Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 69 of 79
Found at i:22788537 original size:23 final size:23
Alignment explanation
Indices: 22788508--22788553 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22788498 CTTTCTTTTT
* *
22788508 GTAGTAATTTTTAGGGTATTACA
1 GTAGTAATTTTCAGGATATTACA
22788531 GTAGTAATTTTCAGGATATTACA
1 GTAGTAATTTTCAGGATATTACA
22788554 CTTCTGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.41
Consensus pattern (23 bp):
GTAGTAATTTTCAGGATATTACA
Found at i:22790749 original size:14 final size:14
Alignment explanation
Indices: 22790730--22790762 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
22790720 ATATGTTAGC
22790730 TCATAGTTCCTACT
1 TCATAGTTCCTACT
22790744 TCATAGTTCCTACT
1 TCATAGTTCCTACT
22790758 T-ATAG
1 TCATAG
22790763 AAAAACTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (14 bp):
TCATAGTTCCTACT
Found at i:22791067 original size:17 final size:17
Alignment explanation
Indices: 22791045--22791082 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22791035 ATTTAATTAA
*
22791045 TCAATTCAATTAGTTTT-
1 TCAATTAAATTA-TTTTC
22791062 TCAATTAAATTATTTTC
1 TCAATTAAATTATTTTC
22791079 TCAA
1 TCAA
22791083 CCCAATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (17 bp):
TCAATTAAATTATTTTC
Found at i:22799822 original size:29 final size:29
Alignment explanation
Indices: 22799789--22799886 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 29
22799779 TCATTTAGCT
22799789 GAGATAACCACAAAGGCATCCATT-TAACCA
1 GAGATAACCACAAAGGCATCC-TTATAA-CA
** *
22799819 -AGATCTCCACAAAGGCTTCCTTATAACA
1 GAGATAACCACAAAGGCATCCTTATAACA
* *
22799847 GAGATAACCATAAAGGCTTCCTT-T--CA
1 GAGATAACCACAAAGGCATCCTTATAACA
*
22799873 GAGATAGCCACAAA
1 GAGATAACCACAAA
22799887 TTCATCCACT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
26 14 0.24
28 5 0.09
29 39 0.67
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (29 bp):
GAGATAACCACAAAGGCATCCTTATAACA
Found at i:22802914 original size:46 final size:48
Alignment explanation
Indices: 22802856--22802946 Score: 116
Period size: 47 Copynumber: 1.9 Consensus size: 48
22802846 TCTTTTTCAA
* *
22802856 TTTTTCTCACTCA-A-GAATGCTGCTTTTTTTTTTGGTTTTTCAGGTGT
1 TTTTTCTCACTCATATGAAT-CTGCTTTTTGTTTTGATTTTTCAGGTGT
* *
22802903 TTTTTCT-ACTCATATGAATTTTCTTTTTGTTTTGATTTTTCAGG
1 TTTTTCTCACTCATATGAATCTGCTTTTTGTTTTGATTTTTCAGG
22802947 CTAACCTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 5 0.13
47 29 0.76
48 4 0.11
ACGTcount: A:0.14, C:0.13, G:0.14, T:0.58
Consensus pattern (48 bp):
TTTTTCTCACTCATATGAATCTGCTTTTTGTTTTGATTTTTCAGGTGT
Found at i:22815295 original size:17 final size:17
Alignment explanation
Indices: 22815275--22815311 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
22815265 AGTCCGTTTG
* *
22815275 TTTATTTTTCTTATTTA
1 TTTATTTTTATTAATTA
22815292 TTTATTTTTATTAATTA
1 TTTATTTTTATTAATTA
22815309 TTT
1 TTT
22815312 TTATCTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTAATTA
Found at i:22820997 original size:26 final size:26
Alignment explanation
Indices: 22820931--22821061 Score: 109
Period size: 28 Copynumber: 4.9 Consensus size: 26
22820921 AATTTCTGTA
* * * *
22820931 AAAGTAAGCCTTTGTAGCTATCTATT
1 AAAGGAAGCCCTTGTGGCGATCTATT
* * * *
22820957 AAAGGAAGTCATTGTGGTGATCTATA
1 AAAGGAAGCCCTTGTGGCGATCTATT
* *
22820983 AAAGGAATCCCTTGTGGCGATCTCTGTT
1 AAAGGAAGCCCTTGTGGCGA--TCTATT
*
22821011 AAAGGAAGCCCTTGTGGCAATCTCTATT
1 AAAGGAAGCCCTTGTGGCGA--TCTATT
* *
22821039 AAAGGAAGCCTTTGTGGTGATCT
1 AAAGGAAGCCCTTGTGGCGATCT
22821062 TTGTTAAAGG
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
26 38 0.45
28 46 0.55
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (26 bp):
AAAGGAAGCCCTTGTGGCGATCTATT
Found at i:22821022 original size:28 final size:28
Alignment explanation
Indices: 22820983--22821193 Score: 235
Period size: 28 Copynumber: 7.6 Consensus size: 28
22820973 GTGATCTATA
* *
22820983 AAAGGAATCCCTTGTGGCGATCTCTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* * *
22821011 AAAGGAAGCCCTTGTGGCAATCTCTATT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* *
22821039 AAAGGAAGCCTTTGTGGTGATCTTTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
*** * * *
22821067 AAAGGAAATGTTTATGGCTATTTCTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* *
22821095 AAAGGAAGCCTTTGTGGCAATCTCTATT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* *
22821123 AAAGGAAGCCTTT-TGGCTATCTTTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
* *
22821150 AAGGGAAGTCTTTGTGGCGATCTCTGTT
1 AAAGGAAGCCTTTGTGGCGATCTCTGTT
*
22821178 AAAGGAAGACTTTGTG
1 AAAGGAAGCCTTTGTG
22821194 ACAATATCTG
Statistics
Matches: 150, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
27 22 0.15
28 128 0.85
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (28 bp):
AAAGGAAGCCTTTGTGGCGATCTCTGTT
Found at i:22821110 original size:84 final size:84
Alignment explanation
Indices: 22820925--22821198 Score: 319
Period size: 84 Copynumber: 3.3 Consensus size: 84
22820915 AACACCAATT
* * * * * * * *
22820925 TCTGTAAAAGTAAGCCTTTGTAGC--TATCTATTAAAGGAAGTCATTGTGGTGATC--TATAAAA
1 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
*
22820986 GG-AATCCCTTGTGGCGATC
66 GGAAAT-CTTTGTGGCGATC
*
22821005 TCTGTTAAAGGAAGCCCTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
1 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
* * * *
22821070 GGAAATGTTTATGGCTATT
66 GGAAATCTTTGTGGCGATC
22821089 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTT-TGGCT-ATCTTTGTTAA
1 TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGG-TGATCTTTGTTAA
* *
22821152 GGGAAGTCTTTGTGGCGATC
65 AGGAAATCTTTGTGGCGATC
* *
22821172 TCTGTTAAAGGAAGACTTTGTGACAAT
1 TCTGTTAAAGGAAGCCTTTGTGGCAAT
22821199 ATCTGTCAAA
Statistics
Matches: 165, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
80 20 0.12
82 27 0.16
83 53 0.32
84 62 0.38
85 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (84 bp):
TCTGTTAAAGGAAGCCTTTGTGGCAATCTCTATTAAAGGAAGCCTTTGTGGTGATCTTTGTTAAA
GGAAATCTTTGTGGCGATC
Found at i:22824615 original size:23 final size:23
Alignment explanation
Indices: 22824548--22824645 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 23
22824538 TCCCCTAGAA
* *
22824548 GCCTTAGTGGCTAGTATCCTATGAT
1 GCCTTTGTGGC-A-TATTCTATGAT
* ** *
22824573 GCATTTGTGGTGTATACTATGAT
1 GCCTTTGTGGCATATTCTATGAT
*
22824596 GCCTTTGTGGCATATTCTATGAC
1 GCCTTTGTGGCATATTCTATGAT
* * * *
22824619 GCCTTTGTAGCGTACTCTATAAT
1 GCCTTTGTGGCATATTCTATGAT
22824642 GCCT
1 GCCT
22824646 AAGTGAGGTT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
23 50 0.86
25 8 0.14
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (23 bp):
GCCTTTGTGGCATATTCTATGAT
Found at i:22829094 original size:22 final size:22
Alignment explanation
Indices: 22829035--22829091 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
22829025 ATCTTCAAAT
22829035 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
22829054 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
22829076 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
22829092 GATTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 12 0.38
22 8 0.25
23 12 0.38
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:22830714 original size:17 final size:18
Alignment explanation
Indices: 22830692--22830725 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22830682 CGATCCCATT
22830692 TTTCAA-AATAAAAATAG
1 TTTCAACAATAAAAATAG
22830709 TTTCAACAATAAAAATA
1 TTTCAACAATAAAAATA
22830726 AAAAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.29
Consensus pattern (18 bp):
TTTCAACAATAAAAATAG
Found at i:22831824 original size:30 final size:31
Alignment explanation
Indices: 22831788--22831856 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
22831778 GGTTTCATTT
* *
22831788 CAGTCACTCAACTTTA-GAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATCAAAAAGTAACAAAA
* *
22831818 CAGTCACTAACGTTATCAAAAAGTGACAAAT
1 CAGTCACTAACGTTATCAAAAAGTAACAAAA
22831849 CAGTCACT
1 CAGTCACT
22831857 TATTAACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.18
30 13 0.39
31 14 0.42
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATCAAAAAGTAACAAAA
Found at i:22834076 original size:19 final size:20
Alignment explanation
Indices: 22834028--22834076 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
22834018 TATTATTTAA
22834028 ATATT-TTTTTTTAATTTTT
1 ATATTATTTTTTTAATTTTT
22834047 ATATTTAATTTTTTTAA-TTTT
1 ATA-TT-ATTTTTTTAATTTTT
22834068 ATATTATTT
1 ATATTATTT
22834077 ATTGACGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.26
20 4 0.15
21 7 0.26
22 9 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
ATATTATTTTTTTAATTTTT
Found at i:22842153 original size:16 final size:16
Alignment explanation
Indices: 22842132--22842171 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
22842122 TTTGGTTCGC
*
22842132 TGTAATAGAATAGAGA
1 TGTAATAGAATAAAGA
22842148 TGTAATAGAATAAAGA
1 TGTAATAGAATAAAGA
*
22842164 CGTAATAG
1 TGTAATAG
22842172 TAATTCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.25
Consensus pattern (16 bp):
TGTAATAGAATAAAGA
Found at i:22842213 original size:45 final size:44
Alignment explanation
Indices: 22842147--22842243 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
22842137 TAGAATAGAG
22842147 ATGTAATAGAATAAAGACGTAATAGTAATTCAAT-TGTTTGGTTGA
1 ATGTAATAGAATAAAGACGTAATAGT-ATTC-ATGTGTTTGGTTGA
* * *
22842192 ATGTAAT-GTAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGA
1 ATGTAATAG-AATAAAGACGTAATAGTATTCATGTGTTTGGTTGA
*
22842236 ATGGAATA
1 ATGTAATA
22842244 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (44 bp):
ATGTAATAGAATAAAGACGTAATAGTATTCATGTGTTTGGTTGA
Found at i:22843825 original size:29 final size:28
Alignment explanation
Indices: 22843793--22843854 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
22843783 AAAAGCCGTT
22843793 TTTTTTCAAAATTTACCGAAATGGGTCGA
1 TTTTTTCAAAATTTACCGAAATGGGTC-A
* ** * *
22843822 TTTTTTTATTATTTACCGGAATGGTTCA
1 TTTTTTCAAAATTTACCGAAATGGGTCA
22843850 TTTTT
1 TTTTT
22843855 CGGGAAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGTCA
Found at i:22845296 original size:7 final size:7
Alignment explanation
