Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 83 of 444
Found at i:19622800 original size:44 final size:44
Alignment explanation
Indices: 19622732--19622823 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
19622722 CCGAAGCAAC
*
19622732 AGTAATAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
1 AGTAACAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
** * *
19622776 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
19622820 AGTA
1 AGTA
19622824 TTCCTGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
Found at i:19623628 original size:13 final size:13
Alignment explanation
Indices: 19623612--19623637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19623602 CTATTTCTCC
19623612 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
19623625 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
19623638 CTTCTTTCCC
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTCTTT
Found at i:19624133 original size:26 final size:23
Alignment explanation
Indices: 19624073--19624124 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
19624063 AATCTTATAA
*
19624073 TATTATATAATTATAATAAATATC
1 TATT-TATAATAATAATAAATATC
19624097 TATTTA-AATAATAATAAATATC
1 TATTTATAATAATAATAAATATC
19624119 TATTTA
1 TATTTA
19624125 CTTTAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 2 0.07
24 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTTATAATAATAATAAATATC
Found at i:19624239 original size:3 final size:3
Alignment explanation
Indices: 19624231--19624296 Score: 75
Period size: 3 Copynumber: 22.3 Consensus size: 3
19624221 ATTTTATTTC
19624231 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATTCA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA
* *
19624276 TTA ATA ACA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
19624297 GATATGCTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 5 0.09
3 45 0.83
4 2 0.04
5 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:19624886 original size:8 final size:7
Alignment explanation
Indices: 19624873--19624921 Score: 50
Period size: 8 Copynumber: 7.0 Consensus size: 7
19624863 ATCCAAACAA
19624873 AATAAAGT
1 AATAAA-T
19624881 AATAAAT
1 AATAAAT
19624888 AATAAAAT
1 AAT-AAAT
19624896 AATAAAAT
1 AAT-AAAT
19624904 AA-AAAT
1 AATAAAT
19624910 AA-AAAT
1 AATAAAT
19624916 AA-AAAT
1 AATAAAT
19624922 TGGGTTGCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 16 0.40
7 4 0.10
8 20 0.50
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (7 bp):
AATAAAT
Found at i:19624896 original size:12 final size:13
Alignment explanation
Indices: 19624871--19624918 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 13
19624861 ATATCCAAAC
19624871 AAAATAAAGTAATA
1 AAAATAAA-TAATA
19624885 AATAATAAAATAAT-
1 AA-AAT-AAATAATA
19624899 AAAATAAA-AATA
1 AAAATAAATAATA
19624911 AAAATAAA
1 AAAATAAA
19624919 AATTGGGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 3 0.10
12 11 0.35
13 3 0.10
14 4 0.13
15 7 0.23
16 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (13 bp):
AAAATAAATAATA
Found at i:19624896 original size:20 final size:19
Alignment explanation
Indices: 19624871--19624920 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
19624861 ATATCCAAAC
*
19624871 AAAATAAAGTAATAAATAAT-
1 AAAATAAA-AAATAAA-AATA
19624891 AAAATAATAAAATAAAAATA
1 AAAATAA-AAAATAAAAATA
19624911 AAAATAAAAA
1 AAAATAAAAA
19624921 TTGGGTTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 6 0.22
20 20 0.74
21 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAATAAAAATA
Found at i:19629059 original size:23 final size:22
Alignment explanation
Indices: 19629010--19629073 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
19629000 CCTGATCAGT
*
19629010 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
19629032 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
19629054 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
19629074 GATCGATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:19629074 original size:23 final size:23
Alignment explanation
Indices: 19629010--19629075 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
19629000 CCTGATCAGT
19629010 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
19629032 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
19629054 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
19629076 TCGATAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:19629472 original size:15 final size:15
Alignment explanation
Indices: 19629447--19629504 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
19629437 TCATATATAT
19629447 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
19629463 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
19629478 AATAATTTCAATCAA
1 TATAAATTCAATCAA
19629493 TATAAATTCAAT
1 TATAAATTCAAT
19629505 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:19630783 original size:5 final size:5
Alignment explanation
Indices: 19630775--19630801 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19630765 TCTTTAGTTT
19630775 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
19630802 TAAACCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:19630837 original size:8 final size:8
Alignment explanation
Indices: 19630824--19630852 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
19630814 TATCTTTATT
19630824 ATATAATA
1 ATATAATA
19630832 ATATAATA
1 ATATAATA
19630840 ATATAATA
1 ATATAATA
19630848 ATATA
1 ATATA
19630853 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:19633468 original size:14 final size:14
Alignment explanation
Indices: 19633449--19633478 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19633439 GATTCCAGCC
19633449 TCCGGTTGCCTCGA
1 TCCGGTTGCCTCGA
19633463 TCCGGTTGCCTCGA
1 TCCGGTTGCCTCGA
19633477 TC
1 TC
19633479 TGCCTTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.37, G:0.27, T:0.30
Consensus pattern (14 bp):
TCCGGTTGCCTCGA
Found at i:19634119 original size:10 final size:10
Alignment explanation
Indices: 19634092--19634149 Score: 73
Period size: 10 Copynumber: 5.8 Consensus size: 10
19634082 TTAAATTCTA
19634092 AAAGATAAAT
1 AAAGATAAAT
*
19634102 ACAA-ATAATT
1 A-AAGATAAAT
*
19634112 AAAGATAATT
1 AAAGATAAAT
19634122 AAAGATAAAT
1 AAAGATAAAT
*
19634132 AAGGATAAAT
1 AAAGATAAAT
19634142 AAAGATAA
1 AAAGATAA
19634150 GAGCTAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 38 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:19634128 original size:30 final size:30
Alignment explanation
Indices: 19634092--19634149 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
19634082 TTAAATTCTA
*
19634092 AAAGATAAATACA-AATAATTAAAGATAATT
1 AAAGATAAATA-AGAATAAATAAAGATAATT
*
19634122 AAAGATAAATAAGGATAAATAAAGATAA
1 AAAGATAAATAAGAATAAATAAAGATAA
19634150 GAGCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (30 bp):
AAAGATAAATAAGAATAAATAAAGATAATT
Found at i:19637327 original size:23 final size:23
Alignment explanation
Indices: 19637300--19637346 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
19637290 GACATATTAC
*
19637300 ATATATAAATAATTATATTTATTTT
1 ATATATAAA-AATTA-ATATATTTT
19637325 ATATATAAAAATTAATATATTT
1 ATATATAAAAATTAATATATTT
19637347 ATTTCTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
25 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATATAAAAATTAATATATTTT
Found at i:19643136 original size:11 final size:11
Alignment explanation
Indices: 19643114--19643143 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
19643104 TTATTATTTT
19643114 AAATTATTTTAG
1 AAATT-TTTTAG
19643126 AAATTTTTTAG
1 AAATTTTTTAG
19643137 AAATTTT
1 AAATTTT
19643144 AAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
AAATTTTTTAG
Found at i:19643827 original size:21 final size:21
Alignment explanation
Indices: 19643779--19643827 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
19643769 CTCTACTATT
* * *
19643779 TCCGCATTGGTTTTGTCCAAC
1 TCCGCCTTGGTTCTGGCCAAC
* *
19643800 TCAGCCTTGGTTCTGGCCACC
1 TCCGCCTTGGTTCTGGCCAAC
19643821 TCCGCCT
1 TCCGCCT
19643828 GGAGTGCATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.10, C:0.37, G:0.20, T:0.33
Consensus pattern (21 bp):
TCCGCCTTGGTTCTGGCCAAC
Found at i:19647400 original size:44 final size:44
Alignment explanation
Indices: 19647343--19647428 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
19647333 TGCATTAAAA
19647343 ACTATACATTAGAAATAACTACAAGCAGCAGCAGATTGATTAAT
1 ACTATACATTAGAAATAACTACAAGCAGCAGCAGATTGATTAAT
19647387 ACTATACATTAGAAATAACTACAAGCAGCAGCAGATTGATTA
1 ACTATACATTAGAAATAACTACAAGCAGCAGCAGATTGATTA
19647429 TTAATGAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.24
Consensus pattern (44 bp):
ACTATACATTAGAAATAACTACAAGCAGCAGCAGATTGATTAAT
Found at i:19655697 original size:19 final size:18
Alignment explanation
Indices: 19655645--19655697 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
19655635 TTTTTGTTAC
19655645 TCGTTTAAAAAATAATTTG
1 TCGTTT-AAAAATAATTTG
**
19655664 TCG--TAATGATAATTTG
1 TCGTTTAAAAATAATTTG
19655680 TCGTTTAAAAAGTAATTT
1 TCGTTTAAAAA-TAATTT
19655698 TAAATTTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 13 0.48
17 1 0.04
18 4 0.15
19 9 0.33
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (18 bp):
TCGTTTAAAAATAATTTG
Found at i:19656515 original size:20 final size:19
Alignment explanation
Indices: 19656486--19656523 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19656476 AAAATTATCC
19656486 TTTTTAAATTTTTAATAAAA
1 TTTTTAAATTTTT-ATAAAA
*
19656506 TTTTTGAATTTTTATAAA
1 TTTTTAAATTTTTATAAA
19656524 GAACATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTAAATTTTTATAAAA
