Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 125 of 284
Found at i:41682349 original size:29 final size:29
Alignment explanation
Indices: 41682317--41682432 Score: 121
Period size: 29 Copynumber: 4.0 Consensus size: 29
41682307 TACCTGTATT
*
41682317 TGGCCCATTAAAGCCC-AATCATATTCATA
1 TGGCCCATT-AAGCCCAAATCACATTCATA
* *
41682346 TGGCTCATTAAGCCCAAATCACCTAT-ATA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
* *
41682375 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * *
41682404 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
41682432 T
1 T
41682433 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
28 19 0.25
29 55 0.73
30 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:41682419 original size:58 final size:58
Alignment explanation
Indices: 41682308--41682419 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
41682298 AAATTCACAT
* * * *
41682308 ACCTGTATTTGGCCCATTAAAGCCCAATCATATTCATATGGCTCATTAAGCCCAAATC
1 ACCTATATATGGCCCATTAAAGCCCAATCACATTCATATGGCCCATTAAGCCCAAATC
* * * *
41682366 ACCTATATATGGCCCATT-AGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAAGCCC-AATCACATTCATATGGCCCATTAAGCCCA
41682420 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 5 0.11
58 40 0.89
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAAAGCCCAATCACATTCATATGGCCCATTAAGCCCAAATC
Found at i:41688067 original size:68 final size:66
Alignment explanation
Indices: 41687995--41688144 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
41687985 CATCATGTGT
* * * *
41687995 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
41688058 TGTAG
62 TGTAG
** * *
41688063 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
41688128 AG
65 AG
41688130 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
41688145 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:41688100 original size:64 final size:64
Alignment explanation
Indices: 41688019--41688202 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
41688009 AGACATTATG
* * *
41688019 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
41688083 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
41688148 AA
63 AA
* * *
41688150 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
41688203 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:41690516 original size:29 final size:28
Alignment explanation
Indices: 41690428--41690542 Score: 95
Period size: 29 Copynumber: 4.0 Consensus size: 28
41690418 TACCTGTATC
* * * *
41690428 TGGCCCATTAAGCCCAATCATAGTCATA
1 TGGCCCACTAGGCCCAATCACATTCATA
* * * * *
41690456 TGGCTCATTAGGCCCAAATCACCTGCACA
1 TGGCCCACTAGGCCC-AATCACATTCATA
*
41690485 TGGCCCACTAGGCCCTAATCACATTTATA
1 TGGCCCACTAGGCCC-AATCACATTCATA
** *
41690514 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCACTAGGCCCAATCACATTCATA
41690542 T
1 T
41690543 TCATGCTCAC
Statistics
Matches: 68, Mismatches: 18, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
28 25 0.37
29 43 0.63
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (28 bp):
TGGCCCACTAGGCCCAATCACATTCATA
Found at i:41695156 original size:55 final size:54
Alignment explanation
Indices: 41695013--41695207 Score: 196
Period size: 54 Copynumber: 3.6 Consensus size: 54
41695003 CTTACCATTT
* * * *
41695013 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCAAC-ATCT
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTAACAAT-G
* * * ** *
41695066 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACTTAACAATG
* * * * * *
41695121 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTAACAATG
* *
41695175 CCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGCCTTGACATGGTCTTACATGGTATCCTT
41695208 AAACCCTAAT
Statistics
Matches: 113, Mismatches: 26, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
53 35 0.31
54 38 0.34
55 38 0.34
56 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTAACAATG
Found at i:41697587 original size:16 final size:16
Alignment explanation
Indices: 41697566--41697598 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
41697556 CTGACAGATC
41697566 AAGCATCTAGAAACAA
1 AAGCATCTAGAAACAA
41697582 AAGCATCTAGAAACAA