Indices: 22845284--22845315 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
22845274 AGTCGATTGA
22845284 TATTTAG
1 TATTTAG
22845291 TATTTAG
1 TATTTAG
22845298 TATTTAG
1 TATTTAG
22845305 TATTTAG
1 TATTTAG
22845312 TATT
1 TATT
22845316 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:22847863 original size:29 final size:29
Alignment explanation
Indices: 22847817--22848033 Score: 312
Period size: 29 Copynumber: 7.4 Consensus size: 29
22847807 NNNNNNNNNN
22847817 CCTAACCTAATTTAATTAAAAACCCTAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAC
* *
22847846 CCTAACCTAATTTTATTAAAAATCCTAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAC
*
22847875 CCTAACCTAATTTAATTAAAAACCC-ACTGC
1 CCTAACCTAATTTAATTAAAAACCCTA--AC
22847905 CCTAACCTAATTTAATTAAAAACCCTAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAC
*
22847934 CTTAACCTAATTTAATTAAAAACCCTAAAC
1 CCTAACCTAATTTAATTAAAAACCCT-AAC
* *
22847964 CTTAACCTAATTTAATTAAAAA-CCTACTGC
1 CCTAACCTAATTTAATTAAAAACCCTA--AC
22847994 CCTAACCTAATTTAATTAAAAACCCTAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAC
*
22848023 CCTAATCTAAT
1 CCTAACCTAAT
22848034 NNNNNNNNNN
Statistics
Matches: 170, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
28 2 0.01
29 90 0.53
30 73 0.43
31 5 0.03
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.30
Consensus pattern (29 bp):
CCTAACCTAATTTAATTAAAAACCCTAAC
Found at i:22848033 original size:59 final size:59
Alignment explanation
Indices: 22847817--22848033 Score: 300
Period size: 59 Copynumber: 3.7 Consensus size: 59
22847807 NNNNNNNNNN
*
22847817 CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTTATTAAAAATCCTA--AC
1 CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA-CCTACTAC
*
22847875 CCTAACCTAATTTAATTAAAAACCC-ACTGCCCTAACCTAATTTAATTAAAAACC--CTAAC
1 CCTAACCTAATTTAATTAAAAACCCTA--ACCCTAACCTAATTTAATTAAAAACCTACT-AC
* * *
22847934 CTTAACCTAATTTAATTAAAAACCCTAAACCTTAACCTAATTTAATTAAAAACCTACTGC
1 CCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCTACTAC
*
22847994 CCTAACCTAATTTAATTAAAAACCCTAACCCTAATCTAAT
1 CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
22848034 NNNNNNNNNN
Statistics
Matches: 141, Mismatches: 9, Indels: 17
0.84 0.05 0.10
Matches are distributed among these distances:
57 1 0.01
58 27 0.19
59 84 0.60
60 26 0.18
61 3 0.02
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.30
Consensus pattern (59 bp):
CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCTACTAC
Found at i:22848390 original size:10 final size:10
Alignment explanation
Indices: 22848375--22848399 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22848365 TTTGGACTTA
22848375 ATAATTTTAC
1 ATAATTTTAC
22848385 ATAATTTTAC
1 ATAATTTTAC
22848395 ATAAT
1 ATAAT
22848400 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:22853531 original size:16 final size:15
Alignment explanation
Indices: 22853510--22853539 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22853500 TTCAATTTTT
22853510 TGTATTGATCTTTCTG
1 TGTATTGAT-TTTCTG
22853526 TGTATTGATTTTCT
1 TGTATTGATTTTCT
22853540 CTTGATACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.10, G:0.17, T:0.60
Consensus pattern (15 bp):
TGTATTGATTTTCTG
Found at i:22861930 original size:44 final size:43
Alignment explanation
Indices: 22861882--22862019 Score: 117
Period size: 43 Copynumber: 3.2 Consensus size: 43
22861872 ATGCACGTAC
22861882 ATATTTTTTAATTTTTATAAATATATATGAATACACATACTTAT
1 ATATTTTTTAATTTTTATAAATATATAT-AATACACATACTTAT
* *
22861926 ATA-TTTTT-ATATTTTATAACT-TATATACATATCTATATATCTATAT
1 ATATTTTTTAAT-TTTTATAAATATATATA-ATA-C-ACATA-CT-TAT
* * *
22861972 ACATTTTTAAATTTTTATGAATATATA-AAT--ACATACTTAT
1 ATATTTTTTAATTTTTATAAATATATATAATACACATACTTAT
*
22862012 ATGTTTTT
1 ATATTTTT
22862020 CTTATATCCT
Statistics
Matches: 76, Mismatches: 9, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
40 9 0.12
41 3 0.04
42 14 0.18
43 15 0.20
44 7 0.09
45 2 0.03
46 7 0.09
47 13 0.17
48 6 0.08
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (43 bp):
ATATTTTTTAATTTTTATAAATATATATAATACACATACTTAT
Found at i:22863583 original size:16 final size:16
Alignment explanation
Indices: 22863553--22863582 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22863543 ATCTAACTTT
22863553 GTATACTAAAATTTTG
1 GTATACTAAAATTTTG
22863569 GTATAC-AAAATTTT
1 GTATACTAAAATTTT
22863583 TAAACAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (16 bp):
GTATACTAAAATTTTG
Found at i:22865058 original size:88 final size:89
Alignment explanation
Indices: 22864943--22865122 Score: 290
Period size: 88 Copynumber: 2.0 Consensus size: 89
22864933 AAGTAAGCTA
* *
22864943 CTTGAAAATATTGTTAATGAAGAATAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGA
1 CTTGAAAATATTGTTAAGGAAAAATAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGA
*
22865008 GATGAGTTTATATATGTGAACCTT
66 GATGAGTTTATATATGTGAACCCT
* * *
22865032 CTTG-AAATATTGTTGAGGAAAAATAAAGGCTTAGATCTCACATTGGTTTAATACCAAAGTGTGA
1 CTTGAAAATATTGTTAAGGAAAAATAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGA
*
22865096 GATGGGTTTATATATGTGAACCCT
66 GATGAGTTTATATATGTGAACCCT
22865120 CTT
1 CTT
22865123 CAAAGGTAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 80 0.95
89 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (89 bp):
CTTGAAAATATTGTTAAGGAAAAATAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGA
GATGAGTTTATATATGTGAACCCT
Found at i:22866091 original size:20 final size:20
Alignment explanation
Indices: 22866066--22866133 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
22866056 CATTAGAAAT
*
22866066 TTAGAAATATTGTTATTCGA
1 TTAGAAATATTGGTATTCGA
*
22866086 TTAGAAATAATGGTATCTCG-
1 TTAGAAATATTGGTAT-TCGA
* **
22866106 TTAGAAATCTTGGTATTATA
1 TTAGAAATATTGGTATTCGA
22866126 TTAGAAAT
1 TTAGAAAT
22866134 TTTGTTATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.03
20 36 0.90
21 3 0.08
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (20 bp):
TTAGAAATATTGGTATTCGA
Found at i:22866142 original size:20 final size:20
Alignment explanation
Indices: 22866106--22866143 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22866096 TGGTATCTCG
22866106 TTAGAAATCTTGGTATTATA
1 TTAGAAATCTTGGTATTATA
* *
22866126 TTAGAAATTTTGTTATTA
1 TTAGAAATCTTGGTATTA
22866144 ATTTATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (20 bp):
TTAGAAATCTTGGTATTATA
Found at i:22866661 original size:17 final size:16
Alignment explanation
Indices: 22866639--22866674 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
22866629 TAATTTTAAA
*
22866639 TATTATATTTTATTATT
1 TATTATATGTTATT-TT
22866656 TATTATATGTTATTTT
1 TATTATATGTTATTTT
22866672 TAT
1 TAT
22866675 GTGATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTATATGTTATTTT
Found at i:22867078 original size:11 final size:11
Alignment explanation
Indices: 22867062--22867095 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
22867052 TCAATTATTT
22867062 TCTCAATTTCC
1 TCTCAATTTCC
* *
22867073 TCTCAAATTGC
1 TCTCAATTTCC
22867084 TCTCAATTTCC
1 TCTCAATTTCC
22867095 T
1 T
22867096 TCCAAATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:22867089 original size:22 final size:22
Alignment explanation
Indices: 22867062--22867111 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
22867052 TCAATTATTT
22867062 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTGC
*
22867084 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTGC
22867106 TCTCAA
1 TCTCAA
22867112 ATCCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTGC
Found at i:22867209 original size:8 final size:9
Alignment explanation
Indices: 22867190--22867214 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22867180 TTTTAAAAAA
22867190 TTTTTAATT
1 TTTTTAATT
22867199 TTTTTAATT
1 TTTTTAATT
22867208 TTTTTAA
1 TTTTTAA
22867215 ATCATAAAAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:22869534 original size:7 final size:7
Alignment explanation
Indices: 22869514--22869553 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
22869504 ATTTATTAAA
22869514 AATTTAT
1 AATTTAT
22869521 AAATTTAT
1 -AATTTAT
22869529 AATTTAT
1 AATTTAT
22869536 AA-TTA-
1 AATTTAT
22869541 AATTTAT
1 AATTTAT
22869548 AATTTA
1 AATTTA
22869554 ATTGACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.07
6 6 0.20
7 15 0.50
8 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:22869632 original size:15 final size:15
Alignment explanation
Indices: 22869612--22869745 Score: 74
Period size: 15 Copynumber: 8.2 Consensus size: 15
22869602 TAAAAATCCT
22869612 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
22869627 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
** *
22869642 AACACCAAAACCCTAACAAA
1 AAC-CCTTAA--CT--TAAA
* *
22869662 AACCC-TAGTCTTAACCCT
1 AACCCTTA-ACTTAA---A
22869680 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
* *
22869695 AACCC-TAACCCTAACCCT
1 AACCCTTAA-CTTAA---A
22869713 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
22869728 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
22869743 AAC
1 AAC
22869746 ACCAAAACCG
Statistics
Matches: 91, Mismatches: 13, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
14 3 0.03
15 47 0.52
16 4 0.04
17 2 0.02
18 22 0.24
19 7 0.08
20 6 0.07
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.22
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:22869667 original size:89 final size:86
Alignment explanation
Indices: 22869560--22869855 Score: 272
Period size: 101 Copynumber: 3.2 Consensus size: 86
22869550 TTTAATTGAC
* * *
22869560 AAACCCTAACAAAAACCCTAACTC-TAACCCTCACCCTTAACTTAAAAATCCTAACCCTTAA-CT
1 AAACCCTAACAAAAACCCT-ACTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCC-TAACCC
22869623 TAAAAACCCTTAACTTAAAAACACCA
64 T---AACCCTTAACTTAAAAACACCA
*
22869649 AAACCCTAACAAAAACCCTAGTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTA
1 AAACCCTAACAAAAACCCTACTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTA
*
22869714 ACCCTTAACTTAAAAACCCTTAACTTAA
66 ACCCTTAACTTAAAAA--C---AC--CA
* * ** * * *
22869742 AAACACCAAAACCGTAACAAAAACCTTAGCCCTAACCCTAACCATTAACTTAAAAACCCTAACCA
1 AAAC-CC-TAA-C--A---AAAACCCTACTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCC
*
22869807 TAACCCTAACCCTCAACTTAAAAACACCA
58 TAACCCTAACCCTTAACTTAAAAACACCA
*
22869836 AAACCCAAACAAAAACCCTA
1 AAACCCTAACAAAAACCCTA
22869856 GCCCTAACTG
Statistics
Matches: 176, Mismatches: 14, Indels: 37
0.78 0.06 0.16
Matches are distributed among these distances:
86 25 0.14
88 7 0.04
89 53 0.30
91 3 0.02
92 3 0.02
93 7 0.04
94 7 0.04
95 2 0.01
96 3 0.02
98 1 0.01
99 1 0.01
101 64 0.36
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (86 bp):
AAACCCTAACAAAAACCCTACTCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTA
ACCCTTAACTTAAAAACACCA
Found at i:22869714 original size:101 final size:101
Alignment explanation
Indices: 22869609--22869831 Score: 383
Period size: 101 Copynumber: 2.2 Consensus size: 101
22869599 ACTTAAAAAT
* *
22869609 CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGTCTT
1 CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCT
* *
22869674 AACCCTAACCCTTAACTTAAAAACCCTAACCCTAAC
66 AACCCTAACCATTAACTTAAAAACCCTAACCATAAC
* *
22869710 CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCGTAACAAAAACCTTAGCCCT
1 CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCT
22869775 AACCCTAACCATTAACTTAAAAACCCTAACCATAAC
66 AACCCTAACCATTAACTTAAAAACCCTAACCATAAC
*
22869811 CCTAACCCTCAACTTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
22869832 ACCAAAACCC
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 115 1.00
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.20
Consensus pattern (101 bp):
CCTAACCCTTAACTTAAAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCT
AACCCTAACCATTAACTTAAAAACCCTAACCATAAC
Found at i:22890161 original size:6 final size:6
Alignment explanation
Indices: 22890152--22890250 Score: 67
Period size: 6 Copynumber: 15.5 Consensus size: 6
22890142 TTAACTTAAA
* *
22890152 AACCCT AACCAT AACCCT AACCCTT AA-CTT AAAAACCCT AACCCT AACCCT
1 AACCCT AACCCT AACCCT AACCC-T AACCCT ---AACCCT AACCCT AACCCT
* * *
22890203 AATCCTT AA-CTT AAAAACCCT AACCCT AACCCT AACCTT AACCCT AAC
1 AA-CCCT AACCCT ---AACCCT AACCCT AACCCT AACCCT AACCCT AAC
22890251 TCTTAACTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
5 4 0.05
6 55 0.73
7 8 0.11
8 4 0.05
9 4 0.05
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (6 bp):
AACCCT
Found at i:22890168 original size:27 final size:27
Alignment explanation
Indices: 22890130--22890324 Score: 131
Period size: 27 Copynumber: 7.1 Consensus size: 27
22890120 GTATCAGGTT
*
22890130 TAACCCTAACCCTTAACTTAAAAACCC
1 TAACCATAACCCTTAACTTAAAAACCC
22890157 TAACCATAACCCTAACCCTTAACTTAAAAACCC
1 TAACC---A---TAACCCTTAACTTAAAAACCC
*
22890190 TAACCCTAACCCTAATCCTTAACTTAAAAACCC
1 TAA-CC--A---TAACCCTTAACTTAAAAACCC
*
22890223 TAACCCTAACCC-TAACCTT---AACCC
1 TAACCATAACCCTTAA-CTTAAAAACCC
22890247 TAA-C-T----CTTAACTTAAAAACCC
1 TAACCATAACCCTTAACTTAAAAACCC
* *
22890268 TAACCATAATCCTTAACTTAAAAAACC
1 TAACCATAACCCTTAACTTAAAAACCC
* * *
22890295 TAACCCTAACCTTTAACTTAAAAACAC
1 TAACCATAACCCTTAACTTAAAAACCC
22890322 TAA
1 TAA
22890325 AACCCTAATG
Statistics
Matches: 140, Mismatches: 10, Indels: 36
0.75 0.05 0.19
Matches are distributed among these distances:
18 4 0.03
19 3 0.02
21 8 0.06
22 2 0.01
23 2 0.01
24 8 0.06
26 3 0.02
27 53 0.38
32 2 0.01
33 53 0.38
34 2 0.01
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (27 bp):
TAACCATAACCCTTAACTTAAAAACCC
Found at i:22890234 original size:45 final size:45
Alignment explanation
Indices: 22890185--22890272 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
22890175 TTAACTTAAA
22890185 AACCCTAACCCTAACCCTAA-TCCTTAACTTAAAAACCCTAACCCT
1 AACCCTAACCCTAACCCTAACT-CTTAACTTAAAAACCCTAACCCT
*
22890230 AACCCTAACCTTAACCCTAACTCTTAACTTAAAAACCCTAACC
1 AACCCTAACCCTAACCCTAACTCTTAACTTAAAAACCCTAACC
22890273 ATAATCCTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 40 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (45 bp):
AACCCTAACCCTAACCCTAACTCTTAACTTAAAAACCCTAACCCT
Found at i:22890267 original size:33 final size:33
Alignment explanation
Indices: 22890130--22890244 Score: 205
Period size: 33 Copynumber: 3.5 Consensus size: 33
22890120 GTATCAGGTT
*
22890130 TAACCCTAACCCTTAACTTAAAAACCCTAACCA
1 TAACCCTAACCCTTAACTTAAAAACCCTAACCC
22890163 TAACCCTAACCCTTAACTTAAAAACCCTAACCC
1 TAACCCTAACCCTTAACTTAAAAACCCTAACCC
*
22890196 TAACCCTAATCCTTAACTTAAAAACCCTAACCC
1 TAACCCTAACCCTTAACTTAAAAACCCTAACCC
22890229 TAACCCTAA-CCTTAAC
1 TAACCCTAACCCTTAAC
22890245 CCTAACTCTT
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
32 7 0.09
33 73 0.91
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (33 bp):
TAACCCTAACCCTTAACTTAAAAACCCTAACCC
Found at i:22890268 original size:33 final size:33
Alignment explanation
Indices: 22890230--22890366 Score: 78
Period size: 27 Copynumber: 4.7 Consensus size: 33
22890220 CCCTAACCCT
* *
22890230 AACCCTAACCTTAACCCTAACTCTTAACTTAAA
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAA
*
22890263 AACCCTAA-CC--A---TAATCCTTAACTTAAA
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAA
*
22890290 AAACCTAACCCTAA-CCT-----TTAACTTAAA
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAA
* **
22890317 AACACTAA----AACCCTAATGC-TAAC--AAA
1 AACCCTAACCCTAACCCTAACCCTTAACTTAAA
22890343 AACCCTAACCCTAACCCTAACCCT
1 AACCCTAACCCTAACCCTAACCCT
22890367 AACCCTAATC
Statistics
Matches: 79, Mismatches: 9, Indels: 34
0.65 0.07 0.28
Matches are distributed among these distances:
23 2 0.03
24 3 0.04
26 10 0.13
27 37 0.47
28 6 0.08
30 11 0.14
32 2 0.03
33 8 0.10
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.23
Consensus pattern (33 bp):
AACCCTAACCCTAACCCTAACCCTTAACTTAAA
Found at i:22890269 original size:72 final size:74
Alignment explanation
Indices: 22890152--22890305 Score: 222
Period size: 72 Copynumber: 2.1 Consensus size: 74
22890142 TTAACTTAAA
*
22890152 AACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTAATCCTTAACTTAA
1 AACCCTAACCATAACCCTAACCCTTAACTT-AAAA--C-AACCCTAACCATAATCCTTAACTTAA
*
22890217 AAACCCTAACCCT
62 AAAACCTAACCCT
* *
22890230 AACCCTAACCTTAACCCTAACTCTTAACTT-AAA-AACCCTAACCATAATCCTTAACTTAAAAAA
1 AACCCTAACCATAACCCTAACCCTTAACTTAAAACAACCCTAACCATAATCCTTAACTTAAAAAA
22890293 CCTAACCCT
66 CCTAACCCT
22890302 AACC
1 AACC
22890306 TTTAACTTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
72 41 0.57
76 3 0.04
78 28 0.39
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (74 bp):
AACCCTAACCATAACCCTAACCCTTAACTTAAAACAACCCTAACCATAATCCTTAACTTAAAAAA
CCTAACCCT
Found at i:22890315 original size:72 final size:75
Alignment explanation
Indices: 22890152--22890305 Score: 233
Period size: 78 Copynumber: 2.1 Consensus size: 75
22890142 TTAACTTAAA
*
22890152 AACCCTAACCATAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTAATCCTTAACTTAA
1 AACCCTAACCTTAACCCTAACCCTTAACTTAAAAACCCTAACCC-AA--CTAATCCTTAACTTAA
*
22890217 AAACCCTAACCCT
63 AAAACCTAACCCT
*
22890230 AACCCTAACCTTAACCCTAACTCTTAACTTAAAAACCCTAA-CC-A-TAATCCTTAACTTAAAAA
1 AACCCTAACCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCAACTAATCCTTAACTTAAAAA
22890292 ACCTAACCCT
66 ACCTAACCCT
22890302 AACC
1 AACC
22890306 TTTAACTTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
72 31 0.42
75 1 0.01
77 2 0.03
78 39 0.53
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (75 bp):
AACCCTAACCTTAACCCTAACCCTTAACTTAAAAACCCTAACCCAACTAATCCTTAACTTAAAAA
ACCTAACCCT
Found at i:22890319 original size:54 final size:53
Alignment explanation
Indices: 22890236--22890358 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 53
22890226 CCCTAACCCT
*
22890236 AACCTTAACCCTAA-CTCTTAACTTAAAAACCCT-AACCATAATCCTTAACTTAAAA
1 AACC-TAACCCTAACCTCTTAACTTAAAAACACTAAACCATAATCC-TAAC--AAAA
* *
22890291 AACCTAACCCTAACCT-TTAACTTAAAAACACTAAAACCCTAATGCTAACAAAA
1 AACCTAACCCTAACCTCTTAACTTAAAAACACT-AAACCATAATCCTAACAAAA
*
22890344 ACCCTAACCCTAACC
1 AACCTAACCCTAACC
22890359 CTAACCCTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
53 18 0.30
54 24 0.39
55 10 0.16
56 9 0.15
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.23
Consensus pattern (53 bp):
AACCTAACCCTAACCTCTTAACTTAAAAACACTAAACCATAATCCTAACAAAA
Found at i:22890352 original size:6 final size:6
Alignment explanation
Indices: 22890343--22890374 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
22890333 TGCTAACAAA
22890343 AACCCT AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AA
22890375 TCTGATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16
Consensus pattern (6 bp):
AACCCT
Found at i:22890356 original size:18 final size:18
Alignment explanation
Indices: 22890323--22890374 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
22890313 TAAAAACACT
**
22890323 AAAACCCTAATGCTAACA
1 AAAACCCTAACCCTAACA
*
22890341 AAAACCCTAACCCTAACC
1 AAAACCCTAACCCTAACA
**
22890359 CTAACCCTAACCCTAA
1 AAAACCCTAACCCTAA
22890375 TCTGATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAACCCTAACCCTAACA
Found at i:22890625 original size:16 final size:16
Alignment explanation
Indices: 22890606--22890647 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
22890596 TAATTTGATA
22890606 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
22890622 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
22890638 TAGTTTTAAT
1 TAATTTTAAT
22890648 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:22890631 original size:22 final size:23
Alignment explanation
Indices: 22890621--22890671 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
22890611 TTAATAACAA
* *
22890621 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
22890643 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
22890666 TTAATT
1 TTAATT
22890672 ATATTTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:22891730 original size:18 final size:18
Alignment explanation
Indices: 22891707--22891823 Score: 56
Period size: 18 Copynumber: 7.0 Consensus size: 18
22891697 TTTCACTTTC
22891707 TAATTTATTACTTTAATT
1 TAATTTATTACTTTAATT
*
22891725 TAATTTA-TCCTTTAA-T
1 TAATTTATTACTTTAATT
*
22891741 TAA---AAT-CGTTTAATT
1 TAATTTATTAC-TTTAATT
*
22891756 TCATTTATTAC-TT--TT
1 TAATTTATTACTTTAATT
* * *
22891771 AAATTTATTACTTGATTT
1 TAATTTATTACTTTAATT
* * * *
22891789 TCATTTACTCCTTTAAAT