Found at i:19658160 original size:48 final size:48
Alignment explanation
Indices: 19658108--19658205 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
19658098 TCATCTGCTC
19658108 TTTATTTTTGGCATTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
1 TTTATTTTTGGCATTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
*
19658156 TTTATTTTTGGCGTTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
1 TTTATTTTTGGCATTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
19658204 TT
1 TT
19658206 AAGTTTACTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.49
Consensus pattern (48 bp):
TTTATTTTTGGCATTTTTGGACAGTGAGTTACATGGTAAAGAATTTTT
Found at i:19663276 original size:90 final size:90
Alignment explanation
Indices: 19663106--19663276 Score: 211
Period size: 90 Copynumber: 1.9 Consensus size: 90
19663096 GTTATGGTTA
* * *
19663106 AACCACAAAAGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGCATAACAGATTTGCCGATA
1 AACCACAAAAGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATACACAACAGATTTGCAGATA
** *
19663171 AAAGCTGTCAGATAATGGGTGGGTG
66 AAAGCTACCAAATAATGGGTGGGTG
* * *
19663196 AACCACCAAAGTTGTAGGTTAATATGA-TGCCAGATGGTTGTGAATACACAAC-GTGTTTGCAGA
1 AACCACAAAAGTTGTAGGTTAATA-CACTGCCAGATGGTTGTGAATACACAACAG-ATTTGCAGA
* *
19663259 TAATAGTTACCAAATAAT
64 TAAAAGCTACCAAATAAT
19663277 CTGTGGATAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 1 0.01
90 66 0.97
91 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (90 bp):
AACCACAAAAGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATACACAACAGATTTGCAGATA
AAAGCTACCAAATAATGGGTGGGTG
Found at i:19665975 original size:25 final size:26
Alignment explanation
Indices: 19665928--19666000 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
19665918 TATTATCCCT
* *
19665928 ATTTTACCCCCAGCAAAATTTTA-AAG
1 ATTTTACCCCTAGTAAAA-TTTAGAAG
*
19665954 ATTTTACCCCTAGTAAAATTTAGACG
1 ATTTTACCCCTAGTAAAATTTAGAAG
* *
19665980 ATTTTGCCCCTGGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
19666001 TGAGAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
25 4 0.10
26 37 0.90
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTAGAAG
Found at i:19666152 original size:6 final size:6
Alignment explanation
Indices: 19666141--19666174 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
19666131 AGGATTGCAA
*
19666141 ATTTCC ATTTCC ATTTTC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
19666175 TTGGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:19666164 original size:18 final size:18
Alignment explanation
Indices: 19666141--19666175 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19666131 AGGATTGCAA
19666141 ATTTCCATTTCCATTTTC
1 ATTTCCATTTCCATTTTC
19666159 ATTTCCATTTCCATTTT
1 ATTTCCATTTCCATTTT
19666176 TGGAAACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTC
Found at i:19670836 original size:21 final size:21
Alignment explanation
Indices: 19670812--19670853 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
19670802 GGTACCTGGT
19670812 AAAAGGTATTGATACTTTTTG
1 AAAAGGTATTGATACTTTTTG
*
19670833 AAAAGGTGTTGATACTTTTTG
1 AAAAGGTATTGATACTTTTTG
19670854 TAATTGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAAAGGTATTGATACTTTTTG
Found at i:19671498 original size:17 final size:17
Alignment explanation
Indices: 19671478--19671512 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
19671468 CAATCACATA
19671478 GAATTTGCATTAGTGAT
1 GAATTTGCATTAGTGAT
19671495 GAATTTGCATTAGTGAT
1 GAATTTGCATTAGTGAT
19671512 G
1 G
19671513 TTCTTCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.40
Consensus pattern (17 bp):
GAATTTGCATTAGTGAT
Found at i:19675101 original size:22 final size:22
Alignment explanation
Indices: 19675049--19675101 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
19675039 TAATTTTGCT
*
19675049 ATTACATGTGACTAATAATTAA
1 ATTAAATGTGACTAATAATTAA
19675071 A-T-AATGTGACTAATAA-TAA
1 ATTAAATGTGACTAATAATTAA
19675090 GATTAAATGTGA
1 -ATTAAATGTGA
19675102 TATTATAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 2 0.07
22 8 0.30
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (22 bp):
ATTAAATGTGACTAATAATTAA
Found at i:19681166 original size:33 final size:34
Alignment explanation
Indices: 19681050--19681165 Score: 137
Period size: 34 Copynumber: 3.4 Consensus size: 34
19681040 CATCGTCATG
*
19681050 CCAACCAACACACCAGATGCTCA-CACTAGCCAAT
1 CCAACCAACACACCAGATGCTCATCAC-AGCTAAT
** * * *
19681084 CCCTCCAACACACTAGATGCTCATAAGAGCTAAT
1 CCAACCAACACACCAGATGCTCATCACAGCTAAT
* *
19681118 CCAACCAACACACCA-ATACTCATCACAACTAAT
1 CCAACCAACACACCAGATGCTCATCACAGCTAAT
19681151 CCAACCAACACACCA
1 CCAACCAACACACCA
19681166 AACAAAGAGT
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
33 29 0.43
34 38 0.56
35 1 0.01
ACGTcount: A:0.41, C:0.40, G:0.06, T:0.14
Consensus pattern (34 bp):
CCAACCAACACACCAGATGCTCATCACAGCTAAT
Found at i:19684229 original size:6 final size:6
Alignment explanation
Indices: 19684218--19684254 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
19684208 AACCAAACAG
19684218 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
19684255 GAAAGGAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:19685001 original size:13 final size:13
Alignment explanation
Indices: 19684983--19685007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19684973 ATTGAATTGG
19684983 TATATATATTGAA
1 TATATATATTGAA
19684996 TATATATATTGA
1 TATATATATTGA
19685008 TTATTTGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TATATATATTGAA
Found at i:19687686 original size:10 final size:11
Alignment explanation
Indices: 19687667--19687699 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19687657 TTGATATGTT
19687667 AATGAAGAGAA
1 AATGAAGAGAA
19687678 AAT-AAGAGAA
1 AATGAAGAGAA
*
19687688 AGTGAAGAGAA
1 AATGAAGAGAA
19687699 A
1 A
19687700 TAGTGTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:19689453 original size:46 final size:46
Alignment explanation
Indices: 19689405--19689617 Score: 302
Period size: 46 Copynumber: 4.6 Consensus size: 46
19689395 GCTCTCTGAT
** * *
19689405 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
19689451 ATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
19689497 GGGAAATGAATAAGACCATGGTTGAAAGATACCGTGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
19689543 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
19689589 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
19689618 CACTATGACA
Statistics
Matches: 148, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 147 0.99
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:19689564 original size:92 final size:92
Alignment explanation
Indices: 19689415--19689617 Score: 343
Period size: 92 Copynumber: 2.2 Consensus size: 92
19689405 ATGAAATGTG
* *
19689415 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAACGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
* *
19689480 TACCATGGCAACATGACGGGAAATGAA
66 TACCATGGCAACATGACAGAAAATGAA
*
19689507 TAAGACCATGGTTGAAAGATACCGTGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
*
19689572 TACCATGGCAACATGACAGAAAATGAG
66 TACCATGGCAACATGACAGAAAATGAA
*
19689599 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
19689618 CACTATGACA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 104 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAA
Found at i:19694278 original size:2 final size:2
Alignment explanation
Indices: 19694271--19694309 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19694261 AATTGCTCCA
19694271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19694310 AAACCAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19696555 original size:35 final size:35
Alignment explanation
Indices: 19696528--19696693 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
19696518 CATGGCAAAG
*
19696528 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
19696563 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
19696598 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
19696638 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
19696673 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
19696694 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:19696647 original size:75 final size:75
Alignment explanation
Indices: 19696528--19696698 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
19696518 CATGGCAAAG
** *
19696528 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
19696587 CCATACTGAGC
65 CCATACCGAGC
19696598 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
19696663 CATACCGAGT
66 CATACCGAGC
**
19696673 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
19696699 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:19704163 original size:74 final size:75
Alignment explanation
Indices: 19704015--19704180 Score: 204
Period size: 74 Copynumber: 2.3 Consensus size: 75
19704005 GCAAAGTGTG
** *
19704015 AAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCCATA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
* **
19704075 CTGAGCTGTG
66 CCGAGCTGAA
19704085 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAATGTAGGTATGGCATT-TCCCAT
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTAT-CCAT
*
19704148 ACCGAGTTGAA
65 ACCGAGCTGAA
19704159 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGGTATTATCAA
19704181 TGAGGAAAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
70 14 0.17
73 9 0.11
74 46 0.55
75 14 0.17
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
CCGAGCTGAA
Found at i:19704178 original size:35 final size:35
Alignment explanation
Indices: 19704015--19704178 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