1 AAGCATCTAGAAACAA
41697598 A
1 A
41697599 CTCTGAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (16 bp):
AAGCATCTAGAAACAA
Found at i:41702518 original size:53 final size:54
Alignment explanation
Indices: 41702438--41702641 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 54
41702428 TTCCTTTTTA
* * * *
41702438 AACTTACCATTGCCTTGTCTTGACATGGTCTTACGTGGTATCTTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
* * *
41702491 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
** * * * * * * * *
41702545 TAGTTTATCAATGCCATGTCTTGACATCGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
* * *
41702600 AACTTACCAATGCCATGCCTTGGCTTGGTCTTACTTGGTATC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
41702642 CTTAAACCCT
Statistics
Matches: 121, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 47 0.39
54 33 0.27
55 41 0.34
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
Found at i:41707016 original size:27 final size:27
Alignment explanation
Indices: 41706905--41706995 Score: 164
Period size: 27 Copynumber: 3.4 Consensus size: 27
41706895 CAAGGATGTC
* *
41706905 TTTTGATAATCTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACTAGGGGTA
41706932 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACTAGGGGTA
41706959 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACTAGGGGTA
41706986 TTTTGGTAAT
1 TTTTGGTAAT
41706996 CATATCCTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACTAGGGGTA
Found at i:41707023 original size:54 final size:54
Alignment explanation
Indices: 41706905--41707024 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 54
41706895 CAAGGATGTC
* **
41706905 TTTTGATAATCTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATCATACAAACTAGGGGTA
* **
41706959 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATCATATCCTA-TAGGGGTA
1 TTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATCATA-CAAACTAGGGGTA
*
41707013 TTTTAATAATTT
1 TTTTGATAATTT
41707025 CATAATCGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 55 0.96
55 2 0.04
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
TTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATCATACAAACTAGGGGTA
Found at i:41707062 original size:27 final size:27
Alignment explanation
Indices: 41707028--41707225 Score: 213
Period size: 27 Copynumber: 7.3 Consensus size: 27
41707018 ATAATTTCAT
*
41707028 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* * *
41707055 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
41707082 AATCGAGGGTAAAAC-AGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* * *
41707109 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
* * * *
41707136 AATCGAAGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
41707163 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
41707190 AATCGAGGGTAAAATGGTAATTCT-TCA
1 AATCGAGGGTAAAACGATAATTCTGT-A
41707217 AATCGAGGG
1 AATCGAGGG
41707226 CATTTCAGTA
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.01
27 143 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTGTA
Found at i:41707092 original size:54 final size:54
Alignment explanation
Indices: 41707028--41707225 Score: 240
Period size: 54 Copynumber: 3.7 Consensus size: 54
41707018 ATAATTTCAT
* *
41707028 AATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
*
41707082 AATCGAGGGTAAAAC-AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * * * *
41707136 AATCGAAGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * *
41707190 AATCGAGGGTAAAATGGTAATTCTT-CAAATCGAGGG
1 AATCGAGGGTAAAACGATAATT-TTGTAAATCGAGGG
41707226 CATTTCAGTA
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 124 0.97
55 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:41707147 original size:81 final size:80
Alignment explanation
Indices: 41707028--41707222 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 80
41707018 ATAATTTCAT
* * * *
41707028 AATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCT-TAAATC-GAAGGTAAAATGGTAATTTTGTAAATCGAGGGT
*
41707092 AAAAC-AGTAATTCTGTA
64 AAAACGA-TAATTCTATA
*
41707109 AATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCT-TAAATCGAAGGTAAAATGGTAATTTTGTAAATCGAGGGTA