1 TAATTTATTACTTTAATT
*
22891807 TAATTTA-TCCTTTAATT
1 TAATTTATTACTTTAATT
22891824 ATTTAATTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
13 2 0.03
14 6 0.08
15 14 0.19
16 5 0.07
17 18 0.24
18 28 0.38
19 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (18 bp):
TAATTTATTACTTTAATT
Found at i:22892653 original size:19 final size:19
Alignment explanation
Indices: 22892631--22892673 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
22892621 AATCATCAGG
22892631 CAATGATT-AGGTCAAAAAT
1 CAATGATTGA-GTCAAAAAT
22892650 CAATGATTGAGTCAAAAAT
1 CAATGATTGAGTCAAAAAT
22892669 CAATG
1 CAATG
22892674 TGGTGACGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (19 bp):
CAATGATTGAGTCAAAAAT
Found at i:22897742 original size:12 final size:11
Alignment explanation
Indices: 22897721--22897784 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 11
22897711 TTTTAATTAA
22897721 GTTAGGTTAGG
1 GTTAGGTTAGG
22897732 GTTAGGGTTAGG
1 GTTA-GGTTAGG
*
22897744 GTT--TTTA--
1 GTTAGGTTAGG
* *
22897751 ATTAAGTTA-G
1 GTTAGGTTAGG
22897761 GTTAGGTTA-G
1 GTTAGGTTAGG
22897771 GTTAGGTTAGG
1 GTTAGGTTAGG
22897782 GTT
1 GTT
22897785 TTCAATTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
7 2 0.05
9 6 0.14
10 17 0.40
11 8 0.19
12 10 0.23
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (11 bp):
GTTAGGTTAGG
Found at i:22897765 original size:29 final size:29
Alignment explanation
Indices: 22897079--22897740 Score: 1225
Period size: 29 Copynumber: 22.8 Consensus size: 29
22897069 AAAAATTGTT
22897079 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897108 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897137 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897166 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897195 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897224 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897253 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897282 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897311 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897340 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897369 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897398 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897427 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897456 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897485 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897514 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
*
22897543 TTAATTTAGGTTAGGGTTAGGGTTTTTAA
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
22897572 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
* *
22897601 GTAATTTAGGTTAGGGTTGGGGTTTTTAG
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
* *
22897630 GTAATTTAGGTTAGGGTTAGGGTTTTTAA
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
*
22897659 TTAATTTAGGTTAGGGTTAGGGTTTTTAA
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
* * * *
22897688 TGAAGTTAGGTTAGGGTTAGGATTTTTAA
1 TTAATTTAGGTTAGGGTTAGGGTTTTTAG
*
22897717 TTAAGTTAGGTTAGGGTTAGGGTT
1 TTAATTTAGGTTAGGGTTAGGGTT
22897741 AGGGTTTTTA
Statistics
Matches: 621, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 621 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.47
Consensus pattern (29 bp):
TTAATTTAGGTTAGGGTTAGGGTTTTTAG
Found at i:22897766 original size:5 final size:5
Alignment explanation
Indices: 22897756--22897781 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22897746 TTTTAATTAA
22897756 GTTAG GTTAG GTTAG GTTAG GTTAG G
1 GTTAG GTTAG GTTAG GTTAG GTTAG G
22897782 GTTTTCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.38
Consensus pattern (5 bp):
GTTAG
Found at i:22897886 original size:25 final size:26
Alignment explanation
Indices: 22897847--22897895 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
22897837 CTTCAAAAAT
22897847 TTCTATGTGTATTACATCAAATAAAC
1 TTCTATGTGTATTACATCAAATAAAC
*
22897873 TTCTAT-TTTATTACATCAAATAA
1 TTCTATGTGTATTACATCAAATAA
22897896 TAAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (26 bp):
TTCTATGTGTATTACATCAAATAAAC
Found at i:22898814 original size:7 final size:7
Alignment explanation
Indices: 22898804--22898828 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22898794 TTATATACAT
22898804 AATACTA
1 AATACTA
22898811 AATACTA
1 AATACTA
22898818 AATACTA
1 AATACTA
22898825 AATA
1 AATA
22898829 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:22899684 original size:25 final size:25
Alignment explanation
Indices: 22899616--22899688 Score: 59
Period size: 25 Copynumber: 3.1 Consensus size: 25
22899606 CTTTTATAAC
*
22899616 AAATAATAAATTAATAATT--ATC-T
1 AAATAATAAA-TAAAAATTAAATCTT
* *
22899639 AAA-AATACATAAATAA-AAAATCTT
1 AAATAATAAATAAA-AATTAAATCTT
22899663 AAATAATAAATAAAAATTAAAT-TT
1 AAATAATAAATAAAAATTAAATCTT
22899687 AA
1 AA
22899689 TACTTACCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
21 3 0.08
22 7 0.18
23 6 0.15
24 10 0.26
25 13 0.33
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAAATAAAAATTAAATCTT
Found at i:22899796 original size:31 final size:31
Alignment explanation
Indices: 22899761--22899825 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
22899751 GCCATTGATG
*
22899761 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAAATTAAAATTATTTTAAA
*
22899792 AAAATATAAAAAAAATTATAATTATTTTAAA
1 AAAATATAAAAAAAATTAAAATTATTTTAAA
22899823 AAA
1 AAA
22899826 TAGATTTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAAATTAAAATTATTTTAAA
Found at i:22904507 original size:263 final size:264
Alignment explanation
Indices: 22904040--22904570 Score: 1055
Period size: 263 Copynumber: 2.0 Consensus size: 264
22904030 TCAACCCTTT
22904040 ATATTTATAAATTTCATCAACTTGTAACATGGGAAGGCAAAAATTGCATAATTATTCATCTTTAA
1 ATATTTATAAATTTCATCAACTTGTAACATGGGAAGGCAAAAATTGCATAATTATTCATCTTTAA
22904105 ACCATGAATTTAGACATGTTTTGAGATGATTTAAAAGAAAAGCTTCTTGAGAACGATGCTTAATG
66 ACCATGAATTTAGACATGTTTTGAGATGATTTAAAAGAAAAGCTTCTTGAGAACGATGCTTAATG
22904170 AAAATGACCATAACTATAACGTGCAAAAAGAAAAAGTGTAGCAATTTCCTTTCAAAGACTTCCCT
131 AAAATGACCATAACTATAACGTGCAAAAAGAAAAAGTGTAGCAATTTCCTTTCAAAGACTTCCCT
22904235 GCAAACAATTATGATCACTATTTTAATTGCACTATTTAATTATTATAAATTTTTAA-TTAGATAC
196 GCAAACAATTATGATCACTATTTTAATTGCACTATTTAATTATTATAAATTTTTAATTTAGATAC
22904299 TAAA
261 TAAA
22904303 ATATTTATAAATTTCATCAACTTGTAACATGGGAAGGCAAAAATTGCATAATTATTCATCTTTAA
1 ATATTTATAAATTTCATCAACTTGTAACATGGGAAGGCAAAAATTGCATAATTATTCATCTTTAA
22904368 ACCATGAATTTAGACATGTTTTGAGATGATTTAAAAGAAAAGCTTCTTGAGAACGATGCTTAATG
66 ACCATGAATTTAGACATGTTTTGAGATGATTTAAAAGAAAAGCTTCTTGAGAACGATGCTTAATG
22904433 AAAATGACCATAACTATAACGTGCAAAAAGAAAAAGTGTAGCAATTTCCTTTCAAAGACTTCCCT
131 AAAATGACCATAACTATAACGTGCAAAAAGAAAAAGTGTAGCAATTTCCTTTCAAAGACTTCCCT
22904498 GCAAACAATTATGATCACTATTTTAATTGCACTATTTAATTATTATAAATTTTTAATTTAGATAC
196 GCAAACAATTATGATCACTATTTTAATTGCACTATTTAATTATTATAAATTTTTAATTTAGATAC
22904563 TAAA
261 TAAA
22904567 ATAT
1 ATAT
22904571 ATATTTTTTA
Statistics
Matches: 267, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
263 251 0.94
264 16 0.06
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (264 bp):
ATATTTATAAATTTCATCAACTTGTAACATGGGAAGGCAAAAATTGCATAATTATTCATCTTTAA
ACCATGAATTTAGACATGTTTTGAGATGATTTAAAAGAAAAGCTTCTTGAGAACGATGCTTAATG
AAAATGACCATAACTATAACGTGCAAAAAGAAAAAGTGTAGCAATTTCCTTTCAAAGACTTCCCT
GCAAACAATTATGATCACTATTTTAATTGCACTATTTAATTATTATAAATTTTTAATTTAGATAC
TAAA
Found at i:22905856 original size:20 final size:20
Alignment explanation
Indices: 22905831--22905868 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22905821 GATACCCAAT
22905831 TATTTCATGGCTACGGTACG
1 TATTTCATGGCTACGGTACG
*
22905851 TATTTCATGGTTACGGTA
1 TATTTCATGGCTACGGTA
22905869 TGTGAAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (20 bp):
TATTTCATGGCTACGGTACG
Found at i:22919219 original size:26 final size:25
Alignment explanation
Indices: 22919190--22919244 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
22919180 AATAATAATT
22919190 TATATAATTTTTTAAAACTCATAAAA
1 TATATAATTTTTTAAAA-TCATAAAA
* *
22919216 TATATTATTTTTTAAAATTATAAAA
1 TATATAATTTTTTAAAATCATAAAA
22919241 -ATAT
1 TATAT
22919245 TTTTACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 4 0.15
25 7 0.26
26 16 0.59
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
TATATAATTTTTTAAAATCATAAAA
Found at i:22919755 original size:6 final size:6
Alignment explanation
Indices: 22919744--22919773 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
22919734 CACATCTCAA
22919744 CATCAC CATCAC CATCAC CATCAC CATCAC
1 CATCAC CATCAC CATCAC CATCAC CATCAC
22919774 ATATCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (6 bp):
CATCAC
Found at i:22924818 original size:18 final size:17
Alignment explanation
Indices: 22924797--22924840 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
22924787 AATCGAAATT
22924797 TATTTTATAATAAAATAA
1 TATTTTATAAT-AAATAA
* *
22924815 TATTTTAAAATAATTAA
1 TATTTTATAATAAATAA
*
22924832 TATCTTATA
1 TATTTTATA
22924841 TANNNNNNNN
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTTTATAATAAATAA
Found at i:22927352 original size:106 final size:106
Alignment explanation
Indices: 22927167--22927365 Score: 373
Period size: 106 Copynumber: 1.9 Consensus size: 106
22927157 NNNNNNNNAT
22927167 ATAATATAATAAATTTTTTTAAAAGCGTAAATCAATTTTTTAAAAAGAGGTTTATTTTCCGTTGA
1 ATAATATAATAAATTTTTTTAAAAGCGTAAATCAATTTTTTAAAAAGAGGTTTATTTTCCGTTGA
22927232 ATACAAGTCATTTTC-TTTATCAAGTTNTAAATAATAATATA
66 ATACAAGTCATTTTCATTTATCAAGTT-TAAATAATAATATA
22927273 ATAATATAATAAATTTTTTTAAAAGCGTAAATCAATTTTTTAAAAAGAGGTTTATTTTCCGTTGA
1 ATAATATAATAAATTTTTTTAAAAGCGTAAATCAATTTTTTAAAAAGAGGTTTATTTTCCGTTGA
22927338 ATACAAGTCATTTTCTATTTATCAAGTT
66 ATACAAGTCATTTTC-ATTTATCAAGTT
22927366 GTTTTCAATT
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
106 80 0.88
108 11 0.12
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (106 bp):
ATAATATAATAAATTTTTTTAAAAGCGTAAATCAATTTTTTAAAAAGAGGTTTATTTTCCGTTGA
ATACAAGTCATTTTCATTTATCAAGTTTAAATAATAATATA
Found at i:22927548 original size:21 final size:22
Alignment explanation