19704005 GCAAAGTGTG
* **
19704015 AAATGTAGGTATGGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCCATACTGAGTTGAA
* **
19704050 AAATGTAGGTATGGTATTAT-CCATACTGAGCTGTG
1 AAATGTAGGTATGGTATT-TCCCATACTGAGTTGAA
19704085 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTATT-TC----CCATACTGAGTTGAA
* *
19704124 AAATGTAGGTATGGCATTTCCCATACCGAGTTGAA
1 AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
19704159 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGTATTTC
19704179 AATGAGGAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
34 11 0.10
35 73 0.64
38 2 0.02
39 17 0.15
40 11 0.10
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.34
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
Found at i:19707491 original size:15 final size:15
Alignment explanation
Indices: 19707471--19707513 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
19707461 ATTTTTAAAA
*
19707471 AATGATAGTAATAGT
1 AATGATAATAATAGT
*
19707486 AATGATAATAATATT
1 AATGATAATAATAGT
*
19707501 AATGGTAATAATA
1 AATGATAATAATA
19707514 CAAGTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (15 bp):
AATGATAATAATAGT
Found at i:19707646 original size:3 final size:3
Alignment explanation
Indices: 19707634--19708036 Score: 109
Period size: 3 Copynumber: 134.7 Consensus size: 3
19707624 ATAGGTAAAA
*
19707634 AAT AAT -AT AAT AAT AAT AAT -AT AAT AGT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
19707679 AAT AGT AGT AAT ATT AAT AA- AAGT -AT AAT AGT AAT GAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
** * * *
19707723 AAT AAT -AT AA- AA- AAT -AT AGC AAT AGT AA- AAT AAT GAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
19707766 ACAT AA- ATAT AAAT AGAG ATAT AAT ACCT AA- AAT -AT AAT AAT AAC
1 A-AT AAT A-AT -AAT A-AT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT
* *
19707811 AA- AAT -AT AAAT AGAT AAG AA- ATAT AAAT AGAT AAAT AAA AACT AGAT
1 AAT AAT AAT -AAT A-AT AAT AAT A-AT -AAT A-AT -AAT AAT AA-T A-AT
* *
19707858 AAAT AAT AAG AA- AAT AA- ATAT AGAT GAA- AAT -AT AAT AAT AGT AAT
1 -AAT AAT AAT AAT AAT AAT A-AT A-AT -AAT AAT AAT AAT AAT AAT AAT
* * * * *
19707903 AAT -AC AAT AGT AGT AAT AAT AAT AAA AAGGT AAT AAT AAT -AT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT
* * * * * * * *
19707948 AAAT AGT AA- AAA AAT AGT AAC AGT AATT AA- AAA AAT GAT AAT AGT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* *
19707993 AAT AAT AAT AAT AAT AAT AAT -AT AAAT AAT AGT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
19708037 AATTAACTAA
Statistics
Matches: 293, Mismatches: 61, Indels: 92
0.66 0.14 0.21
Matches are distributed among these distances:
2 45 0.15
3 203 0.69
4 37 0.13
5 8 0.03
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:19707664 original size:17 final size:17
Alignment explanation
Indices: 19707644--19708035 Score: 86
Period size: 17 Copynumber: 22.6 Consensus size: 17
19707634 AATAATATAA
19707644 TAATAATAATATAATAG
1 TAATAATAATATAATAG
19707661 TAATAAT-A-ATAATA-
1 TAATAATAATATAATAG
* *
19707675 TAATAATAGTAGTAATAT
1 TAATAATAATA-TAATAG
19707693 TAATAA-AAGTATAATAG
1 TAATAATAA-TATAATAG
* * *
19707710 TAATGATAATAACAATAA
1 TAATAATAAT-ATAATAG
*
19707728 T-ATAAAAAATATAGCAATAG
1 TAAT-AATAATAT---AATAG
19707748 TAA-AATAATGAT-AT--
1 TAATAATAAT-ATAATAG
19707762 TAATACATAAATATAAATAG
1 TAATA-AT-AATAT-AATAG
* * *
19707782 AGATATAATACCTAAAATA-
1 -TA-ATAATA-ATATAATAG
* *
19707801 TAATAATAACAAAATA-
1 TAATAATAATATAATAG
*
19707817 TAAATAGATAAGA-AATA-
1 T-AATA-ATAATATAATAG
19707834 TAAATAGATAA-ATAA-A-
1 T-AATA-ATAATATAATAG
19707850 -AACTAGATAA-ATAATAAG
1 TAA-TA-ATAATATAAT-AG
19707868 -AA-AATAA-AT-ATAG
1 TAATAATAATATAATAG
19707881 ATGAA-AAT-ATAATAATAG
1 -T-AATAATAAT-ATAATAG
*
19707899 TAATAATACA-ATAGTAG
1 TAATAATA-ATATAATAG
*
19707916 TAATAATAATA-AAAAGG
1 TAATAATAATATAATA-G
19707933 TAATAATAATATATTAAATAG
1 TAATAAT-A-ATA-T-AATAG
* *
19707954 TAA-AAAAATAGTAACAG
1 TAATAATAATA-TAATAG
*
19707971 TAATTAAAAAAATGATAATAG
1 TAA-T--AATAAT-ATAATAG
*
19707992 TAATAATAATAATAATAA
1 TAATAATAAT-ATAATAG
19708010 TAAT-ATAA-ATAATAG
1 TAATAATAATATAATAG
*
19708025 TAAAAATAATA
1 TAATAATAATA
19708036 AAATTAACTA
Statistics
Matches: 291, Mismatches: 31, Indels: 106
0.68 0.07 0.25
Matches are distributed among these distances:
13 2 0.01
14 14 0.05
15 34 0.12
16 32 0.11
17 99 0.34
18 54 0.19
19 10 0.03
20 15 0.05
21 24 0.08
22 7 0.02
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (17 bp):
TAATAATAATATAATAG
Found at i:19707687 original size:26 final size:26
Alignment explanation
Indices: 19707636--19707732 Score: 92
Period size: 26 Copynumber: 3.7 Consensus size: 26
19707626 AGGTAAAAAA
*
19707636 TAAT-ATAATAATAATAAT-ATAATAG
1 TAATAATAATAAT-ATAATAATAGTAG
19707661 TAATAATAATAATATAATAATAGTAG
1 TAATAATAATAATATAATAATAGTAG
* *
19707687 TAATATTAATAAAAGT-ATAATAGTAATG
1 TAATAATAATAATA-TAATAATAGT-A-G
*
19707715 ATAATAACAATAATATAA
1 -TAATAATAATAATATAA
19707733 AAAATATAGC
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
25 9 0.15
26 34 0.58
27 2 0.03
28 2 0.03
29 12 0.20
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (26 bp):
TAATAATAATAATATAATAATAGTAG
Found at i:19707866 original size:57 final size:58
Alignment explanation
Indices: 19707770--19707892 Score: 144
Period size: 57 Copynumber: 2.1 Consensus size: 58
19707760 ATTAATACAT
* * *
19707770 AAATATAAATAGAGATATAATACCTAAAATATAATAATAACAAAATATAA-ATAGATAA
1 AAATATAAATAGAGAAATAAAAACTAAAATATAATAATAACAAAATA-AATATAGATAA
* * * *
19707828 GAAATATAAATAGATAAATAAAAACT-AGATA-AATAATAAGAAAATAAATATAGATGA
1 -AAATATAAATAGAGAAATAAAAACTAAAATATAATAATAACAAAATAAATATAGATAA
19707885 AAATATAA
1 AAATATAA
19707893 TAATAGTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
56 10 0.18
57 21 0.38
58 4 0.07
59 21 0.38
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.24
Consensus pattern (58 bp):
AAATATAAATAGAGAAATAAAAACTAAAATATAATAATAACAAAATAAATATAGATAA
Found at i:19710830 original size:55 final size:55
Alignment explanation
Indices: 19710731--19710973 Score: 253
Period size: 55 Copynumber: 4.4 Consensus size: 55
19710721 GGTGCCAGAG
* * *
19710731 ATTAGAAGACCAGCA-AAAAAAAAATTTCCTAATATTTTTGTACTGGTGCCGACC
1 ATTAGAAGGCCAGCACAAAAAAAAAATTCCTAATATTTTTGTACTGGTGCCGGCC
19710785 ATTAGAAGGCCAGCACAAAAAAAAAATTCCTAATATTTTTGTACTGGTGCCGGCC
1 ATTAGAAGGCCAGCACAAAAAAAAAATTCCTAATATTTTTGTACTGGTGCCGGCC
** ** * * * *
19710840 ATTAGAAAACCAGCAC--TCAAAAAATT-TTGAATTTTTTTTTACTACAGTGGTGCCGGTC
1 ATTAGAAGGCCAGCACAAAAAAAAAATTCCT-AA--TATTTTT-GTAC--TGGTGCCGGCC
* * *
19710898 ATTAGAAGGTCAGCACCAAAAAAAAAA-TCCTGATATTTTTGTACTGGTGTCGGCC
1 ATTAGAAGGCCAGCA-CAAAAAAAAAATTCCTAATATTTTTGTACTGGTGCCGGCC
*
19710953 ATTAGAAGGCCAGCACCAAAA
1 ATTAGAAGGCCAGCACAAAAA
19710974 TTTTTTTTCA
Statistics
Matches: 154, Mismatches: 24, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
52 1 0.01
53 10 0.06
54 19 0.12
55 80 0.52
56 3 0.02
57 3 0.02
58 28 0.18
59 1 0.01
60 2 0.01
61 7 0.05
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (55 bp):
ATTAGAAGGCCAGCACAAAAAAAAAATTCCTAATATTTTTGTACTGGTGCCGGCC
Found at i:19710904 original size:167 final size:163
Alignment explanation
Indices: 19710609--19710973 Score: 437
Period size: 167 Copynumber: 2.2 Consensus size: 163
19710599 TTTTACTAGT
** *
19710609 CTGGTGCC-AGCCATTAGAAGGCCAGCACCAAAAAAAATTTTCCTGATATTTTTGTACTAGAGCC
1 CTGGTGCCGA-CCATTAGAAGGCCAGCA-CAAAAAAAAAATTCCTAATATTTTTGTACTAGAGCC
* * ** *
19710673 GGTTGAAGACTAGCACCCAAAAAATTTTGAAAATTTTTTTACGAGTGTGGTGCCAGAGATTAGAA
64 GGTTGAAAACCAGCACCCAAAAAATTTTGAAAATTTTTTTACGACAGTGGTGCCAGACATTAGAA
*
19710738 GACCAGCA-AAAAAAAAATTTCCTAATATTTTTGTA
129 GACCAGCACAAAAAAAAA-ATCCTAATATTTTTGTA
* *
19710773 CTGGTGCCGACCATTAGAAGGCCAGCACAAAAAAAAAATTCCTAATATTTTTGTACTGGTGCCGG
1 CTGGTGCCGACCATTAGAAGGCCAGCACAAAAAAAAAATTCCTAATATTTTTGTACTAGAGCCGG
* ** * * *
19710838 CCATTAGAAAACCAGCACTCAAAAAATTTTGAATTTTTTTTTACTACAGTGGTGCCGGTCATTAG
66 ---TT-GAAAACCAGCACCCAAAAAATTTTGAAAATTTTTTTACGACAGTGGTGCCAGACATTAG
** *
19710903 AAGGTCAGCACCAAAAAAAAAATCCTGATATTTTTGTA
127 AAGACCAGCA-CAAAAAAAAAATCCTAATATTTTTGTA
* * *
19710941 CTGGTGTCGGCCATTAGAAGGCCAGCACCAAAA
1 CTGGTGCCGACCATTAGAAGGCCAGCACAAAAA
19710974 TTTTTTTTCA
Statistics
Matches: 171, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
163 33 0.19
164 25 0.15
165 1 0.01
166 2 0.01
167 56 0.33
168 45 0.26
169 9 0.05
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (163 bp):
CTGGTGCCGACCATTAGAAGGCCAGCACAAAAAAAAAATTCCTAATATTTTTGTACTAGAGCCGG
TTGAAAACCAGCACCCAAAAAATTTTGAAAATTTTTTTACGACAGTGGTGCCAGACATTAGAAGA
CCAGCACAAAAAAAAAATCCTAATATTTTTGTA
Found at i:19711449 original size:30 final size:30
Alignment explanation
Indices: 19711415--19711478 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
19711405 GAGAGTGTCC
*
19711415 ACTTGTCATTTTAGATATGCCAAATAACAT
1 ACTTGTCATTTTAGATATCCCAAATAACAT
19711445 ACTTGTCATTTTAGATATCCCAAATAACAT
1 ACTTGTCATTTTAGATATCCCAAATAACAT
19711475 ACTT
1 ACTT
19711479 TCCTAAATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (30 bp):
ACTTGTCATTTTAGATATCCCAAATAACAT
Found at i:19711501 original size:2 final size:2
Alignment explanation
Indices: 19711494--19711527 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19711484 AATTGCTCCA
19711494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19711528 TAAAACCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19712217 original size:29 final size:31
Alignment explanation
Indices: 19712154--19712223 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 31
19712144 TATAAAAAAG
** *
19712154 TCACTAAATTATTGTTTTTGTTCTATTTTAG
1 TCACTAAATTATTGAATTTGTTCTATTTTAA