41707174 AAACGATAATTCTATA
65 AAACGATAATTCTATA
41707190 AATCGAGGGTAAAATGGTAATTCTTCAAATCGA
1 AATCGAGGGTAAAATGGTAATTCTT-AAATCGA
41707223 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
80 1 0.01
81 101 0.97
82 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (80 bp):
AATCGAGGGTAAAATGGTAATTCTTAAATCGAAGGTAAAATGGTAATTTTGTAAATCGAGGGTAA
AACGATAATTCTATA
Found at i:41710659 original size:40 final size:40
Alignment explanation
Indices: 41710603--41710777 Score: 255
Period size: 40 Copynumber: 4.4 Consensus size: 40
41710593 GATGATAACT
* * *
41710603 GGGCTAAGACCCGAAGGCATTTGTGCGAGTAGCTATATCC
1 GGGCTAAGACCTGAAGGCATTTGTGCAAGTTGCTATATCC
*
41710643 GGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCTATATCC
1 GGGCTAAGACCTGAAGGCATTTGTGCAAGTTGCTATATCC
* * *
41710683 GGGCTAAGACCAGAAGGCATTTGTGCAAGTTGCTGTAACC
1 GGGCTAAGACCTGAAGGCATTTGTGCAAGTTGCTATATCC
*
41710723 GGGCTAAGACCTGAAGGCATTTGTGCAAGTTGTTATATCC
1 GGGCTAAGACCTGAAGGCATTTGTGCAAGTTGCTATATCC
41710763 -GGCTAA-ATCCTGAAG
1 GGGCTAAGA-CCTGAAG
41710778 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 13 0.10
40 110 0.89
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGACCTGAAGGCATTTGTGCAAGTTGCTATATCC
Found at i:41715575 original size:43 final size:42
Alignment explanation
Indices: 41715527--41715647 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
41715517 ACCGAGATGT
*
41715527 GATTACATGTAAGACCATGTCTGGGACATTGGCA-TCATTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATTGA-T-ATGC
* * * *
41715570 GATTACGTGTAAGACCCTGTTTGGGACAGTGGCATTGATATGT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATTGATATGC
* * *
41715613 GATAACATGTAAGACCATATCTGGGATATGGCATT
1 GATTACATGTAAGACCATGTCTGGGACATGGCATT
41715648 CTACGAGCTA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
42 9 0.14
43 53 0.83
44 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATTGATATGC
Found at i:41731235 original size:27 final size:26
Alignment explanation
Indices: 41731205--41731351 Score: 105
Period size: 27 Copynumber: 5.5 Consensus size: 26
41731195 GGCATAATCC
*
41731205 TCATTTTACCATACAAGGATATTACGA
1 TCATTTTACC-TACAAGGGTATTACGA
* * *
41731232 TCATTTTATCCTACAGGGGCATTACAA
1 TCATTTTA-CCTACAAGGGTATTACGA
** *
41731259 TCATTTTACCCTTTAAGGGTATTACGG
1 TCATTTTA-CCTACAAGGGTATTACGA
* * * * *
41731286 TCATTTTACCCTATAGGGGCATTAAGG
1 TCATTTTA-CCTACAAGGGTATTACGA
* * *
41731313 TCATTTTACCCTACAGGGGTAATACAA
1 TCATTTTA-CCTACAAGGGTATTACGA
*
41731340 TTATTTTACCTA
1 TCATTTTACCTA
41731352 TTTTGGGGTT
Statistics
Matches: 97, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
26 4 0.04
27 91 0.94
28 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (26 bp):
TCATTTTACCTACAAGGGTATTACGA
Found at i:41731333 original size:54 final size:54
Alignment explanation
Indices: 41731205--41731349 Score: 166
Period size: 54 Copynumber: 2.7 Consensus size: 54
41731195 GGCATAATCC
* * *
41731205 TCATTTTACCATACAAGGATATTACGATCATTTTATCCTACAGGGGCATTACAA
1 TCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTACAGGGGCATTACAA
** * * *
41731259 TCATTTTACCCTTTAAGGGTATTACGGTCATTTTACCCTATAGGGGCATTA-AGG
1 TCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTACAGGGGCATTACA-A
* * * *
41731313 TCATTTTACCCTACAGGGGTAATACAATTATTTTACC
1 TCATTTTACCCTACAAGGGTATTACGATCATTTTACC
41731350 TATTTTGGGG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 74 0.99
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (54 bp):
TCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTACAGGGGCATTACAA
Found at i:41733706 original size:21 final size:22
Alignment explanation
Indices: 41733662--41733707 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
41733652 ATTATGCATC
* *
41733662 CCACCCAAATCCAGCCAGCACA
1 CCACCCAAATCCAACCAACACA
*
41733684 CCACCCATA-CCAACCAACACA
1 CCACCCAAATCCAACCAACACA
41733705 CCA
1 CCA
41733708 TGTGAGGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.39, C:0.52, G:0.04, T:0.04
Consensus pattern (22 bp):
CCACCCAAATCCAACCAACACA
Found at i:41734019 original size:27 final size:26
Alignment explanation