Indices: 22927506--22927552 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
22927496 TAAGGAGATA
22927506 TTTAAAAATATTAATTTATTTT
1 TTTAAAAATATTAATTTATTTT
* * *
22927528 TTTAAAATTA-TATTTTGTTTT
1 TTTAAAAATATTAATTTATTTT
22927549 TTTA
1 TTTA
22927553 TTAAAAGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTAAAAATATTAATTTATTTT
Found at i:22928571 original size:13 final size:14
Alignment explanation
Indices: 22928532--22928571 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
22928522 ATGTGAAGAA
*
22928532 TATTATTTAAAAAT
1 TATTATTTAAAATT
22928546 TATTATTTAAAATT
1 TATTATTTAAAATT
*
22928560 TTTTA-TTAAAAT
1 TATTATTTAAAAT
22928572 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:22932320 original size:20 final size:21
Alignment explanation
Indices: 22932281--22932320 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22932271 AAAATAAGAA
* *
22932281 AAAATCAAAGAAGGAGAAAAG
1 AAAATCAAAAAAGAAGAAAAG
22932302 AAAAT-AAAAAAGAAGAAAA
1 AAAATCAAAAAAGAAGAAAA
22932321 ATAGAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (21 bp):
AAAATCAAAAAAGAAGAAAAG
Found at i:22943777 original size:20 final size:20
Alignment explanation
Indices: 22943752--22943806 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
22943742 CGATACCAAT
**
22943752 TAAAAATATCGATACTTTTG
1 TAAAAATATCGATACTCGTG
*
22943772 TAAAAATATTGATACTCGTG
1 TAAAAATATCGATACTCGTG
*
22943792 TAAATATATCGATAC
1 TAAAAATATCGATAC
22943807 CACTGGGCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (20 bp):
TAAAAATATCGATACTCGTG
Found at i:22949506 original size:15 final size:16
Alignment explanation
Indices: 22949477--22949506 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22949467 CAAACATGCT
22949477 TTAACACATTATCAAA
1 TTAACACATTATCAAA
22949493 TTAACACA-TATCAA
1 TTAACACATTATCAA
22949507 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:22960823 original size:43 final size:43
Alignment explanation
Indices: 22960702--22960841 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 43
22960692 TATCCTAGAT
* * * * * *
22960702 ATGGTCTTACATGTTATCACATATTGATGCCATTGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
* * * * *
22960745 AGGGTCTTATATG-AA-ATCATATACGATGCTAATGTCGCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCTAATGTCCCAGAC
22960787 ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
22960830 ATGGTCTTACAC
1 ATGGTCTTACAC
22960842 TAAATCACAC
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 5 0.06
42 26 0.32
43 43 0.54
44 6 0.08
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
Found at i:22971663 original size:6 final size:6
Alignment explanation
Indices: 22971652--22971704 Score: 54
Period size: 6 Copynumber: 8.3 Consensus size: 6
22971642 TCTCAATAAT
*
22971652 AAAAAG AAAAAG AAAAAG -AAAAG AAGAAGAG AAAAAGAG AAAAAG AAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AA-AA-AG -AAAA-AG AAAAAG AAAAAG
22971703 AA
1 AA
22971705 TTGAAGTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 5 0.12
6 22 0.52
7 6 0.14
8 7 0.17
9 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:22971687 original size:25 final size:25
Alignment explanation
Indices: 22971656--22971704 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
22971646 AATAATAAAA
22971656 AGAAAAAGA-AAAAGAAAAGAAGAAG
1 AGAAAAAGAGAAAA-AAAAGAAGAAG
*
22971681 AGAAAAAGAGAAAAAGAAGAAGAA
1 AGAAAAAGAGAAAAAAAAGAAGAA
22971705 TTGAAGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (25 bp):
AGAAAAAGAGAAAAAAAAGAAGAAG
Found at i:22976281 original size:25 final size:25
Alignment explanation
Indices: 22976253--22976305 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
22976243 CTCAGGGTAC
22976253 TACTAACAAGTTTAAATTTG-AGAAG
1 TACTAACAAGTTTAAATTTGTA-AAG
*
22976278 TACTAACATGTTTAAATTTGTAAAG
1 TACTAACAAGTTTAAATTTGTAAAG
22976303 TAC
1 TAC
22976306 ACCTCCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (25 bp):
TACTAACAAGTTTAAATTTGTAAAG
Found at i:22976932 original size:45 final size:45
Alignment explanation
Indices: 22976862--22976960 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
22976852 CGATGGATGG
* * * *
22976862 TTTTATTTTGTTGGATCAGTGTGATGGATGTATTTTGATGTACGA
1 TTTTATTTTGTTGAATCAGTCTGATGGATGTATTTTGATGGACAA
* *
22976907 TTTTATTTTGTTGAATCATTCTGATGGTTGTATTTTGATGGACAA
1 TTTTATTTTGTTGAATCAGTCTGATGGATGTATTTTGATGGACAA
22976952 TTTATATTT
1 TTT-TATTT
22976961 ATCCTTTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 42 0.89
46 5 0.11
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (45 bp):
TTTTATTTTGTTGAATCAGTCTGATGGATGTATTTTGATGGACAA
Found at i:22977855 original size:56 final size:56
Alignment explanation
Indices: 22977774--22977886 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
22977764 GATTGAGACA
22977774 AATTTGATAAGATTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
1 AATTTGATAAGATTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
* * ***
22977830 AATTTGATGAGATTTTATTTGTTTCTTTATTTAGGATTGATTTAATCCTTGATTAT
1 AATTTGATAAGATTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
22977886 A
1 A
22977887 GGGATTCTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (56 bp):
AATTTGATAAGATTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
Found at i:22979019 original size:21 final size:21
Alignment explanation
Indices: 22978995--22979037 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22978985 GATGACTTGG
22978995 ATTTATCTAATGAAAACGAAA
1 ATTTATCTAATGAAAACGAAA
22979016 ATTTATCTAATGAAAACGAAA
1 ATTTATCTAATGAAAACGAAA
22979037 A
1 A
22979038 GTGATGTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (21 bp):
ATTTATCTAATGAAAACGAAA
Found at i:22985003 original size:8 final size:8
Alignment explanation
Indices: 22984986--22985042 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
22984976 TTTGAAATAG
*
22984986 AAAATTAT
1 AAAATCAT
22984994 AAAATCAT
1 AAAATCAT
*
22985002 AAAATTATT
1 AAAATCA-T
*
22985011 AAAATAATT
1 AAAATCA-T
22985020 GCAAAATCAT
1 --AAAATCAT
22985030 AAAATCAT
1 AAAATCAT
22985038 AAAAT
1 AAAAT
22985043 TGAATACGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
8 26 0.62
9 9 0.21
10 1 0.02
11 6 0.14
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (8 bp):
AAAATCAT
Found at i:22985019 original size:28 final size:27
Alignment explanation
Indices: 22984988--22985042 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
22984978 TGAAATAGAA
* *
22984988 AATTATAAAATCATAAAATTATTAAAAT
1 AATTACAAAATCATAAAATCA-TAAAAT
*
22985016 AATTGCAAAATCATAAAATCATAAAAT
1 AATTACAAAATCATAAAATCATAAAAT
22985043 TGAATACGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (27 bp):
AATTACAAAATCATAAAATCATAAAAT
Found at i:22988609 original size:113 final size:113
Alignment explanation
Indices: 22988180--22988622 Score: 681
Period size: 114 Copynumber: 3.9 Consensus size: 113
22988170 AATTTAACGA
* * * * *
22988180 CGTTTTTGGGAAAGCGCCACAAAAATACCTAAGACCAATGACACCGTTTTCTAAGCTGTCGGGGA
1 CGTTTTT-GGAAAGCGCCGCAAAAATACCTAAGACCAACGACGCCGTTTTCTGAGCTATCGGGGA
* *
22988245 TTTAGTGGCATTTCTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
65 TTTAGTGGCGTTTCTAGGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
***
22988294 CGTTTTTGGAAAAGCATTGCAAAAATACCTAAGACCAACGACGCCGTTTTCTGAGCTATCGGGGA
1 CGTTTTTGG-AAAGCGCCGCAAAAATACCTAAGACCAACGACGCCGTTTTCTGAGCTATCGGGGA
22988359 TTTAGTGGCGTTTCTAGGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
65 TTTAGTGGCGTTTCTAGGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
22988408 CGTTTTTAGGAAAGCGCCGCAAAAATACCTAAGACCAACGACGCCGTTTTCTGAGCTATCGGGGA
1 CGTTTTT-GGAAAGCGCCGCAAAAATACCTAAGACCAACGACGCCGTTTTCTGAGCTATCGGGGA
*
22988473 TTTAGTGGCGTTTCTAGGTAAGCGCCGCTAATGCTCAGGGCTTT-GTGG
65 TTTAGTGGCGTTTCTAGGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* * *
22988521 CGTTTTTGGTAAAGCGCCGCAAAAATAGCTAAGACCAACGATGCCGTTTTCTGAGCTGTCGGGGA
1 CGTTTTTGG-AAAGCGCCGCAAAAATACCTAAGACCAACGACGCCGTTTTCTGAGCTATCGGGGA
* * * *
22988586 TTTAGCGGCGTTTTTAGGAAAGCGCTGCTAATGCTCA
65 TTTAGTGGCGTTTCTAGGTAAGCGCCGCTAATGCTCA
22988623 AGGATTTAAA
Statistics
Matches: 305, Mismatches: 21, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
112 2 0.01
113 97 0.32
114 204 0.67
115 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (113 bp):
CGTTTTTGGAAAGCGCCGCAAAAATACCTAAGACCAACGACGCCGTTTTCTGAGCTATCGGGGAT
TTAGTGGCGTTTCTAGGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
Found at i:22988861 original size:24 final size:24
Alignment explanation
Indices: 22988831--22988881 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
22988821 TTTAGGGTTT
*
22988831 GGGATTTAGGGTTTA-GGGATTATA
1 GGGATTTAGGGGTTAGGGGATT-TA
22988855 GGGATTTAGGGGTTAGGGGATTTA
1 GGGATTTAGGGGTTAGGGGATTTA
22988879 GGG
1 GGG
22988882 GTAAGGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (24 bp):
GGGATTTAGGGGTTAGGGGATTTA
Found at i:22988874 original size:16 final size:15
Alignment explanation
Indices: 22988854--22988896 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
22988844 TAGGGATTAT
22988854 AGGGATTTAGGGGTTA
1 AGGGATTTAGGGG-TA
*
22988870 GGGGATTTAGGGGTA
1 AGGGATTTAGGGGTA
22988885 AGGGA-TTAGGGG
1 AGGGATTTAGGGG
22988897 GTTATGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 12 0.48
ACGTcount: A:0.23, C:0.00, G:0.51, T:0.26
Consensus pattern (15 bp):
AGGGATTTAGGGGTA
Found at i:22988879 original size:9 final size:8
Alignment explanation
Indices: 22988818--22988918 Score: 81
Period size: 7 Copynumber: 13.2 Consensus size: 8
22988808 GCCGCGGTAT
22988818 GGATTTAG
1 GGATTTAG
22988826 GG-TTT-G
1 GGATTTAG
22988832 GGATTTAG
1 GGATTTAG
22988840 GG-TTTAG
1 GGATTTAG
22988847 GGATTATAG
1 GGATT-TAG
22988856 GGATTTAG
1 GGATTTAG
*
22988864 GG-GTTAGG
1 GGATTTA-G
22988872 GGATTTAG
1 GGATTTAG
* *
22988880 GG-GTAAG
1 GGATTTAG
22988887 GGA-TTAG
1 GGATTTAG
** *
22988894 GGGGTTAT
1 GGATTTAG
22988902 GGATTT-G
1 GGATTTAG
22988909 GGATTTAG
1 GGATTTAG
22988917 GG
1 GG
22988919 TTTCAACGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
6 3 0.04
7 32 0.43
8 28 0.38
9 11 0.15
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.35
Consensus pattern (8 bp):
GGATTTAG
Found at i:22989638 original size:15 final size:15
Alignment explanation