19712185 TCACTAAATTATT-AATTT-TTCTGA-TTTAA
1 TCACTAAATTATTGAATTTGTTCT-ATTTTAA
19712214 TCACTAAATT
1 TCACTAAATT
19712224 GTTCGAGTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.51
30 4 0.11
31 13 0.37
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.53
Consensus pattern (31 bp):
TCACTAAATTATTGAATTTGTTCTATTTTAA
Found at i:19713906 original size:4 final size:4
Alignment explanation
Indices: 19713897--19713941 Score: 54
Period size: 4 Copynumber: 10.5 Consensus size: 4
19713887 GTCTTTTCTC
*
19713897 TTTA TTTA TTTTA TTTA TTTA TTATA TTTTA TTTA TTTA TCTA TT
1 TTTA TTTA -TTTA TTTA TTTA TT-TA -TTTA TTTA TTTA TTTA TT
19713942 ATTATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 26 0.72
5 8 0.22
6 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:19713924 original size:22 final size:23
Alignment explanation
Indices: 19713898--19713954 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
19713888 TCTTTTCTCT
*
19713898 TTATTTATTTTATTTATTTATTA
1 TTATTTATTTTATTTATCTATTA
19713921 -TATTT-TATTTATTTATCTATTA
1 TTATTTAT-TTTATTTATCTATTA
*
19713943 TTATTAATTTTA
1 TTATTTATTTTA
19713955 AAAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 19 0.66
23 8 0.28
24 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTTATTTTATTTATCTATTA
Found at i:19713926 original size:18 final size:17
Alignment explanation
Indices: 19713897--19713952 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 17
19713887 GTCTTTTCTC
19713897 TTTATTTATTTTATTTA
1 TTTATTTATTTTATTTA
19713914 TTTATTATATTTTATTTA
1 TTTATT-TATTTTATTTA
* *
19713932 TTTATCTATTATTATTAA
1 TTTATTTATT-TTATTTA
19713950 TTT
1 TTT
19713953 TAAAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
17 10 0.29
18 25 0.71
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:19714032 original size:21 final size:21
Alignment explanation
Indices: 19713995--19714048 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
19713985 TATTAATTAT
*
19713995 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTACTTTTTT-A
19714016 ATTTTAAATATTA-TTTTTTA
1 ATTTTAAATATTACTTTTTTA
19714036 ATATTTAAATATT
1 AT-TTTAAATATT
19714049 TTAAACTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 3 0.10
21 23 0.77
22 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTTA
Found at i:19714131 original size:14 final size:15
Alignment explanation
Indices: 19714106--19714138 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
19714096 TTAATTTGTT
19714106 TTATAATATTTTAAA
1 TTATAATATTTTAAA
19714121 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
19714135 TTAT
1 TTAT
19714139 TTTTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:19714383 original size:16 final size:16
Alignment explanation
Indices: 19714362--19714395 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19714352 ATCTTTCACT
*
19714362 TTTTTTTACTTATTTA
1 TTTTTTTAATTATTTA
*
19714378 TTTTTTTAATTTTTTA
1 TTTTTTTAATTATTTA
19714394 TT
1 TT
19714396 ATCTTTTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTAATTATTTA
Found at i:19714626 original size:18 final size:17
Alignment explanation
Indices: 19714603--19714660 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
19714593 TCAAGTTTTT
*
19714603 TAAAATTAATAATAAAAA
1 TAAAATAAATAA-AAAAA
*
19714621 TAAAATAAATAAATAAA
1 TAAAATAAATAAAAAAA
* *
19714638 TAAAGATAAAGAAAAAAT
1 TAAA-ATAAATAAAAAAA
19714656 TAAAA
1 TAAAA
19714661 AATGTCAGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 9 0.26
18 25 0.74
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
TAAAATAAATAAAAAAA
Found at i:19714735 original size:23 final size:23
Alignment explanation
Indices: 19714703--19714773 Score: 83
Period size: 22 Copynumber: 3.1 Consensus size: 23
19714693 TTAAAAAAAC
19714703 AAATTT-AAAAAATATATATTTA
1 AAATTTAAAAAAATATATATTTA
**
19714725 ATGTTTAAAAAAATA-ATATTTA
1 AAATTTAAAAAAATATATATTTA
**
19714747 AAATTTAAAAATTTATATATTATA
1 AAATTTAAAAAAATATATATT-TA
19714771 AAA
1 AAA
19714774 CGTTTCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 22 0.55
23 13 0.32
24 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (23 bp):
AAATTTAAAAAAATATATATTTA
Found at i:19714833 original size:22 final size:21
Alignment explanation
Indices: 19714803--19714844 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19714793 AAATTTTTTA
*
19714803 AAATTAATAACAAAAAATAAAT
1 AAATAAATAA-AAAAAATAAAT
*
19714825 AAATAAATAAACAAAATAAA
1 AAATAAATAAAAAAAATAAA
19714845 ATAAGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAATAAAAAAAATAAAT
Found at i:19715106 original size:32 final size:34
Alignment explanation
Indices: 19715070--19715144 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 34
19715060 CTTTTTAAAA
* *
19715070 TAAAATATTATTTTTAA-CT-TTTAAATAA-AATT
1 TAAAATATTATTTTGAATATCTTTAAA-AATAATT
*
19715102 TAAAA-A-TAGTTTGAATATCTTTAAAAATAATT
1 TAAAATATTATTTTGAATATCTTTAAAAATAATT
19715134 TAAAATATTAT
1 TAAAATATTAT
19715145 AAAATAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
30 7 0.21
31 4 0.12
32 20 0.59
33 1 0.03
34 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (34 bp):
TAAAATATTATTTTGAATATCTTTAAAAATAATT
Found at i:19715157 original size:31 final size:31
Alignment explanation
Indices: 19715122--19715241 Score: 110
Period size: 31 Copynumber: 3.9 Consensus size: 31
19715112 TTGAATATCT
19715122 TTAAA-AATAATTTAAAATATTATAAAATAAA
1 TTAAATAAT-ATTTAAAATATTATAAAATAAA
*
19715153 TTAAATAATATTTAAATTATTATAAAATAAA
1 TTAAATAATATTTAAAATATTATAAAATAAA
19715184 -TAAATTTGAA-AGTTTAAAATATT-TAAATATTAAA
1 TTAAA--T-AATA-TTTAAAATATTATAAA-A-TAAA
*
19715218 -AAAATAATATTT-AAATATT-TAAAA
1 TTAAATAATATTTAAAATATTATAAAA
19715242 AAGTAATTTC
Statistics
Matches: 78, Mismatches: 3, Indels: 18
0.79 0.03 0.18
Matches are distributed among these distances:
29 1 0.01
30 15 0.19
31 31 0.40
32 11 0.14
33 13 0.17
34 7 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (31 bp):
TTAAATAATATTTAAAATATTATAAAATAAA
Found at i:19715168 original size:21 final size:21
Alignment explanation
Indices: 19715090--19715168 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 21
19715080 TTTTTAACTT
* **
19715090 TTAAATAAAATTTAAAAATAGT
1 TTAAATAATATTT-AAAATAAA
* *
19715112 TTGAAT-ATCTTTAAAA-ATAA
1 TTAAATAATATTTAAAATA-AA
*
19715132 TTTAA-AATATTATAAAATAAA
1 TTAAATAATATT-TAAAATAAA
19715153 TTAAATAATATTTAAA
1 TTAAATAATATTTAAA
19715169 TTATTATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
19 1 0.02
20 12 0.27
21 19 0.43
22 12 0.27
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (21 bp):
TTAAATAATATTTAAAATAAA
Found at i:19715228 original size:22 final size:23
Alignment explanation
Indices: 19715201--19715248 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
19715191 GAAAGTTTAA
19715201 AATATTTAAATA-TTAAAAAAAT
1 AATATTTAAATATTTAAAAAAAT
*
19715223 AATATTTAAATATTTAAAAAAGT
1 AATATTTAAATATTTAAAAAAAT
19715246 AAT
1 AAT
19715249 TTCAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
AATATTTAAATATTTAAAAAAAT
Found at i:19715256 original size:23 final size:23
Alignment explanation
Indices: 19715201--19715258 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
19715191 GAAAGTTTAA
*
19715201 AATATTTAAATA-TTAAAAAAAT
1 AATATTAAAATATTTAAAAAAAT
* *
19715223 AATATTTAAATATTTAAAAAAGT
1 AATATTAAAATATTTAAAAAAAT
19715246 AAT-TTCAAAATAT
1 AATATT-AAAATAT
19715259 ATATTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AATATTAAAATATTTAAAAAAAT
Found at i:19715298 original size:22 final size:24
Alignment explanation
Indices: 19715253--19715301 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
19715243 AGTAATTTCA
19715253 AAATATATATTAATAAAATATTTT
1 AAATATATATTAATAAAATATTTT
*
19715277 AAATATATATT-TTAAAAT-TTTT
1 AAATATATATTAATAAAATATTTT
19715299 AAA
1 AAA
19715302 GTTAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.29
23 6 0.25
24 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATATATATTAATAAAATATTTT
Found at i:19715329 original size:13 final size:14
Alignment explanation
Indices: 19715305--19715333 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19715295 TTTTAAAGTT
19715305 AATAATAATAAATA
1 AATAATAATAAATA
19715319 AATAA-AATAAATA
1 AATAATAATAAATA
19715332 AA
1 AA
19715334 GAGAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:19717287 original size:15 final size:16
Alignment explanation
Indices: 19717257--19717287 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19717247 GTCTGTGAAG
19717257 CTATTTCATGAATGCT
1 CTATTTCATGAATGCT
19717273 CTATTTCAT-AATGCT
1 CTATTTCATGAATGCT
19717288 TGTTCGACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (16 bp):
CTATTTCATGAATGCT
Found at i:19718992 original size:30 final size:32
Alignment explanation
Indices: 19718958--19719022 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
19718948 ATGTCACATC
*
19718958 AATAAATAATTCAAAATTT-A-TAAAAATATA
1 AATAAATAAATCAAAATTTAATTAAAAATATA
*
19718988 AATAATTAAATCAAAATTTAAATTAAAAATATA
1 AATAAATAAATCAAAATTT-AATTAAAAATATA
19719021 AA
1 AA
19719023 AAAGTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 17 0.57
32 1 0.03
33 12 0.40
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (32 bp):
AATAAATAAATCAAAATTTAATTAAAAATATA
Found at i:19723747 original size:52 final size:52
Alignment explanation
Indices: 19723639--19723755 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 52
19723629 TTGGTACACT
* * * *
19723639 GATGGCCGGCACTAGAGATGTAAATTTTTTTTTTTTGGGTATTGGTCGTGTA
1 GATGGCCGGCACCAGAGATGTAAATTTTTTTTTTTTAGGTATTGGCCATGTA
* *
19723691 -ATGGCCGACACCAGAGATGTTAAA-TTTTTTTTTTTAGGTGTTGGCCATGTA
1 GATGGCCGGCACCAGAGATG-TAAATTTTTTTTTTTTAGGTATTGGCCATGTA
19723742 GATGGCCGGCACCA
1 GATGGCCGGCACCA