Indices: 41733989--41734106 Score: 85
Period size: 27 Copynumber: 4.4 Consensus size: 26
41733979 GGCATAATCT
*
41733989 TCATTTTACCATACAGGGATATGACAG
1 TCATTTTACC-TACAGGGACATGACAG
* *
41734016 TCATTTTATCCTACAGGGACATTACGG
1 TCATTTTA-CCTACAGGGACATGACAG
* * *
41734043 TTATTTTACCTTACAGGGGCACT-ACGG
1 TCATTTTACC-TACAGGGACA-TGACAG
* * * *
41734070 TCATTTTACCCTACTGGAAAATTACAG
1 TCATTTTA-CCTACAGGGACATGACAG
*
41734097 TAATTTTACC
1 TCATTTTACC
41734107 CTATAGAGGT
Statistics
Matches: 74, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
26 5 0.07
27 64 0.86
28 5 0.07
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (26 bp):
TCATTTTACCTACAGGGACATGACAG
Found at i:41734120 original size:27 final size:27
Alignment explanation
Indices: 41734090--41734160 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
41734080 CTACTGGAAA
* *
41734090 ATTACAGTAATTTTACCCTAT-AGAGGT
1 ATTACAGTCATTTTACCCTATAAG-GGC
41734117 ATTAC-GATCATTTTACCCTATAAGGGC
1 ATTACAG-TCATTTTACCCTATAAGGGC
*
41734144 ATTACAATCATTTTACC
1 ATTACAGTCATTTTACC
41734161 TATTTTAGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 1 0.03
27 35 0.92
28 2 0.05
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (27 bp):
ATTACAGTCATTTTACCCTATAAGGGC
Found at i:41740441 original size:41 final size:41
Alignment explanation
Indices: 41740343--41740426 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
41740333 AGCTTTGGTT
* * *
41740343 TTAAAGCGATTTCTAACTCATTTTAATCTAATTAAAAGGTA
1 TTAAAGTGATTTTTAACTCATTTTAATATAATTAAAAGGTA
*
41740384 TTAAAGTGATTTTTAACTCATTTTGATATAATTAAAAGGTA
1 TTAAAGTGATTTTTAACTCATTTTAATATAATTAAAAGGTA
41740425 TT
1 TT
41740427 TGATCTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (41 bp):
TTAAAGTGATTTTTAACTCATTTTAATATAATTAAAAGGTA
Found at i:41741269 original size:7 final size:7
Alignment explanation
Indices: 41741257--41741284 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
41741247 GGGTTTTATT
41741257 ATATATA
1 ATATATA
41741264 ATATATA
1 ATATATA
41741271 ATATATA
1 ATATATA
41741278 ATATATA
1 ATATATA
41741285 TGCGCTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:41741643 original size:17 final size:17
Alignment explanation
Indices: 41741616--41741658 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
41741606 CATGAGCCAA
* *
41741616 TTATAATTGTGTATTGTG
1 TTAT-ATTGTGAACTGTG
41741634 TTATATTGTGAACTGTG
1 TTATATTGTGAACTGTG
*
41741651 TTAAATTG
1 TTATATTG
41741659 GCAATCTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.51
Consensus pattern (17 bp):
TTATATTGTGAACTGTG
Found at i:41747693 original size:43 final size:44
Alignment explanation
Indices: 41747595--41747716 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 44
41747585 TATTGAGATG
* * * * **
41747595 TGATTGCATGTAAGACCGTGTCTAGGACATTGGCATTGTATTGA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATAAA
*
41747639 -GATTACTTGTAAGACCATGTCTGGGACATTGGCATCGT-TAAA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATAAA
* * * * *
41747681 TGATTTCATGTAAGACCCTATTTGGGACAGTGGCAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCAT
41747717 TGAAATCTGA
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.03
43 62 0.97
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (44 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATAAA
Found at i:41749780 original size:47 final size:46
Alignment explanation
Indices: 41749671--41750073 Score: 263
Period size: 47 Copynumber: 8.7 Consensus size: 46
41749661 TATCCGTACT
* * *
41749671 GATGCATGTCCCAGACATGTCTTACACTAGCATAACTCT-T-A-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTATGAGGCC
* * *
41749715 GATGCGTGTCCCAAACATGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTAT-GAGGCC
* * * ** * * *
41749762 GATGCATGTCTCAAACATGTATTAGTCTAGC-ACTCATCTCTG-TGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TC-TCTATGAGGCC
* * * * *
41749808 GATGCCATGTACCAGACATGGTCTTACACTGGCTGTCATATATGTGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTATGAG-GCC
* * * *
41749858 GATGCATGTCCCAGACATTTCTTACACTAGC-A-CAACTATTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTATGAGGCC
* * * *