Indices: 22989618--22989647 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22989608 GCTGTTAAAC
22989618 GCCGCAAATGTGGGA
1 GCCGCAAATGTGGGA
*
22989633 GCCGCAACTGTGGGA
1 GCCGCAAATGTGGGA
22989648 AGCAGTAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.13
Consensus pattern (15 bp):
GCCGCAAATGTGGGA
Found at i:22991427 original size:22 final size:21
Alignment explanation
Indices: 22991402--22991517 Score: 79
Period size: 18 Copynumber: 5.6 Consensus size: 21
22991392 ATTACATTAC
22991402 TTACATTACTTACTAAAATATA
1 TTACATTACTTA-TAAAATATA
22991424 TTACATTAC-T-T-AAATATA
1 TTACATTACTTATAAAATATA
*
22991442 TTAC-TTAC-TA-AAATTTATAA
1 TTACATTACTTATAAA-ATAT-A
22991462 CTTACATTAC-T-T-AAATATA
1 -TTACATTACTTATAAAATATA
*
22991481 TTACATTACTTAAAATTTATATATA
1 TTACATTACTTATAA---A-ATATA
22991506 TTACATTACTTA
1 TTACATTACTTA
22991518 AATAAAAATT
Statistics
Matches: 77, Mismatches: 3, Indels: 25
0.73 0.03 0.24
Matches are distributed among these distances:
17 5 0.06
18 22 0.29
19 6 0.08
20 4 0.05
21 8 0.10
22 14 0.18
24 1 0.01
25 17 0.22
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (21 bp):
TTACATTACTTATAAAATATA
Found at i:22991432 original size:18 final size:18
Alignment explanation
Indices: 22991406--22991496 Score: 105
Period size: 18 Copynumber: 4.9 Consensus size: 18
22991396 CATTACTTAC
22991406 ATTAC-TTACTAAAATAT
1 ATTACATTACTAAAATAT
*
22991423 ATTACATTACTTAAATAT
1 ATTACATTACTAAAATAT
22991441 ATTAC-TTACTAAAATTTAT
1 ATTACATTACTAAAA--TAT
*
22991460 AACTTACATTACTTAAATAT
1 -A-TTACATTACTAAAATAT
22991480 ATTACATTACTTAAAAT
1 ATTACATTAC-TAAAAT
22991497 TTATATATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
17 13 0.21
18 25 0.40
19 9 0.14
20 4 0.06
21 4 0.06
22 8 0.13
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTACATTACTAAAATAT
Found at i:22991467 original size:39 final size:38
Alignment explanation
Indices: 22991406--22991521 Score: 157
Period size: 39 Copynumber: 3.0 Consensus size: 38
22991396 CATTACTTAC
22991406 ATTACTTACTAAAA--TAT-ATTACATTACTTAAATAT
1 ATTACTTACTAAAATTTATAATTACATTACTTAAATAT
22991441 ATTACTTACTAAAATTTATAACTTACATTACTTAAATAT
1 ATTACTTACTAAAATTTATAA-TTACATTACTTAAATAT
22991480 ATTACATTACTTAAAATTTATATATATTACATTACTTAAATA
1 ATTAC-TTAC-TAAAA-TT-TATA-ATTACATTACTTAAATA
22991522 AAAATTAGCT
Statistics
Matches: 72, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
35 14 0.19
37 3 0.04
38 1 0.01
39 22 0.31
40 4 0.06
41 5 0.07
42 2 0.03
43 20 0.28
44 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (38 bp):
ATTACTTACTAAAATTTATAATTACATTACTTAAATAT
Found at i:22991824 original size:18 final size:18
Alignment explanation
Indices: 22991783--22991825 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
22991773 TTTTTTATGA
*
22991783 ATATTTTTAAATTTGTTG
1 ATATTTTAAAATTTGTTG
* *
22991801 AAATTTTAAAATTTTTTG
1 ATATTTTAAAATTTGTTG
*
22991819 TTATTTT
1 ATATTTT
22991826 TTCTGATTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (18 bp):
ATATTTTAAAATTTGTTG
Found at i:22992152 original size:16 final size:16
Alignment explanation
Indices: 22992131--22992454 Score: 161
Period size: 16 Copynumber: 20.5 Consensus size: 16
22992121 AATTAATATT
22992131 ATACATAACATACATA
1 ATACATAACATACATA
22992147 ATACAT-A-ATACATA
1 ATACATAACATACATA
22992161 ACTTACATAA-ATTACATA
1 A--TACATAACA-TACATA
* *
22992179 ATACACAACTTA-AT-
1 ATACATAACATACATA
**
22992193 -TA-ATATTATACATA
1 ATACATAACATACATA
* * *
22992207 ACTTA-ATTACA-A-GTT
1 A--TACATAACATACATA
22992222 ATACATAACATACATA
1 ATACATAACATACATA
22992238 ATACAT-A-ATACATA
1 ATACATAACATACATA
*
22992252 ATACAT-A-ATACACA
1 ATACATAACATACATA
* *
22992266 ACTTA-ATTA-AT--ATT
1 A--TACATAACATACATA
22992280 ATACATAACATACATA
1 ATACATAACATACATA
22992296 ATACAT-AC-TACATA
1 ATACATAACATACATA
22992310 ACTTACATAA-ATTACATA
1 A--TACATAACA-TACATA
22992328 ATACATAA-ATTACATA
1 ATACATAACA-TACATA
*
22992344 ATACATAACTTACATA
1 ATACATAACATACATA
* *
22992360 ATACACAACTTACATA
1 ATACATAACATACATA
* *
22992376 ATACACAACTTACTTAATA
1 ATACATAACATAC---ATA
22992395 TTATACATAACATACATA
1 --ATACATAACATACATA
*
22992413 ATACATAACTTACATA
1 ATACATAACATACATA
** *
22992429 ACTTACATAATTTACCTA
1 A--TACATAACATACATA
22992447 ATACATAA
1 ATACATAA
22992455 ATATATATCA
Statistics
Matches: 249, Mismatches: 26, Indels: 66
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.02
13 9 0.04
14 45 0.18
15 11 0.04
16 125 0.50
17 8 0.03
18 31 0.12
19 3 0.01
21 11 0.04
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (16 bp):
ATACATAACATACATA
Found at i:22992194 original size:69 final size:67
Alignment explanation
Indices: 22992093--22992439 Score: 235
Period size: 69 Copynumber: 5.3 Consensus size: 67
22992083 TAATAAATAA
*
22992093 AACTTGCATAATT-CATAATACACAACTTAATTAATATTATACATAACATACATAATAC-A-TAA
1 AACTTACATAATTACATAATACACAACTTAATTAATATTATACATAACATA-AT--TACAAGTAA
22992155 TACAT
63 TACAT
* *
22992160 AACTTACATAAATTACATAATACACAACTTAATTAATATTATACATAACTTAATTACAAGTTATA
1 AACTTACAT-AATTACATAATACACAACTTAATTAATATTATACATAACATAATTACAAGTAATA
22992225 CAT
65 CAT
* * * *
22992228 AACATACATAA-TACATAAT--AC-A--TAA-TACATA--ATACACAACTTAATTA-ATA-TTAT
1 AACTTACATAATTACATAATACACAACTTAATTA-ATATTATACATAACATAATTACA-AGTAAT
22992282 ACAT
64 ACAT
* * *
22992286 AACATACATAA-TACATACTACATAACTTACA-TAA-A-T-TACATAATACATAAATTAC-A-TA
1 AACTTACATAATTACATAATACACAACTTA-ATTAATATTATACAT-A-ACAT-AATTACAAGTA
22992344 ATACAT
62 ATACAT
*
22992350 AACTTACATAATACACAACTTACATAATACACAACTTACTTAATATTATACATAAC---A-TAC-
1 AACTTAC---AT----AA-TTACATAATACACAACTTAATTAATATTATACATAACATAATTACA
22992410 A-TAATACAT
58 AGTAATACAT
22992419 AACTTACATAACTTACATAAT
1 AACTTACATAA-TTACATAAT
22992440 TTACCTAATA
Statistics
Matches: 236, Mismatches: 14, Indels: 65
0.75 0.04 0.21
Matches are distributed among these distances:
58 27 0.11
59 16 0.07
60 3 0.01
61 7 0.03
62 17 0.07
63 5 0.02
64 22 0.09
65 5 0.02
66 13 0.06
67 13 0.06
68 21 0.09
69 55 0.23
70 1 0.00
71 2 0.01
73 19 0.08
74 3 0.01
75 2 0.01
76 5 0.02
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.32
Consensus pattern (67 bp):
AACTTACATAATTACATAATACACAACTTAATTAATATTATACATAACATAATTACAAGTAATAC
AT
Found at i:22992226 original size:22 final size:21
Alignment explanation
Indices: 22992110--22992314 Score: 106
Period size: 21 Copynumber: 9.6 Consensus size: 21
22992100 ATAATTCATA
*
22992110 ATACACAACTTAATTAATATT
1 ATACATAACTTAATTAATATT
* *
22992131 ATACATAACATACA-TAATACATA
1 ATACATAACTTA-ATTAAT--ATT
* *
22992154 ATACATAACTTACATAAATTACATA
1 ATACATAACTTA-ATTAA-T--ATT
*
22992179 ATACACAACTTAATTAATATT
1 ATACATAACTTAATTAATATT
22992200 ATACATAACTTAATTACA-AGTT
1 ATACATAACTTAATTA-ATA-TT
* *
22992222 ATACATAACATACA-TAATA-C
1 ATACATAACTTA-ATTAATATT
*
22992242 ATA-AT-ACATAA-TACATA--
1 ATACATAACTTAATTA-ATATT
*
22992259 ATACACAACTTAATTAATATT
1 ATACATAACTTAATTAATATT
* *
22992280 ATACATAACATACA-TAATACAT
1 ATACATAACTTA-ATTAATA-TT
22992302 ACTACATAACTTA
1 A-TACATAACTTA
22992315 CATAAATTAC
Statistics
Matches: 149, Mismatches: 17, Indels: 34
0.75 0.09 0.17
Matches are distributed among these distances:
17 6 0.04
18 9 0.06
19 10 0.07
20 5 0.03
21 48 0.32
22 21 0.14
23 27 0.18
24 6 0.04
25 17 0.11
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (21 bp):
ATACATAACTTAATTAATATT
Found at i:22992443 original size:9 final size:9
Alignment explanation
Indices: 22992281--22992443 Score: 120
Period size: 9 Copynumber: 19.3 Consensus size: 9
22992271 ATTAATATTA
*
22992281 TACATAACA
1 TACATAACT
22992290 TACATAA--
1 TACATAACT
22992297 TACAT-AC-
1 TACATAACT
22992304 TACATAACT
1 TACATAACT
*
22992313 TACATAAAT
1 TACATAACT
22992322 TACATAA--
1 TACATAACT
*
22992329 TACATAAAT
1 TACATAACT
22992338 TACATAA--
1 TACATAACT
22992345 TACATAACT
1 TACATAACT
22992354 TACATAA--
1 TACATAACT
*
22992361 TACACAACT
1 TACATAACT
22992370 TACATAA--
1 TACATAACT
*
22992377 TACACAACT
1 TACATAACT
* *
22992386 TACTTAATATT
1 TACAT-A-ACT
*
22992397 ATACATAACA
1 -TACATAACT
22992407 TACATAA--
1 TACATAACT
22992414 TACATAACT
1 TACATAACT
22992423 TACATAACT
1 TACATAACT
*
22992432 TACATAATT
1 TACATAACT
22992441 TAC
1 TAC
22992444 CTAATACATA
Statistics
Matches: 127, Mismatches: 11, Indels: 32
0.75 0.06 0.19
Matches are distributed among these distances:
6 1 0.01
7 43 0.34
8 2 0.02
9 72 0.57
10 2 0.02
11 3 0.02
12 4 0.03
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:22994120 original size:42 final size:42
Alignment explanation
Indices: 22994059--22994338 Score: 400
Period size: 42 Copynumber: 6.7 Consensus size: 42
22994049 TATAAAAATA
* *
22994059 CCGCTAAAGACTATGTTCTTTAGCGGCGCTTAGAAAGAAACG
1 CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACG
* *
22994101 CTGCTAAAGACCATGTTCTTTAGCGACGCTTAGAAAAAAACG
1 CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACG
* ** *
22994143 CCGTTAAAGACCATGTTCTTTAATGGCGCTTAGAAAGAAACG
1 CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACG
* *
22994185 CTGCTAAAGACCATGTTCTTAAGCGGCGCTTAGAAAAAAACG
1 CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACG
* * *
22994227 CCGCTAAAGACCATATTCTTTAGAGGCGCTTAGAAAAAAATG
1 CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACG
*
22994269 CCGTTAAAGACCATGTTCTTTAGCGGCGCTTA-AGAAAAAACG
1 CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-AAAAAACG
* *
22994311 CCGCTAAAGAACATGATCTTTAGCGGCG
1 CCGCTAAAGACCATGTTCTTTAGCGGCG
22994339 TTTTTCTCTA
Statistics
Matches: 209, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 1 0.00
42 208 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (42 bp):
CCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACG
Found at i:22994360 original size:42 final size:42
Alignment explanation
Indices: 22994309--22994427 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
22994299 TAAGAAAAAA
22994309 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTCTAAG
* * *
22994351 CGCCTCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTCTAAG
* * *
22994393 CACCGCTAAAGATCATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
22994428 GTTTGTAAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTCTAAG
Found at i:23000459 original size:19 final size:19
Alignment explanation