19723756 AGTACTTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 40 0.71
52 16 0.29
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (52 bp):
GATGGCCGGCACCAGAGATGTAAATTTTTTTTTTTTAGGTATTGGCCATGTA
Found at i:19725287 original size:6 final size:6
Alignment explanation
Indices: 19725236--19725297 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
19725226 AAGAACTTTG
* * * * *
19725236 TTTTT- TTTTTT TTTTTC TCTTTC TCTTTC TCTTTC ATTTTC ATTTTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC
19725283 TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTT
19725298 CCCTCCAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
5 10 0.20
6 35 0.71
7 4 0.08
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:19725600 original size:2 final size:2
Alignment explanation
Indices: 19725595--19725624 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19725585 TTAACTATCT
19725595 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19725625 CCATTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19736037 original size:15 final size:15
Alignment explanation
Indices: 19736019--19736064 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
19736009 CACCCACCTT
19736019 AAAAAAATGCAAAAG
1 AAAAAAATGCAAAAG
*
19736034 AAAAGAAAAG-AAAAG
1 AAAA-AAATGCAAAAG
*
19736049 AAAAGAAT-CAAAAG
1 AAAAAAATGCAAAAG
19736063 AA
1 AA
19736065 CAGAAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.35
15 13 0.50
16 4 0.15
ACGTcount: A:0.76, C:0.04, G:0.15, T:0.04
Consensus pattern (15 bp):
AAAAAAATGCAAAAG
Found at i:19736039 original size:5 final size:5
Alignment explanation
Indices: 19736029--19736055 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19736019 AAAAAAATGC
19736029 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
19736056 TCAAAAGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19736060 original size:29 final size:32
Alignment explanation
Indices: 19736019--19736079 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 32
19736009 CACCCACCTT
19736019 AAAAAAATGCAAAAGAAAAGAAA-A-GAAAAG
1 AAAAAAATGCAAAAGAAAAGAAACATGAAAAG
* *
19736049 AAAAGAAT-CAAAAGAACAGAAACATGAAAAG
1 AAAAAAATGCAAAAGAAAAGAAACATGAAAAG
19736080 TTGTCATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
30 8 0.30
31 6 0.22
ACGTcount: A:0.72, C:0.07, G:0.16, T:0.05
Consensus pattern (32 bp):
AAAAAAATGCAAAAGAAAAGAAACATGAAAAG
Found at i:19741769 original size:18 final size:18
Alignment explanation
Indices: 19741736--19741786 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
19741726 GTTTACATTC
*
19741736 AGTTCGTATTCATATAAG
1 AGTTCGCATTCATATAAG
19741754 -GTTCGCATTGCATATAAG
1 AGTTCGCATT-CATATAAG
* *
19741772 AGTTCACATACATAT
1 AGTTCGCATTCATAT
19741787 TTACCTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (18 bp):
AGTTCGCATTCATATAAG
Found at i:19741805 original size:24 final size:24
Alignment explanation
Indices: 19741778--19741828 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
19741768 TAAGAGTTCA
* *
19741778 CATACATATTTACCTTAA-GTTTCG
1 CATACATATTCA-CATAAGGTTTCG
*
19741802 CATACTTATTCACATAAGGTTTCG
1 CATACATATTCACATAAGGTTTCG
19741826 CAT
1 CAT
19741829 GTTAGTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (24 bp):
CATACATATTCACATAAGGTTTCG
Found at i:19743661 original size:13 final size:13
Alignment explanation
Indices: 19743645--19743690 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
19743635 TTTTATGGTC
19743645 TAATTAAATGGAA
1 TAATTAAATGGAA
*
19743658 TAATGGACAAATGGAA
1 TAAT---TAAATGGAA
19743674 TAATTAAATGGAA
1 TAATTAAATGGAA
19743687 TAAT
1 TAAT
19743691 GGACCACCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 16 0.57
16 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.28
Consensus pattern (13 bp):
TAATTAAATGGAA
Found at i:19743671 original size:16 final size:16
Alignment explanation
Indices: 19743650--19743694 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 16
19743640 TGGTCTAATT
19743650 AAATGGAATAATGGAC
1 AAATGGAATAATGGAC
*
19743666 AAATGGAATAAT---T
1 AAATGGAATAATGGAC
19743679 AAATGGAATAATGGAC
1 AAATGGAATAATGGAC
19743695 CACCTCTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
13 12 0.50
16 12 0.50
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.22
Consensus pattern (16 bp):
AAATGGAATAATGGAC
Found at i:19750944 original size:31 final size:31
Alignment explanation
Indices: 19750885--19750960 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
19750875 ACACATATAT
*
19750885 ATATACTAAATAAAATAATAAAATAATAATAA
1 ATAT-CTAATTAAAATAATAAAATAATAATAA
* *
19750917 ATATCTTATTAAAAT-ATTAAATAAATAATAA
1 ATATCTAATTAAAATAATAAAAT-AATAATAA
*
19750948 TTATCTAATTAAA
1 ATATCTAATTAAA
19750961 TAACTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 6 0.16
31 28 0.74
32 4 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATCTAATTAAAATAATAAAATAATAATAA
Found at i:19750950 original size:23 final size:23
Alignment explanation
Indices: 19750891--19750950 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
19750881 ATATATATAC
19750891 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
19750911 T-AATAAATATCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
19750934 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
19750951 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:19754894 original size:20 final size:20
Alignment explanation
Indices: 19754857--19754893 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19754847 TTATCGATAA
19754857 AATAATATTTAAAATATATG
1 AATAATATTTAAAATATATG
19754877 AATAA-ATTTAAAA-ATAT
1 AATAATATTTAAAATATAT
19754894 ACTTAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AATAATATTTAAAATATATG
Found at i:19755101 original size:24 final size:25
Alignment explanation
Indices: 19755055--19755106 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
19755045 TATCTAATAC
*
19755055 TTTTTTTTAATTTTAGAAATAAAGT
1 TTTTTTTTAATTCTAGAAATAAAGT
19755080 TTTTTTTTAA-TCTA-AAAGTAAAGT
1 TTTTTTTTAATTCTAGAAA-TAAAGT
19755104 TTT
1 TTT
19755107 AAATAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 3 0.12
24 12 0.48
25 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (25 bp):
TTTTTTTTAATTCTAGAAATAAAGT
Found at i:19755338 original size:22 final size:22
Alignment explanation
Indices: 19755312--19755355 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
19755302 AAAAAATTAG
19755312 TTTTGAGAGAAAAATATTTTAA
1 TTTTGAGAGAAAAATATTTTAA
19755334 TTTTGAGAGAAAAATATTTTAA
1 TTTTGAGAGAAAAATATTTTAA
19755356 CTATTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (22 bp):
TTTTGAGAGAAAAATATTTTAA
Found at i:19755539 original size:22 final size:22
Alignment explanation
Indices: 19755513--19755578 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
19755503 TGATAATTAA
19755513 ATAATATTTATTTATTTTTATG
1 ATAATATTTATTTATTTTTATG
*
19755535 ATAATA-TTATTTATCTTTATG
1 ATAATATTTATTTATTTTTATG
*
19755556 A-AAAATATTATATTATGTTTTAT
1 ATAATAT-TTAT-TTAT-TTTTAT
19755579 TTTCAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.08
21 15 0.41
22 10 0.27
23 4 0.11
24 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (22 bp):
ATAATATTTATTTATTTTTATG
Found at i:19755578 original size:51 final size:52
Alignment explanation
Indices: 19755478--19755581 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 52
19755468 GATATAAATA
* * *
19755478 TTATGATAAATAATATTTACCTTTATGATAATTAAATAATATTTATTTATTT
1 TTATGATAAATAATATTTACCTTTATGAAAAATAAATAATATGTATTTATTT
* * * *
19755530 TTATGAT-AATATTATTTATCTTTATGAAAAATATTATATTATGT-TTTATTT
1 TTATGATAAATAATATTTACCTTTATGAAAAATA-AATAATATGTATTTATTT
19755581 T
1 T
19755582 CAAATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
51 30 0.68
52 14 0.32
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (52 bp):
TTATGATAAATAATATTTACCTTTATGAAAAATAAATAATATGTATTTATTT
Found at i:19755949 original size:13 final size:14
Alignment explanation
Indices: 19755931--19755989 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
19755921 TTATAACTTT
*
19755931 AAATT-AAATATTG
1 AAATTCAAATATTA
* *
19755944 AAATT-AATAAATTT
1 AAATTCAA-ATATTA
19755958 AAATTCAAATATTA
1 AAATTCAAATATTA
*
19755972 AAATTGAAA-ATTA
1 AAATTCAAATATTA
19755985 AAATT
1 AAATT
19755990 GTGTGATGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
13 16 0.41
14 21 0.54
15 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (14 bp):
AAATTCAAATATTA
Found at i:19755958 original size:27 final size:28
Alignment explanation
Indices: 19755923--19755989 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
19755913 TATGAGATTT
* *
19755923 ATAACTTTAAATT-AAATATTGAAATTA
1 ATAAATTTAAATTCAAATATTAAAATTA
*
19755950 ATAAATTTAAATTCAAATATTAAAATTG
1 ATAAATTTAAATTCAAATATTAAAATTA
*
19755978 A-AAATTAAAATT
1 ATAAATTTAAATT
19755990 GTGTGATGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (28 bp):
ATAAATTTAAATTCAAATATTAAAATTA
Found at i:19755990 original size:13 final size:13
Alignment explanation
Indices: 19755952--19755990 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
19755942 TGAAATTAAT
* *
19755952 AAATTTAAATTCA
1 AAATTAAAATTGA
19755965 AATATTAAAATTGA
1 AA-ATTAAAATTGA
19755979 AAATTAAAATTG
1 AAATTAAAATTG
19755991 TGTGATGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (13 bp):
AAATTAAAATTGA
Found at i:19761035 original size:26 final size:25
Alignment explanation
Indices: 19761006--19761082 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
19760996 ACAGAATAAC
19761006 ATATGAAAATTTAAAATAAATAATAT
1 ATAT-AAAATTTAAAATAAATAATAT
* * *
19761032 ATATAATGATTTAACATAAATAATGT
1 ATATAA-AATTTAAAATAAATAATAT
* *
19761058 ATA-AAATATTTAGAATAAATGATAT