41749902 GATGCGTGTCCGAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTAT-GAGGCC
* ** * *
41749949 GATGCATGTCCCAAACATGTCTTACTTTGGC-A-CTCATCTCAGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTC-TATGAG-GCC
* *
41749995 GATGCCATGTCCCAGACATGGTCTTACTCTGGC--TCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTC-T-ATGAGGCC
*
41750043 GAAGCATGTCCCAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
41750074 GCACAAATCA
Statistics
Matches: 281, Mismatches: 57, Indels: 40
0.74 0.15 0.11
Matches are distributed among these distances:
43 6 0.02
44 57 0.20
45 9 0.03
46 38 0.14
47 96 0.34
48 54 0.19
49 15 0.05
50 6 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTATGAGGCC
Found at i:41749792 original size:91 final size:91
Alignment explanation
Indices: 41749671--41750070 Score: 344
Period size: 94 Copynumber: 4.3 Consensus size: 91
41749661 TATCCGTACT
* * *
41749671 GATGCATGTCCCAGACATGTCTTACACTAGCATAACTCTTAGTCGATGCGTGTCCCAAACATGTC
1 GATGCATGTCCCAAACATGTCTTACACTAGCATAACTCTTAGCCGATGCGTGTCCCAGACATGTC
41749736 TTACACTGGCTATCTCTGTCGAGGCC
66 TTACACTGGCTATCTCTGTCGAGGCC
* * ** * * *
41749762 GATGCATGTCTCAAACATGTATTAGTCTAGCACTCATCTCTGT-GCCGATGCCATGTACCAGACA
1 GATGCATGTCCCAAACATGTCTTACACTAGCA-T-AACTCT-TAGCCGATG-CGTGTCCCAGACA
* * * * *
41749826 TGGTCTTACACTGGCTGTCATATAT-GTGTGCT
62 T-GTCTTACACTGGCTATC-TCTGTCGAG-GCC
* * * * * *
41749858 GATGCATGTCCCAGACATTTCTTACACTAGCACAACTATTAGCCGATGCGTGTCCGAGACACGTC
1 GATGCATGTCCCAAACATGTCTTACACTAGCATAACTCTTAGCCGATGCGTGTCCCAGACATGTC
41749923 TTACACTGGCTATCTCTGTCGAGGCC
66 TTACACTGGCTATCTCTGTCGAGGCC
** * * * *
41749949 GATGCATGTCCCAAACATGTCTTACTTTGGCACTCA-TCTCAGTGCCGATGCCATGTCCCAGACA
1 GATGCATGTCCCAAACATGTCTTACACTAGCA-TAACTCTTA--GCCGATG-CGTGTCCCAGACA
* * *
41750013 TGGTCTTACTCTGGC--TCTCATAAT-GTGGCC
62 T-GTCTTACACTGGCTATCTC-T-GTCGAGGCC
* *
41750043 GAAGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAAACATGTCTTACACT
41750071 GGCGCACAAA
Statistics
Matches: 241, Mismatches: 52, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
91 62 0.26
92 20 0.08
93 33 0.14
94 64 0.27
95 31 0.13
96 31 0.13
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (91 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCATAACTCTTAGCCGATGCGTGTCCCAGACATGTC
TTACACTGGCTATCTCTGTCGAGGCC
Found at i:41749947 original size:187 final size:186
Alignment explanation
Indices: 41749622--41750070 Score: 677
Period size: 187 Copynumber: 2.4 Consensus size: 186
41749612 ATAAATTACT
* ** *
41749622 GATGCCATGTCCAGACATGGTCTTACACTGGCTCTTATATATCCGTACTGATGCATGTCCCAGAC
1 GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATGCATGTCCCAGAC
* * * *
41749687 ATGTCTTACACTAGCATAACTCTTAGTCGATGCGTGTCCCAAACATGTCTTACACTGGCTATCTC
66 ATGTCTTACACTAGCACAACTATTAGCCGATGCGTGTCCCAAACACGTCTTACACTGGCTATCTC
* * *
41749752 TGTCGAGGCCGATGCATGTCTCAAACATGTATTAGTCTAGCACTCATCTCTGTGCC
131 TGTCGAGGCCGATGCATGTCCCAAACATGTATTACTCTAGCACTCATCTCAGTGCC
*
41749808 GATGCCATGTACCAGACATGGTCTTACACTGGCTGTCATATATGTGTGCTGATGCATGTCCCAGA
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATGCATGTCCCAGA
* * *
41749873 CATTTCTTACACTAGCACAACTATTAGCCGATGCGTGTCCGAGACACGTCTTACACTGGCTATCT
65 CATGTCTTACACTAGCACAACTATTAGCCGATGCGTGTCCCAAACACGTCTTACACTGGCTATCT
* * *
41749938 CTGTCGAGGCCGATGCATGTCCCAAACATGTCTTACTTTGGCACTCATCTCAGTGCC
130 CTGTCGAGGCCGATGCATGTCCCAAACATGTATTACTCTAGCACTCATCTCAGTGCC
* * *
41749995 GATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCATA-ATGTG-GCCGAAGCATGTCCCAGA
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATGCATGTCCCAGA
41750058 CATGTCTTACACT
65 CATGTCTTACACT
41750071 GGCGCACAAA
Statistics
Matches: 238, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
185 28 0.12
186 15 0.06
187 195 0.82
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (186 bp):
GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATGCATGTCCCAGAC
ATGTCTTACACTAGCACAACTATTAGCCGATGCGTGTCCCAAACACGTCTTACACTGGCTATCTC
TGTCGAGGCCGATGCATGTCCCAAACATGTATTACTCTAGCACTCATCTCAGTGCC
Found at i:41758423 original size:47 final size:47
Alignment explanation
Indices: 41758345--41758554 Score: 348
Period size: 47 Copynumber: 4.5 Consensus size: 47