Indices: 23000437--23000491 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
23000427 AAAGTAAAAT
* * *
23000437 AAATGATAAATTTTTTTAA
1 AAATTATAAAATTATTTAA
23000456 AAATTATTAAAATTATTTAA
1 AAATTA-TAAAATTATTTAA
23000476 AAATTATAAAAATTAT
1 AAATTAT-AAAATTAT
23000492 AATAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATTATAAAATTATTTAA
Found at i:23000474 original size:20 final size:20
Alignment explanation
Indices: 23000451--23000491 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
23000441 GATAAATTTT
*
23000451 TTTAAAAATTATTAAAATTA
1 TTTAAAAATTATAAAAATTA
23000471 TTTAAAAATTATAAAAATTA
1 TTTAAAAATTATAAAAATTA
23000491 T
1 T
23000492 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAAAAATTATAAAAATTA
Found at i:23000492 original size:9 final size:9
Alignment explanation
Indices: 23000453--23000493 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
23000443 TAAATTTTTT
23000453 TAAAAATTA
1 TAAAAATTA
*
23000462 TTAAAATTA
1 TAAAAATTA
23000471 TTTAAAAATTA
1 --TAAAAATTA
23000482 TAAAAATTA
1 TAAAAATTA
23000491 TAA
1 TAA
23000494 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 20 0.71
11 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TAAAAATTA
Found at i:23000498 original size:20 final size:20
Alignment explanation
Indices: 23000453--23000499 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
23000443 TAAATTTTTT
* *
23000453 TAAAAATTATTAAAATTATT
1 TAAAAATTATAAAAATTATA
23000473 TAAAAATTATAAAAATTATAA
1 TAAAAATTATAAAAATTAT-A
23000494 TAAAAA
1 TAAAAA
23000500 AATTAGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATTATAAAAATTATA
Found at i:23001181 original size:22 final size:21
Alignment explanation
Indices: 23001137--23001182 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
23001127 TTCTTTAGAA
* * *
23001137 TTTTTTTAAAAATTTTTATAT
1 TTTTTTTAAAAATATATAAAT
23001158 TTTTTTTGAAAAATATATAAAT
1 TTTTTTT-AAAAATATATAAAT
23001180 TTT
1 TTT
23001183 GGAAATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTTTAAAAATATATAAAT
Found at i:23002367 original size:42 final size:42
Alignment explanation
Indices: 23002321--23002402 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
23002311 TATAGGCCAT
* * *
23002321 ACGGCCTGAACACACGCCCGTGTCCTTGCCTGTATGGTTTAC
1 ACGGCCTGAACACACGCCCATATCCTTGCCCGTATGGTTTAC
* ** *
23002363 ACGGCTTGGGCACACGCCCATATCCTTGCCCGTGTGGTTT
1 ACGGCCTGAACACACGCCCATATCCTTGCCCGTATGGTTT
23002403 TAAAGCATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.15, C:0.33, G:0.26, T:0.27
Consensus pattern (42 bp):
ACGGCCTGAACACACGCCCATATCCTTGCCCGTATGGTTTAC
Found at i:23012615 original size:5 final size:5
Alignment explanation
Indices: 23012594--23012632 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
23012584 CACCAACATG
* *
23012594 AAAAG AAAAC AATAAC AGAAC AAAAC AAAAC AAAAC AAA
1 AAAAC AAAAC AA-AAC AAAAC AAAAC AAAAC AAAAC AAA
23012633 GAGGAACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.77, C:0.15, G:0.05, T:0.03
Consensus pattern (5 bp):
AAAAC
Found at i:23012853 original size:30 final size:30
Alignment explanation
Indices: 23012819--23012887 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
23012809 ATAGGGGGAT
* *
23012819 GGAAAATGGCAGCTCCGTTAAGTTTGTAAC
1 GGAAAATGGCAGCTCCGTTAAGTCTATAAC
* * * * *
23012849 GGAAAATAGTAGCTTCGTTACGTCTATAAT
1 GGAAAATGGCAGCTCCGTTAAGTCTATAAC
23012879 GGAAAATGG
1 GGAAAATGG
23012888 TTAGTGGCAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (30 bp):
GGAAAATGGCAGCTCCGTTAAGTCTATAAC
Found at i:23013325 original size:21 final size:20
Alignment explanation
Indices: 23013287--23013329 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
23013277 TATTTTACAT
**
23013287 TTTTACCCCAATGTTTTTTAC
1 TTTTACCCCAAT-ACTTTTAC
*
23013308 TTTTCCCCCAATACTTTTAC
1 TTTTACCCCAATACTTTTAC
23013328 TT
1 TT
23013330 CCTCACACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.19, C:0.28, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTACCCCAATACTTTTAC
Found at i:23016105 original size:6 final size:6
Alignment explanation
Indices: 23016094--23016120 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23016084 TCAGGGCCTG
23016094 AAACAC AAACAC AAACAC AAACAC AAA
1 AAACAC AAACAC AAACAC AAACAC AAA
23016121 TAAATTGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAC
Found at i:23016792 original size:183 final size:184
Alignment explanation
Indices: 23016484--23016850 Score: 727
Period size: 183 Copynumber: 2.0 Consensus size: 184
23016474 TAATTTAGCC
23016484 ATATTTTAAGGCTTTTGATAGATATTTTTAGGGGAATATTTGGTATATATAAGTCATGTTTTGCG
1 ATATTTTAAGGCTTTTGATAGATATTTTTAGGGGAATATTTGGTATATATAAGTCATGTTTTGCG
23016549 AGAGAGAAATTAAATAATCTAAAATACAAATAAACTTAAATTATATTTATATGTTGTAATAGATA
66 AGAGAGAAATTAAATAATCTAAAATACAAATAAACTTAAATTATATTTATATGTTGTAATAGATA
23016614 ATCTATTAAAATAATATAATTATAATATATATTGTTTTAAA-TTTTACTTGCAT
131 ATCTATTAAAATAATATAATTATAATATATATTGTTTTAAATTTTTACTTGCAT
23016667 ATATTTTAAGGCTTTTGATAGATATTTTTAGGGGAATATTTGGTATATATAAGTCATGTTTTGCG
1 ATATTTTAAGGCTTTTGATAGATATTTTTAGGGGAATATTTGGTATATATAAGTCATGTTTTGCG
23016732 AGAGAGAAATTAAATAATCTAAAATACAAATAAACTTAAATTATATTTATATGTTGTAATAGATA
66 AGAGAGAAATTAAATAATCTAAAATACAAATAAACTTAAATTATATTTATATGTTGTAATAGATA
23016797 ATCTATTAAAATAATATAATTATAATATATATTGTTTTAAATTTTTACTTGCAT
131 ATCTATTAAAATAATATAATTATAATATATATTGTTTTAAATTTTTACTTGCAT
23016851 GCATTAAATT
Statistics
Matches: 183, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
183 171 0.93
184 12 0.07
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (184 bp):
ATATTTTAAGGCTTTTGATAGATATTTTTAGGGGAATATTTGGTATATATAAGTCATGTTTTGCG
AGAGAGAAATTAAATAATCTAAAATACAAATAAACTTAAATTATATTTATATGTTGTAATAGATA
ATCTATTAAAATAATATAATTATAATATATATTGTTTTAAATTTTTACTTGCAT
Found at i:23023261 original size:20 final size:20
Alignment explanation
Indices: 23023220--23023261 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
23023210 ATAAATATAT
*
23023220 ATGTTATATATATTAACTTTA
1 ATGTTATATATAATAAC-TTA
23023241 ATGTATATATATAATAA-TTA
1 ATGT-TATATATAATAACTTA
23023261 A
1 A
23023262 AATGAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (20 bp):
ATGTTATATATAATAACTTA
Found at i:23028192 original size:44 final size:44
Alignment explanation
Indices: 23028142--23028303 Score: 288
Period size: 44 Copynumber: 3.7 Consensus size: 44
23028132 TTTTAGATCT
*
23028142 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCC
*
23028186 TATCTCCCTGAGATTACAGTGGAGCAGCTTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCC
*
23028230 TATCTCCCTGAGATTACAGTGGAGCAGCTTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCC
*
23028274 TATCTCCCTGAGATTACAGTGGAGCGGATT
1 TATCTCCCTGAGATTACAGTGGAGCAGATT
23028304 AAAATAAAGG
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 114 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCC
Found at i:23028322 original size:44 final size:42
Alignment explanation
Indices: 23028137--23028778 Score: 264
Period size: 44 Copynumber: 14.7 Consensus size: 42
23028127 AAGAATTTTA
* **
23028137 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAG
* * * **
23028180 TAATCCTATCTCCCTGAGATTACAGTGGAGCAGCTTGAAGCTAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAG
* * * **
23028224 TAATCCTATCTCCCTGAGATTACAGTGGAGCAGCTTGAAGCTAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAG
* * *
23028268 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT--AG
* * * *** *
23028313 GATCTTATCTCTCTGAAGA-TACAGTAGAGTAGATCGCATTAG
1 GATCTTATCTCCCTG-AGATTACAGTGGAGCAGATTAAAATAG
* * * ** **
23028355 G-TCTTTTCTCCCTGAGATTATAGTGGAATGGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGG-A--G-CAGATTAAAAT-AG
*
23028400 GATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT--AG
* * * *** *
23028444 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATTAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAG
* * * ** **
23028486 G-TCTTTTCTCCCTGAGATTATAGTGGAATGGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGG-A--G-CAGATTAAAAT-AG
**
23028531 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAG
* * *
23028574 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT--AG
* ** * ****
23028619 GATCTTATCT--CT-AAAGTTACAGCAGAGCAGAATCGTGTCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT-AG
** **
23028660 G-TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--T-AG
** **
23028706 G-TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--T-AG
23028752 G-TCTTATCTCCCTGAGATTACAGTGGA
1 GATCTTATCTCCCTGAGATTACAGTGGA
23028779 ATAGACCGAA
Statistics
Matches: 474, Mismatches: 91, Indels: 64
0.75 0.14 0.10
Matches are distributed among these distances:
40 11 0.02
41 41 0.09
42 48 0.10
43 15 0.03
44 215 0.45
45 19 0.04
46 125 0.26
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (42 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAG
Found at i:23028424 original size:131 final size:131
Alignment explanation
Indices: 23028274--23028565 Score: 566
Period size: 131 Copynumber: 2.2 Consensus size: 131
23028264 CTAGTAATCC
23028274 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGATACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGATACAGTA
23028339 GAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGGACCGAAGAATTTCAGATC
66 GAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGGACCGAAGAATTTCAGATC
23028404 T
131 T
*
23028405 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGATACAGTA
23028470 GAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGGACCGAAGAATTTCAGATC
66 GAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGGACCGAAGAATTTCAGATC
23028535 T
131 T
*
23028536 TATCTCCCTGAGATTACAGTGGAGCAGATT
1 TATCTCCCTGAGATTACAGTGGAGCGGATT
23028566 GAAGCTAGTA
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 159 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (131 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGATACAGTA
GAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGGACCGAAGAATTTCAGATC
T
Found at i:23028584 original size:131 final size:130
Alignment explanation
Indices: 23028126--23028599 Score: 498
Period size: 131 Copynumber: 3.6 Consensus size: 130
23028116 ACAGATCAGT
* * **
