
66 ACATGCTGTTAAATTTTGTGTATAAGTGC
23952007 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
1 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
23952072 ACATGCTGTTAAATTTTGTGTATAAGTGC
66 ACATGCTGTTAAATTTTGTGTATAAGTGC
23952101 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
1 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
23952166 ACATGCTGTTAAATTTTGTGTATAAGTGC
66 ACATGCTGTTAAATTTTGTGTATAAGTGC
23952195 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
1 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
23952260 ACATGCTGTTAAATTTTGTGTATAAGTGC
66 ACATGCTGTTAAATTTTGTGTATAAGTGC
23952289 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
1 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
23952354 ACATGCTGTTAAATTTTGTGTATAAGTGC
66 ACATGCTGTTAAATTTTGTGTATAAGTGC
23952383 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
1 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
23952448 ACATGCTGTTAAATTTTGTGTATAAGTGC
66 ACATGCTGTTAAATTTTGTGTATAAGTGC
* * *
23952477 TGTCCAAATTGGTATATGTATGCTGTCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAC
1 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
*
23952542 ACATGCTGTTAAATTTTGTGTATAAGTGT
66 ACATGCTGTTAAATTTTGTGTATAAGTGC
** * *
23952571 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAAAAAAAATGCTTTCCAATTTTATAT
1 TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTG--AATCAATGCTGTCCAATTTTGTAT
* * * *
23952636 ATATATGCTGCTCAATTTTTGATGTATAAGAGC
64 ATACATGCTG-TTAAATTTTG-TGTATAAGTGC
23952669 TGTCCAAA
1 TGTCCAAA
23952677 CAGGGTAGAT
Statistics
Matches: 744, Mismatches: 16, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
94 691 0.93
96 28 0.04
97 8 0.01
98 17 0.02
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (94 bp):
TGTCCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATAT
ACATGCTGTTAAATTTTGTGTATAAGTGC
Found at i:23959157 original size:28 final size:28
Alignment explanation
Indices: 23959125--23959251 Score: 164
Period size: 28 Copynumber: 4.5 Consensus size: 28
23959115 TGACTTTCGA
** *
23959125 CACTAAGTGTGTTAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
23959153 CACTAAGTGTGCGAGTTTAACTTGTAAAG
1 CACTAAGTGTGCGAGTTTAA-TTGTAAAG
*
23959182 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * **
23959210 CACTAAGTGTGTGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
23959238 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
23959252 ACTTATTAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 59 0.68
29 28 0.32
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:23959213 original size:57 final size:56
Alignment explanation
Indices: 23959125--23959252 Score: 166
Period size: 57 Copynumber: 2.3 Consensus size: 56
23959115 TGACTTTCGA
** * *
23959125 CACTAAGTGTGTTAATTTAATTGTAAAGCACTAAGTGTGCGAGTTTAACTTGTAAAG
1 CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAA-TTATAAAG
* * * **
23959182 CACTAAGTGTGCGAGTTTAATGGTAAAGCACTAAGTGTGTGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATAAAG
23959238 CACTAAGTGTGCGAA
1 CACTAAGTGTGCGAA
23959253 CTTATTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
56 19 0.31
57 42 0.69
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (56 bp):
CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATAAAG
Found at i:23960028 original size:23 final size:23
Alignment explanation
Indices: 23959981--23960039 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
23959971 TTATGCTTAA
* *
23959981 ATGCTGCCC-AATTGATGTATTT
1 ATGCTGCCCAAATTGATATATAT
23960003 ATGCTGCCCAAATTG-TCATATAT
1 ATGCTGCCCAAATTGAT-ATATAT
*
23960026 ATGCTGTCCAAATT
1 ATGCTGCCCAAATT
23960040 TTTGATGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (23 bp):
ATGCTGCCCAAATTGATATATAT
Found at i:23960161 original size:94 final size:94
Alignment explanation
Indices: 23960025--23960770 Score: 1215
Period size: 94 Copynumber: 7.9 Consensus size: 94
23960015 TTGTCATATA
* * * *
23960025 TATGCTGTCCAAATTTTTGATGTAA-AAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTT
1 TATGCTG-CCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTT
23960089 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
64 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
* *
23960120 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCTAATTTTGTATACACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
23960185 TGTATAAGTGCTGTCCAAATTGGTGTATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
23960214 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
*
23960279 TGTATAAGTGCTGTCCAAATTGGTGTATA
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
* *
23960308 TATGCTGCCGAATTTTTGGTGAATCAATGCTGTCCAATTTCGTATATACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
*
23960373 TGTATAAGTGCTGTCCAAATTTGTGTATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
* *
23960402 TATGCTTCCTAATTTTTGGTGAATCAATGGTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
23960467 TGTATAAGTGCTGTCCAAATTGGTGTATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
23960496 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
*
23960561 TGTATAAGTGCTGTCCAAATTGGTATATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
* * *
23960590 TATGTTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTATATACACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
* *
23960655 TGTATAAGTGTTGTCCAAATTGGTATATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
** * * * *
23960684 TATGCTGCCTAATTTTTGGTGAAAAAAATGCTGTCCAATTTTATATATATATGCTGCTCAATTTT
1 TATGCTGCCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATATACATGCTG-TTAAATTT
*
23960749 TGATGTATAAGAGCTGTCCAAA
64 TG-TGTATAAGTGCTGTCCAAA
23960771 CAGGGTAGAT
Statistics
Matches: 615, Mismatches: 32, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
93 2 0.00
94 551 0.90
95 37 0.06
96 8 0.01
97 17 0.03
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (94 bp):
TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
TGTATAAGTGCTGTCCAAATTGGTGTATG
Done.