1 ATATAAA-ATTTAAAATAAATAATAT
19761083 GAAAAGAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
25 18 0.44
26 23 0.56
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATAAAATTTAAAATAAATAATAT
Found at i:19763255 original size:99 final size:99
Alignment explanation
Indices: 19763082--19763270 Score: 261
Period size: 99 Copynumber: 1.9 Consensus size: 99
19763072 ATTGTAACTT
* ** * * *
19763082 CAACCTGCCCCACTGCAACTTTAGGGGGATAAGGTTTGTGACTTCAATCTGCTTCGCTGCAACTT
1 CAACCTGCCCCACTGCAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTGCTCCACTGCAACTT
19763147 CAGGAAGATAAGATTCACCATGGTATACTTGGCC
66 CAGGAAGATAAGATTCACCATGGTATACTTGGCC
* * *
19763181 CAACCTGCTCCACTGTAACTTCAGGGAAATAAGGTTAGTGGCTTCAATCTGCTCCACTGCAACTT
1 CAACCTGCCCCACTGCAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTGCTCCACTGCAACTT
* * **
19763246 CAGGGAGATAGGATTTGCCATGGTA
66 CAGGAAGATAAGATTCACCATGGTA
19763271 GATTTGATCA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (99 bp):
CAACCTGCCCCACTGCAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTGCTCCACTGCAACTT
CAGGAAGATAAGATTCACCATGGTATACTTGGCC
Found at i:19775815 original size:24 final size:23
Alignment explanation
Indices: 19775782--19775864 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 23
19775772 AGTATAACAG
*
19775782 AATAACATATGAAAATTTAAAATA
1 AATAATATAT-AAAATTTAAAATA
*
19775806 AATAATATATATAATGATTTAACATA
1 AATAATATATA-AA--ATTTAAAATA
*
19775832 AATAATGTATAAAATATTAAGAATA
1 AATAATATATAAAAT-TTAA-AATA
*
19775857 AATGATAT
1 AATAATAT
19775865 GAAAAGAGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
23 3 0.06
24 15 0.31
25 11 0.23
26 19 0.40
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (23 bp):
AATAATATATAAAATTTAAAATA
Found at i:19781247 original size:21 final size:20
Alignment explanation
Indices: 19781202--19781251 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
19781192 TTTATTTAAC
*
19781202 TTTATTTTTATTAAATACTT
1 TTTATTTTTAATAAATACTT
19781222 TTTATTTTTAATAAATA-TT
1 TTTATTTTTAATAAATACTT
19781241 GTATTATTTTT
1 -T-TTATTTTT
19781252 TTTTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
21 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTATTTTTAATAAATACTT
Found at i:19783411 original size:38 final size:40
Alignment explanation
Indices: 19783345--19783498 Score: 210
Period size: 39 Copynumber: 4.0 Consensus size: 40
19783335 AGTTGATTCC
* *
19783345 ACTCCCCCATGCTACTTTG-TTTTATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAACT
19783384 ACTCCCCCATACTA-TTT-TTTTTATTATTAATT-AAACT
1 ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAACT
* *
19783421 ATTCCCCCATACTATTTTGTTTTTATTATTAATTAAAACC
1 ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAACT
* * *
19783461 A-TTCCCTACACTATTTTGTTTTTATTATTAATTAAAAC
1 ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
19783499 CATACTTTAT
Statistics
Matches: 105, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
37 18 0.17
38 20 0.19
39 62 0.59
40 5 0.05
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (40 bp):
ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAACT
Found at i:19783456 original size:77 final size:77
Alignment explanation
Indices: 19783347--19783496 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 77
19783337 TTGATTCCAC
* * *
19783347 TCCCCCATGCTACTTTGTTTTATTATTAATTAAAACTACTCCCCCATACTA-TTT-TTTTTATTA
1 TCCCCCATACTACTTTGTTTTATTATTAATTAAAACCA-TCCCCCACACTATTTTGTTTTTATTA
19783410 TTAATTAAACTAT
65 TTAATTAAACTAT
* * *
19783423 TCCCCCATACTATTTTGTTTTTATTATTAATTAAAACCATTCCCTACACTATTTTGTTTTTATTA
1 TCCCCCATACTACTTTG-TTTTATTATTAATTAAAACCATCCCCCACACTATTTTGTTTTTATTA
19783488 TTAATTAAA
65 TTAATTAAA
19783497 ACCATACTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
76 24 0.37
77 23 0.35
78 18 0.28
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (77 bp):
TCCCCCATACTACTTTGTTTTATTATTAATTAAAACCATCCCCCACACTATTTTGTTTTTATTAT
TAATTAAACTAT
Found at i:19784149 original size:22 final size:23
Alignment explanation
Indices: 19784101--19784157 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
19784091 AACCCCCTCT
**
19784101 AATACAATCTCTTCTCTCCCCAA
1 AATACAATCGATTCTCTCCCCAA
*
19784124 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCCCAA
*
19784146 AATACCATCGAT
1 AATACAATCGAT
19784158 CCCCCTCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.35, C:0.32, G:0.04, T:0.30
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCCCAA
Found at i:19784622 original size:13 final size:13
Alignment explanation
Indices: 19784604--19784628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19784594 GAGTTTTGAG
19784604 TTCTTCGATCTGC
1 TTCTTCGATCTGC
19784617 TTCTTCGATCTG
1 TTCTTCGATCTG
19784629 TTCCCTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:19784675 original size:44 final size:44
Alignment explanation
Indices: 19784611--19785090 Score: 398
Period size: 44 Copynumber: 11.0 Consensus size: 44
19784601 GAGTTCTTCG
* **
19784611 ATCTGCT-TCTTCGATCTGTTCCCTATAAATACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
*
19784654 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
*
19784698 AT-TGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
19784739 ATGCTGAAATCTT-AGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCA-ATCTG-TTCCCTATAAGCACAGGGATGCCAA
* *
19784785 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATCCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
19784829 ATCTACTGTTTTTCAA-CTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCT-ATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * ** * * * *
19784872 ATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
19784918 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
19784962 ATCTGCTGTTTTCAA-CTTGTTCCCTATATGCACAGGGATGCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
* * * * * * *
19785004 A--TGCAAATCTTCGATCTGCTTCACTCTAAGCACAGGAATGTCAG
1 ATCTGC-TATCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAA
19785048 ATCTGCTATCTT-AGATCTGTTCCCTATAAGCACAGGGATGCCA
1 ATCTGCTATCTTCA-ATCTGTTCCCTATAAGCACAGGGATGCCA
19785091 TGCTGAAATC
Statistics
Matches: 350, Mismatches: 61, Indels: 51
0.76 0.13 0.11
Matches are distributed among these distances:
40 3 0.01
41 9 0.03
42 21 0.06
43 67 0.19
44 176 0.50
45 67 0.19
46 7 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:19784813 original size:88 final size:87
Alignment explanation
Indices: 19784610--19785153 Score: 416
Period size: 88 Copynumber: 6.2 Consensus size: 87
19784600 TGAGTTCTTC
** ** *
19784610 GATCTGCT-TCTTCGATCTGTTCCCTATAAATACAGGGATGCCAAAT-CTGCTATCTTC-AACTT
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGATC-T
* * *
19784672 GTTCCCTATAAACACAGGGATGCCA
63 GTTCACTATAAGCACAGGAATGCCA
* * * *
19784697 AAT-TGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTAGATCTGC
1 GATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG-
* *
19784760 TTCACTGTAAGCACAGGAATGTCA
64 TTCACTATAAGCACAGGAATGCCA
* ** * *
19784784 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATCCCAAAT-CT-ACTGTTTTTC-AAC
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA--AATCTTCGATC
* *
19784846 TTGTTCCCTATAAGCACAGGGATGCC-
62 -TGTTCACTATAAGCACAGGAATGCCA
** ** * * * **
19784872 -ATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATC
1 GAT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCATG--CTGAAATCTTCGATC
* *
19784935 TGTTCCCTATAAGCACAGGGATGCCA
62 TGTTCACTATAAGCACAGGAATGCCA
* * * * *
19784961 AATCTGCTGTTTTC-AACTTGTTCCCTATATGCACAGGGATGCCATGC--AAATCTTCGATCTGC
1 GATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG-
* *
19785023 TTCACTCTAAGCACAGGAATGTCA
64 TTCACTATAAGCACAGGAATGCCA
*
19785047 GATCTGCTATCTTAGATCTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCT
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG-T
* * * *
19785112 TCACTGTAA-CTCAGGAAGGCGA
65 TCACTATAAGCACAGGAATGCCA
* *
19785134 TATCTGCTATCTTTGATCTG
1 GATCTGCTATCTTCGATCTG
19785154 CCCCCCGTCT
Statistics
Matches: 362, Mismatches: 68, Indels: 54
0.75 0.14 0.11
Matches are distributed among these distances:
85 14 0.04
86 74 0.20
87 87 0.24
88 122 0.34
89 56 0.15
90 9 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (87 bp):
GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGTT
CACTATAAGCACAGGAATGCCA
Found at i:19784890 original size:133 final size:132
Alignment explanation
Indices: 19784618--19785090 Score: 722
Period size: 133 Copynumber: 3.6 Consensus size: 132
19784608 TCGATCTGCT
* * ** * * * *
19784618 TCTTCGATCTG-TTCCCTATAAATACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTAT
1 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTAT
* * * *
19784681 AAACACAGGGATGCCAAAT-TGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
65 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
19784745 AAA
130 AAA
*
19784748 TCTTAGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
1 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
* *
19784813 AGCACAGGGATCCCAAATCTACTGTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AGCACAGGGATGCCAAATCTGCTG-TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
19784878 AAA
130 AAA
*
19784881 TCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
1 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
*
19784946 AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATATGCACAGGGATGCCATGC--A
66 AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
19785009 AA
131 AA
* *
19785011 TCTTCGATCTGCTTCACTCTAAGCACAGGAATGTCAGATCTGCTATCTTAGATCTGTTCCCTATA
1 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
19785076 AGCACAGGGATGCCA
66 AGCACAGGGATGCCA