23028126 GAAGAATTTTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCCTATC
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-AATCCTATC
* * * * * * * * * *
23028190 TCCCTGAGATTACAGTGGAGCAGCTTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG-A-
64 TCCCTGAGATTACAGTAGAGTAGATCGCA-TTAG--GTCTTTTCTCCCTGAGATTATAGTGGAAT
* *
23028253 GCAGCTT
126 GGA-C-C
* * * * * *
23028260 GAAG-CTAGT-A-ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATC
1 GAAGAAT-TTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGAATCCTATC
*
23028322 TCTCTGAAGA-TACAGTAGAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGG
64 TCCCTG-AGATTACAGTAGAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGG
23028386 ACC
128 ACC
* * *
23028389 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCT
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGAATCCTATCT
*
23028454 CTCTGA-AGTTACAGTAGAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGGA
65 CCCTGAGA-TTACAGTAGAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGGA
23028518 CC
129 CC
**
23028520 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AGTAATCCTATC
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-AATCCTATC
23028584 TCCCTGAGATTACAGT
64 TCCCTGAGATTACAGT
23028600 GGAGCGGATT
Statistics
Matches: 295, Mismatches: 31, Indels: 31
0.83 0.09 0.09
Matches are distributed among these distances:
129 28 0.09
130 7 0.02
131 187 0.63
132 61 0.21
133 7 0.02
134 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (130 bp):
GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAGAATCCTATCTC
CCTGAGATTACAGTAGAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGGACC
Found at i:23028713 original size:174 final size:174
Alignment explanation
Indices: 23028405--23028732 Score: 541
Period size: 174 Copynumber: 1.9 Consensus size: 174
23028395 TTTCAGATCT
* *
23028405 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTA-CTCTCTAAAGTTACAGCA
* * * * *
23028470 GAGTAGATCGCATTAGGTCTTTTCTCCCTGAGATTATAGTGGAATGGACCGAAGAATTTCAGATC
65 GAGCAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATC
23028535 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCC
130 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCC
23028580 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTA-TCTCTAAAGTTACAGCAG
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTACTCTCTAAAGTTACAGCAG
** *
23028644 AGCAGAATCGTGTCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGGTC
66 AGCAG-ATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATC
23028709 TTATCTCCCTGAGATTACAGTGGA
130 TTATCTCCCTGAGATTACAGTGGA
23028733 ATAGACCGAA
Statistics
Matches: 142, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
173 20 0.14
174 76 0.54
175 46 0.32
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (174 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTACTCTCTAAAGTTACAGCAG
AGCAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCT
TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCC
Found at i:23028822 original size:92 final size:92
Alignment explanation
Indices: 23028656--23028825 Score: 252
Period size: 92 Copynumber: 1.8 Consensus size: 92
23028646 CAGAATCGTG
* ** * *
23028656 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGGTCTTATCTCCCTGA
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATGTCAGACCTTATCCCCCGGA
*
23028721 GATTACAGTGGAATAGACCGAAGAATT
66 GAGTACAGTGGAATAGACCGAAGAATT
23028748 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATGTCAGACCTTACTCCCCCGG
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATGTCAGACCTTA-TCCCCCGG
* *
23028813 CG-GTGCAGTGGAA
65 AGAGTACAGTGGAA
23028826 CAGATTAAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 62 0.90
93 7 0.10
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (92 bp):
TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATGTCAGACCTTATCCCCCGGA
GAGTACAGTGGAATAGACCGAAGAATT
Found at i:23028825 original size:46 final size:46
Alignment explanation
Indices: 23028656--23028797 Score: 275
Period size: 46 Copynumber: 3.1 Consensus size: 46
23028646 CAGAATCGTG
23028656 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
23028702 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
*
23028748 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATG
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
23028794 TCAG
1 TCAG
23028798 ACCTTACTCC
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (46 bp):
TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
Found at i:23028974 original size:100 final size:100
Alignment explanation
Indices: 23028801--23028984 Score: 260
Period size: 100 Copynumber: 1.8 Consensus size: 100
23028791 ATGTCAGACC
* * * *
23028801 TTACTCCCCCGGCGGTGCAGTGGAACAGATTAAAGTCACAACGGTGAATCTTGCTTCCCTGACAT
1 TTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
**
23028866 TGCAGTTAAGAAGATTAAAACTACTACAGTGAATT
66 CACAGTTAAGAAGATTAAAACTACTACAGTGAATT
* * * * *
23028901 TTACTTCCCAGGCGGTGCAGTGGAATAGATTGAAGCCGCAATGGCGAATCTTGCTTCCCCGACAT
1 TTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
*
23028966 CACAGTTAAGTAGATTAAA
66 CACAGTTAAGAAGATTAAA
23028985 GTTACGAGTT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 72 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (100 bp):
TTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
CACAGTTAAGAAGATTAAAACTACTACAGTGAATT
Found at i:23032144 original size:43 final size:43
Alignment explanation
Indices: 23032097--23032182 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
23032087 TATGTGATTG
23032097 ATATTGAAATGGA-AAAAATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAAT-GACAAAAATGAGAAATGAATATGAGATGAGAAA
* *
23032140 ATATTGAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGACAAAAATGAGAAATGAATATGAGATGAGAAA
23032183 TGAAATATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 2 0.05
43 38 0.95
ACGTcount: A:0.53, C:0.01, G:0.22, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGACAAAAATGAGAAATGAATATGAGATGAGAAA
Found at i:23041204 original size:24 final size:24
Alignment explanation
Indices: 23041172--23041217 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
23041162 ATAAACTTAA
23041172 ATGAAATGTCAAGAGTTATGTTAT
1 ATGAAATGTCAAGAGTTATGTTAT
23041196 ATGAAATGTCAAGAGTTATGTT
1 ATGAAATGTCAAGAGTTATGTT
23041218 TTAATGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (24 bp):
ATGAAATGTCAAGAGTTATGTTAT
Found at i:23048630 original size:29 final size:29
Alignment explanation
Indices: 23048597--23048655 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
23048587 AAGGTTGGGA
23048597 GTTAGAATGGTATACAAAATGCATGCTAT
1 GTTAGAATGGTATACAAAATGCATGCTAT
23048626 GTTAGAATGGTATACAAAATGCATGCTAT
1 GTTAGAATGGTATACAAAATGCATGCTAT
23048655 G
1 G
23048656 AAATGTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (29 bp):
GTTAGAATGGTATACAAAATGCATGCTAT
Found at i:23053829 original size:28 final size:27
Alignment explanation
Indices: 23053798--23053892 Score: 113
Period size: 28 Copynumber: 3.4 Consensus size: 27
23053788 CAATTTCGAT
23053798 TAGTTGGGTGACCAAAAAAAATGGGCAA
1 TAGTTGGGTGACCAAAAAAAA-GGGCAA
**
23053826 TAGTTGGGTGACCAAATTAAAAAAATG--A
1 TAGTTGGGTGACC-AA--AAAAAAGGGCAA
*
23053854 TAGTTGGGTGACCAATAAAAAGGGCAA
1 TAGTTGGGTGACCAAAAAAAAGGGCAA
23053881 TAGTTGGGTGAC
1 TAGTTGGGTGAC
23053893 ATGTGGTATA
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
25 6 0.11
27 15 0.26
28 27 0.47
29 2 0.04
30 1 0.02
31 6 0.11
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.22
Consensus pattern (27 bp):
TAGTTGGGTGACCAAAAAAAAGGGCAA
Found at i:23059103 original size:30 final size:30
Alignment explanation
Indices: 23059069--23059132 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
23059059 TTTCTCCAAA
*
23059069 ATGGAGAAATGGAATCATTTGGGAAAGAAT
1 ATGGAGAAATGGAATCATTCGGGAAAGAAT
*
23059099 ATGGAGAAATGGAATCATTCGGGAATGAAT
1 ATGGAGAAATGGAATCATTCGGGAAAGAAT
23059129 ATGG
1 ATGG
23059133 TTTTCTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.41, C:0.05, G:0.31, T:0.23
Consensus pattern (30 bp):
ATGGAGAAATGGAATCATTCGGGAAAGAAT
Found at i:23066661 original size:5 final size:5
Alignment explanation
Indices: 23066651--23066741 Score: 60
Period size: 6 Copynumber: 17.2 Consensus size: 5
23066641 AAAGAAGTAC
* *
23066651 AATAA AATAAA AATAA AACAA AAT-A ACTAAA AATAAA AATAAA AATAA
1 AATAA AAT-AA AATAA AATAA AATAA AAT-AA AAT-AA AAT-AA AATAA
* * *
23066699 ACATAA AATTAA ATTAA ATTAAA AATAA AA-CA AATAA AATAA A
1 A-ATAA AA-TAA AATAA AAT-AA AATAA AATAA AATAA AATAA A
23066742 TTATCCTCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
4 6 0.08
5 32 0.45
6 33 0.46
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:23066665 original size:6 final size:6
Alignment explanation
Indices: 23066654--23066728 Score: 66
Period size: 6 Copynumber: 12.5 Consensus size: 6
23066644 GAAGTACAAT
*
23066654 AAAATA AAAATA AAACA-A AATAACTA AAAATA AAAATA AAAATA AACAT-
1 AAAATA AAAATA AAA-ATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA
* * *
23066703 AAAAT- TAAATT AAATTA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
23066729 CAAATAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 8 0.14
6 42 0.74
7 4 0.07
8 3 0.05
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:23068210 original size:16 final size:15
Alignment explanation
Indices: 23068189--23068220 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
23068179 AACTACTAAG
23068189 AAATAATAAGAAAGAA
1 AAATAATAAG-AAGAA
23068205 AAATAATAAGAAGAA
1 AAATAATAAGAAGAA
23068220 A
1 A
23068221 CGAAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAATAATAAGAAGAA
Found at i:23073080 original size:44 final size:44
Alignment explanation
Indices: 23073030--23073119 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
23073020 ATGTAAATCA
23073030 GAAATCAAATAATAAGATTCATCATAGGTTTCATCTTCCCTAGG
1 GAAATCAAATAATAAGATTCATCATAGGTTTCATCTTCCCTAGG
23073074 GAAATCAAATAATAAGATTCATCATAGGTTTCATCTTCCCTAGG
1 GAAATCAAATAATAAGATTCATCATAGGTTTCATCTTCCCTAGG
23073118 GA
1 GA
23073120 TCTAGGGAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (44 bp):
GAAATCAAATAATAAGATTCATCATAGGTTTCATCTTCCCTAGG
Done.