19785091 TGCTGAAATC
Statistics
Matches: 316, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
130 90 0.28
131 58 0.18
132 42 0.13
133 126 0.40
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
AA
Found at i:19785665 original size:203 final size:203
Alignment explanation
Indices: 19785188--19785970 Score: 1216
Period size: 204 Copynumber: 3.8 Consensus size: 203
19785178 AAATCTATTT
* * * * * * * * * * *
19785188 CTTCGATTTGTTCCCAGGCAATACAGAGATGCCAAATTATCTTAGATTTGCTTTAACGTAAGCCC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* * * *
19785253 GTGAAAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * **
19785317 GGATCCGCTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAG--TAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
19785382 AGATGCCAAA
194 AGATGCCAAA
* *
19785392 CTTCGATTCGTTCTCTGACGATACAGAGACGATAAATCATCTTAGATTTGCTTTC-TCGTAATCA
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGC-TTCATCGTAATCA
* *
19785456 CGTGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
19785521 TGGATCTGCTTCAGTGAAATCATCTGAAGG-CAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
130 TGGATCTGCTTCAGT-AAA-CATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
19785585 AAGATGCCAAA
193 AAGATGCCAAA
19785596 CTTC-ATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
19785660 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
19785725 -GATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGT-AAA-CATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
19785789 AGATGCCAAA
194 AGATGCCAAA
*
19785799 CTTCGATTCGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
19785864 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
19785929 GGATCTGCTTCAGTATAACATCTGAAGGCCAGATCTGTTATG
131 GGATCTGCTTCAGTA-AACATCTGAAGGCCAGATCTGCTATG
19785971 CTGCGGCCTA
Statistics
Matches: 539, Mismatches: 31, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
202 31 0.06
203 166 0.31
204 265 0.49
205 77 0.14
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (203 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAA
Found at i:19785964 original size:407 final size:406
Alignment explanation
Indices: 19785206--19785970 Score: 1243
Period size: 407 Copynumber: 1.9 Consensus size: 406
19785196 TGTTCCCAGG
* * * * *
19785206 CAATACAGAGATGCCAAATTATCTTAGATTTGCTTTAACGTAAGCCCGTGAAAGCCAAATCAACT
1 CAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCAACT
* *
19785271 ATGATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTTGGATCCGCTTCAGCATAAA
66 ATGATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCCGCTTCAG-ATAAA
*
19785336 CATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAACTTCGATTC
130 CATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAACTTCGATTC
* *
19785401 GTTCTCTGACGATACAGAGACGATAAATCATCTTAGATTTGCTTTCTCGTAATCACGTGAAAGCC
195 GTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCACGTGAAAGCC
* * *
19785466 AAATTAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCT
260 AAATCAGCTATGTCTTCGATTTGCTCCTTATAAACACAAGGATGCCAAACCATCTTGGATCTGCT
19785531 TCAGTGAAATCATCTGAAGGCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAA
325 TCAGTGAAATCATCTGAAGGCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAA
19785596 CTTCATTCGTTCTCTGA
390 CTTCATTCGTTCTCTGA
* * *
19785613 CAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAAGCCAAATCAGCT
1 CAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCAACT
* *
19785678 ATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT-GATCTGCTTCAG-TGAA
66 ATG-ATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCCGCTTCAGAT-AA
*
19785741 ATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAACTTCGAT
129 A-CATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAACTTCGAT
*
19785806 TCGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGC-TTCATCGTAATCACGTGAAA
193 TCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCACGTGAAA
19785870 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAACACAAGGATGCCAAACCATCTTGGATCT
257 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAACACAAGGATGCCAAACCATCTTGGATCT
*
19785935 GCTTCAGT-ATAA-CATCTGAAGGCCAGATCTGTTATG
322 GCTTCAGTGA-AATCATCTGAAGG-CAGATCTGCTATG
19785971 CTGCGGCCTA
Statistics
Matches: 331, Mismatches: 21, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
405 1 0.00
406 17 0.05
407 273 0.82
408 40 0.12
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (406 bp):
CAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCAACT
ATGATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCCGCTTCAGATAAAC
ATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAACTTCGATTCG
TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCACGTGAAAGCCA
AATCAGCTATGTCTTCGATTTGCTCCTTATAAACACAAGGATGCCAAACCATCTTGGATCTGCTT
CAGTGAAATCATCTGAAGGCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAAC
TTCATTCGTTCTCTGA
Found at i:19793918 original size:14 final size:13
Alignment explanation
Indices: 19793901--19793930 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
19793891 TTCCAGATTT
19793901 TCTTTTCTACCTTC
1 TCTTTTCTACC-TC
19793915 TCTTTTCTACCTC
1 TCTTTTCTACCTC
19793928 TCT
1 TCT
19793931 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.57
Consensus pattern (13 bp):
TCTTTTCTACCTC
Found at i:19798398 original size:40 final size:40
Alignment explanation
Indices: 19798356--19798470 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 40
19798346 GATTCCACTC
* *
19798356 CCCCCATGCTACTTTGTTTTATTATTAATTAAAACT-ATT
1 CCCCCATACTATTTTGTTTTATTATTAATTAAAACTCATT
*
19798395 CCCCCATACTATTTTATTTTTATTATTAATTAAAA-TCATT
1 CCCCCATACTATTTT-GTTTTATTATTAATTAAAACTCATT
19798435 CCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 CCCCCATACTATTTTG-TTTTATTATTAATTAAAAC
19798471 CATACTTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
39 14 0.21
40 54 0.79
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.48
Consensus pattern (40 bp):
CCCCCATACTATTTTGTTTTATTATTAATTAAAACTCATT
Found at i:19798525 original size:22 final size:22
Alignment explanation
Indices: 19798486--19798527 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19798476 TTTATTTTCT
* *
19798486 CTTTTTTTTATCATAAAAAAAC
1 CTTTTTTTTAACAAAAAAAAAC
*
19798508 CTTTTTTTTAAGAAAAAAAA
1 CTTTTTTTTAACAAAAAAAA
19798528 CAACAAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (22 bp):
CTTTTTTTTAACAAAAAAAAAC
Found at i:19799125 original size:22 final size:23
Alignment explanation
Indices: 19799077--19799133 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
19799067 AACCCCCTCT
**
19799077 AATACAATCTCTTCTCTCCGCAA
1 AATACAATCGATTCTCTCCGCAA
*
19799100 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCGCAA
*
19799122 AATACCATCGAT
1 AATACAATCGAT
19799134 CCCCCTCCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCGCAA
Found at i:19801323 original size:25 final size:25
Alignment explanation
Indices: 19801295--19801386 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
19801285 CTTATGAGTG
19801295 TCCCGA-TATATGGCTCTTCGGAGCT
1 TCCCGATTA-ATGGCTCTTCGGAGCT
* **
19801320 TCCCGATTAAAGGCTCTTTTCTAAGCT
1 TCCCGATTAATGGCTC--TTCGGAGCT
* *
19801347 TCCTGATTAATGGCTCTTCGGAACT
1 TCCCGATTAATGGCTCTTCGGAGCT
* *
19801372 TGCCGA-TACTGGCTC
1 TCCCGATTAATGGCTC
19801387 GCATGAACCT
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 8 0.15
25 22 0.42
26 2 0.04
27 21 0.40
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTCGGAGCT
Found at i:19801410 original size:25 final size:25
Alignment explanation
Indices: 19801381--19801526 Score: 93
Period size: 25 Copynumber: 5.8 Consensus size: 25
19801371 TTGCCGATAC
* *
19801381 TGGCTCGCATGAACCTTCCCGTTAT
1 TGGCTCGCATGAAGCTTCCCGTTAA
* *
19801406 TGGCTCGTATG-AGCTTCTCGTTAA
1 TGGCTCGCATGAAGCTTCCCGTTAA
* * * *
19801430 TGGTTCTC-CGAAGCTTCCTGTTACA
1 TGGCTCGCATGAAGCTTCCCGTTA-A
*
19801455 TGGCTCACAT-AAGCTTCCCGTTATA
1 TGGCTCGCATGAAGCTTCCCGTTA-A
* * * *
19801480 TGGCTCGAAAGAGGGCTTCCCGTTTA
1 TGGCTCGCATGA-AGCTTCCCGTTAA
*
19801506 TGTGCTCGAATG-AGCATTCCC
1 TG-GCTCGCATGAAGC-TTCCC
19801527 AAATACGAAT
Statistics
Matches: 92, Mismatches: 22, Indels: 13
0.72 0.17 0.10
Matches are distributed among these distances:
23 1 0.01
24 25 0.27
25 39 0.42
26 9 0.10
27 18 0.20
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (25 bp):
TGGCTCGCATGAAGCTTCCCGTTAA
Found at i:19803149 original size:37 final size:37
Alignment explanation
Indices: 19803108--19803193 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
19803098 AGGTGAAAAT
19803108 CCATAACTTTGATAAAAATTTTGATAATTAAATTGTA
1 CCATAACTTTGATAAAAATTTTGATAATTAAATTGTA
19803145 CCATAACTTTGATAAAAATTTTGATAATTAAATTGTA
1 CCATAACTTTGATAAAAATTTTGATAATTAAATTGTA
**
19803182 GTATAACTTTGA
1 CCATAACTTTGA
19803194 AGTATTTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (37 bp):
CCATAACTTTGATAAAAATTTTGATAATTAAATTGTA
Found at i:19806432 original size:84 final size:84
Alignment explanation
Indices: 19806214--19806480 Score: 307
Period size: 84 Copynumber: 3.2 Consensus size: 84
19806204 TTCCTTTTTT
* * * * ** *
19806214 ATTTTATTTTATTTTCAAATGAGAAATTAAAGTTAAATAAAATCTGTTTCGGGATTTATTCTTGT
1 ATTTTATTTTGTTTCCAAATTAG-AATTAAA-TTAAATTAAATCTGTTTCGGGATTTATTCCCGC
* *
19806279 TGTTTAACAAAATTTTATT-G
64 CGTTTAACAAGATTTTATTCG
* *
19806299 -----ATTTTGTTTCTAAATTATAATTAAAATTAAA-TAAATCTGCTTT-GGGATTTATTCCCGC
1 ATTTTATTTTGTTTCCAAATTAGAATT-AAATTAAATTAAATCTG-TTTCGGGATTTATTCCCGC
19806357 CGTTTAACAAGATTTTATTCG
64 CGTTTAACAAGATTTTATTCG
* *
19806378 ATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATTAAATCTGTTTCGAGATTTATTCCCGCGG
1 ATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATTAAATCTGTTTCGGGATTTATTCCCGCCG
19806443 TTTAACAAGATTTTATTCG
66 TTTAACAAGATTTTATTCG
* *
19806462 ATATTGTTTTGTTTCCAAA
1 ATTTTATTTTGTTTCCAAA
19806481 CAAAGACTTA
Statistics
Matches: 155, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
78 36 0.23
79 13 0.08
80 16 0.10
83 11 0.07
84 79 0.51
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (84 bp):
ATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATTAAATCTGTTTCGGGATTTATTCCCGCCG
TTTAACAAGATTTTATTCG
Found at i:19806807 original size:87 final size:87
Alignment explanation
Indices: 19806617--19806915 Score: 270
Period size: 88 Copynumber: 3.4 Consensus size: 87
19806607 TGTTAAACTG
* * * *
19806617 CGGGAATAAATCCCGAAATAGATTTTATTTAATTTTAA--ATCTAATTTGGAAACAAAATC-AAA
1 CGGGAATAAATCCTGAAACAAATTTTATTTAATTTTAATGATC-ATTTTGGAAACAAAATCAAAA
* ** * *
19806679 -TCGAATAAAATCTTATTAAACGG
65 TTGGAATAAAATC-CGTTGAACGA
*** * * * * * * *
19806702 CAAAAATAAATCCCGAAACAAATTCTATTTAATTTTACT-TTCTAGTTTTTGCAACAAAATCAGA
1 CGGGAATAAATCCTGAAACAAATTTTATTTAATTTTAATGATC-A-TTTTGGAAACAAAATCAAA
*
19806766 A-TGTAATAAAATCCGTTGAAC-A
64 ATTGGAATAAAATCCGTTGAACGA
*
19806788 GCGGGAATAAATCCTGAAACAAATTTTATTTTAATTTTAATGATCATTTTGGAAATAAAATCAAA
1 -CGGGAATAAATCCTGAAACAAATTTTA-TTTAATTTTAATGATCATTTTGGAAACAAAATCAAA
19806853 ATTGGAATAAAATCCGTTGAACGA
64 ATTGGAATAAAATCCGTTGAACGA
* * * *
19806877 CGGGAATAAATCTTGAAACAGATTTTATTCACTTTTAAT
1 CGGGAATAAATCCTGAAACAAATTTTATTTAATTTTAAT
19806916 TTGGAAACAA
Statistics
Matches: 172, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
85 31 0.18
86 4 0.02
87 66 0.38
88 68 0.40
89 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (87 bp):
CGGGAATAAATCCTGAAACAAATTTTATTTAATTTTAATGATCATTTTGGAAACAAAATCAAAAT
TGGAATAAAATCCGTTGAACGA
Found at i:19806881 original size:88 final size:86
Alignment explanation
Indices: 19806515--19806915 Score: 302
Period size: 85 Copynumber: 4.7 Consensus size: 86
19806505 TTTGGGATTT
* * * * * *
19806515 AATAAAATCTGTTAAATGACGGGAATAAATCCCAAAACATATTTTATTTGA--TTAAGT-T-T-T
1 AATAAAATCCGTTGAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAA-TATCTAT
* * * *
19806575 TGTTTGAAATAAAA-CAATATCG
65 T-TTGGAAACAAAATCAAAATGG
* * * *
19806597 AATAAAATCTTGTTAAACTG-CGGGAATAAATCCCGAAATAGATTTTATTTAATTTTAA-ATCTA
1 AATAAAATC-CGTTGAAC-GACGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAATATCTA
* *
19806660 ATTTGGAAACAAAATC-AAATCG
64 TTTTGGAAACAAAATCAAAATGG
** * * *** * * *
19806682 AATAAAATCTTATTAAACGGCAAAAATAAATCCCGAAACAAATTCTATTTAATTTTACTTTCTAG
1 AATAAAATC-CGTTGAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAATATCTA-
* * * *
19806747 TTTTTGCAACAAAATCAGAATGT
64 TTTTGGAAACAAAATCAAAATGG
*
19806770 AATAAAATCCGTTGAAC-AGCGGGAATAAATCCTGAAACAAATTTTATTTTAATTTTAATGATC-
1 AATAAAATCCGTTGAACGA-CGGGAATAAATCCCGAAACAAATTTTA-TTTAATTTTAAT-ATCT
*
19806833 ATTTTGGAAATAAAATCAAAATTGG
63 ATTTTGGAAACAAAATCAAAA-TGG
** * * *
19806858 AATAAAATCCGTTGAACGACGGGAATAAATCTTGAAACAGATTTTATTCACTTTTAAT
1 AATAAAATCCGTTGAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAAT
19806916 TTGGAAACAA
Statistics
Matches: 258, Mismatches: 44, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
82 9 0.03
83 35 0.14
84 3 0.01
85 68 0.26
86 6 0.02
87 66 0.26
88 68 0.26
89 3 0.01
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (86 bp):
AATAAAATCCGTTGAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAATATCTATT
TTGGAAACAAAATCAAAATGG
Found at i:19809453 original size:22 final size:22
Alignment explanation
Indices: 19809423--19809467 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19809413 TAAGCATATG
*
19809423 ATTTGGATAAATGTACTTTACA
1 ATTTCGATAAATGTACTTTACA
19809445 ATTTCGATAAATGTACTTTACA
1 ATTTCGATAAATGTACTTTACA
19809467 A
1 A
19809468 AAGCATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (22 bp):
ATTTCGATAAATGTACTTTACA
Found at i:19810125 original size:19 final size:20
Alignment explanation
Indices: 19810098--19810139 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
19810088 TACTGCAAAA
19810098 AATGAAAGATTT-ACCTTTT
1 AATGAAAGATTTCACCTTTT
* *
19810117 AATGGAAGATTTCCCCTTTT
1 AATGAAAGATTTCACCTTTT
19810137 AAT
1 AAT
19810140 TAGTTGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (20 bp):
AATGAAAGATTTCACCTTTT
Found at i:19813799 original size:27 final size:27
Alignment explanation
Indices: 19813758--19813811 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
19813748 GGTCATGTGA
* *
19813758 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
19813785 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
19813812 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:19814135 original size:49 final size:50
Alignment explanation
Indices: 19814055--19814287 Score: 281
Period size: 49 Copynumber: 4.7 Consensus size: 50
19814045 ATCTATTGTG
* *
19814055 AGGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
19814105 -GGTCGCATGTGTAGTACCAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
19814155 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGCATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
19814205 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
19814255 A-GTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
19814288 TCCGTACCAG
Statistics
Matches: 153, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 70 0.46
50 47 0.31
51 36 0.24
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:19814252 original size:101 final size:98
Alignment explanation
Indices: 19814057--19814287 Score: 291
Period size: 100 Copynumber: 2.3 Consensus size: 98
19814047 CTATTGTGAG
* * * *
19814057 GTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATAATTGGTCACATGTGTAGTAC
** * *
19814122 CAAGTGCAGGCTACTATGCGTACCTGATAACTTC
66 CAAGTGCAGGCTACTACACGTACCGGATAA-TTA
* ** *
19814156 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGCATCAGATGGTTAGGTCACGTGTGTAGT
1 G-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATAATT-GGTCACATGTGTAGT
* *
19814221 ACTAAGTGCAGGCTACTACATGTACCGGATAATTA
64 ACCAAGTGCAGGCTACTACACGTACCGGATAATTA
* *
19814256 GTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTA
19814288 TCCGTACCAG
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 30 0.26
100 44 0.39
101 40 0.35
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (98 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATAATTGGTCACATGTGTAGTAC
CAAGTGCAGGCTACTACACGTACCGGATAATTA
Found at i:19814330 original size:150 final size:150
Alignment explanation
Indices: 19814055--19814333 Score: 409
Period size: 150 Copynumber: 1.9 Consensus size: 150
19814045 ATCTATTGTG
* *
19814055 AGGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCGGATAATTAGTCGCATGTGTAGT
* * ** ** *
19814120 ACCAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACCAAGTGCAGGCTACTATCCGTACCAGATAACTTCGATCACAAGTGTAAAAATAAGTGCAGGCT
19814185 ACTACGTGCATCAGATGGTT
131 ACTACGTGCATCAGATGGTT
*
19814205 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTAGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCGGATAATTAGTCGCATGTGTAGT
* * *
19814270 ACTAAGTGCAGGCTACTATCCGTACCAGGTAACCTT-G-TCTACAAGTGTAAAAATATGTGCAGG
66 ACCAAGTGCAGGCTACTATCCGTACCAGATAA-CTTCGATC-ACAAGTGTAAAAATAAGTGCAGG
19814333 C
129 C
19814334 AACTGAGTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
149 2 0.02
150 109 0.96
151 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCGGATAATTAGTCGCATGTGTAGT
ACCAAGTGCAGGCTACTATCCGTACCAGATAACTTCGATCACAAGTGTAAAAATAAGTGCAGGCT
ACTACGTGCATCAGATGGTT
Found at i:19817797 original size:51 final size:51
Alignment explanation
Indices: 19817718--19817874 Score: 201
Period size: 51 Copynumber: 3.1 Consensus size: 51
19817708 GTACGTGCAG
* * *
19817718 CAGCAACATTATCCAGTCTATC-AGATGTTGCAAAATCATCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTA-ATGTTGCAAAATCACCAGCATATTCAT
* *
19817769 CAGCAACATTATCCACACCATCTAATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTGCAAAATCACCAGCATATTCAT
* * * *
19817820 CAGCAACATTATTCACTCCATCTGATGGTACAAAATCACCAG-ATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTGCAAAATCACCAGCATATTCAT
*
19817870 TAGCA
1 CAGCA
19817875 GCAACTTCAC
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
50 12 0.13
51 80 0.86
52 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTAATGTTGCAAAATCACCAGCATATTCAT
Found at i:19818034 original size:33 final size:33
Alignment explanation
Indices: 19817978--19818120 Score: 121
Period size: 33 Copynumber: 4.3 Consensus size: 33
19817968 GTAGCAGAAA
* * * *
19817978 CACCCTCTCCATCAGCTTGTACCTCTCCTACAT
1 CACCCTCCCCATCAGATTCTACCTCTTCTACAT
* * *
19818011 CACCCTCCCCACCAGATTCTACCTTTTCTAGAT
1 CACCCTCCCCATCAGATTCTACCTCTTCTACAT
* * * *
19818044 CATCTTCACCATCAGATTCTACCCCTTC-ATCAT
1 CACCCTCCCCATCAGATTCTACCTCTTCTA-CAT
* *
19818077 CACCCTCCCCATGA-ACTTCTAACC-CTTCAACAT
1 CACCCTCCCCATCAGA-TTCT-ACCTCTTCTACAT
19818110 CACCCTCCCCA
1 CACCCTCCCCA
19818121 GTAGTCAACA
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
32 2 0.02
33 82 0.93
34 4 0.05
ACGTcount: A:0.22, C:0.45, G:0.04, T:0.28
Consensus pattern (33 bp):
CACCCTCCCCATCAGATTCTACCTCTTCTACAT
Found at i:19819077 original size:29 final size:29
Alignment explanation
Indices: 19819015--19819078 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
19819005 TGAAATTTTA
* *
19819015 AAAAAATAAAATATTATAAAATTCATGAC
1 AAAATATAAAAAATTATAAAATTCATGAC
*
19819044 -AAATATAAAAAATT-TAAAATTCATTATC
1 AAAATATAAAAAATTATAAAATTCATGA-C
19819072 AAAATAT
1 AAAATAT
19819079 TGAGAAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 11 0.37
28 13 0.43
29 6 0.20
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAATATAAAAAATTATAAAATTCATGAC
Done.