41758335 CCCTTCGGGA
* * * * * *
41758345 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41758392 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41758439 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41758486 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41758533 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
41758555 TTGGCTGAAT
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 153 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41761119 original size:48 final size:46
Alignment explanation
Indices: 41760992--41761352 Score: 200
Period size: 47 Copynumber: 7.7 Consensus size: 46
41760982 CAACTCTTAA
* * *
41760992 CCGATGCGTGTCCCAGAAACGTCTTACACTGG--CT-ATCTCTGTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT----G
* * *
41761039 CCGATGCATGTCTCAAACATGTCTTACTCTGGCACTCATCTCTGTG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTG
* * *
41761085 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCT--GTG
* * *
41761135 CTGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-G
** ** ** * * *
41761179 CTAATGTGTGTCTGAGACACGTCTTACACTGGCTA-TCTATATC-GAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTC-ATCTCTG-TG
* * * * * * *
41761226 GCAATGCATGTCCTAGACATGTCTTACTCTTGCACTCATCTCTATA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTG
* * * **
41761272 CCAATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCAT-AATGTTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTG-TG
* **
41761320 CCGAAGCATGTCCCTTACATGTCTTACACTGGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC
41761353 GCACAAATCA
Statistics
Matches: 242, Mismatches: 54, Indels: 37
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.00
44 27 0.11
45 1 0.00
46 34 0.14
47 94 0.39
48 53 0.22
49 16 0.07
50 16 0.07
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTG
Found at i:41761295 original size:187 final size:185
Alignment explanation
Indices: 41761010--41761349 Score: 511
Period size: 187 Copynumber: 1.8 Consensus size: 185
41761000 TGTCCCAGAA
* * *
41761010 ACGTCTTACACTGGCTATCTCTGTCGAGGCCGATGCATGTCTCAAACATGTCTTACTCTGGCACT
1 ACGTCTTACACTGGCTATCTATATCGAGGCCAATGCATGTCTCAAACATGTCTTACTCTGGCACT
* * * * *
41761075 CATCTCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGAT
66 CATCTCTATACCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATG-GTGCCGAA
41761140 GCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCTAATGTGTGTCTGAGAC
129 GCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCTAATGTGTGTCTGAGAC
* * *
41761197 ACGTCTTACACTGGCTATCTATATCGAGGGCAATGCATGTC-CTAGACATGTCTTACTCTTGCAC
1 ACGTCTTACACTGGCTATCTATATCGAGGCCAATGCATGTCTC-AAACATGTCTTACTCTGGCAC
* *
41761261 TCATCTCTATACCAATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCATAATGTTGCCGAAG
65 TCATCTCTATACCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGGTGCCGAAG
**
41761326 CATGTCCCTTACATGTCTTACACT
130 CATGTCCCAGACATGTCTTACACT
41761350 GGCGCACAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
185 28 0.20
186 4 0.03
187 105 0.77
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (185 bp):
ACGTCTTACACTGGCTATCTATATCGAGGCCAATGCATGTCTCAAACATGTCTTACTCTGGCACT
CATCTCTATACCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGGTGCCGAAGC
ATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCTAATGTGTGTCTGAGAC
Found at i:41774718 original size:12 final size:13
Alignment explanation
Indices: 41774701--41774738 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
41774691 ATCCTGGAAT
41774701 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
41774713 ATTAAGAACACATA
1 ATTAAGAACA-AGA
41774727 ATTAAGAACAAG
1 ATTAAGAACAAG
41774739 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:41789118 original size:26 final size:24
Alignment explanation
Indices: 41789089--41789142 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
41789079 AACCTAAAAT
41789089 TAAAATAATA-TTAAAGGAAAATAAA
1 TAAAA-AATACTTAAA-GAAAATAAA
*
41789114 CTAAAAAGTACTTAAAGAAAATAAA
1 -TAAAAAATACTTAAAGAAAATAAA
41789139 TAAA
1 TAAA
41789143 GAAAAAAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 4 0.15
25 12 0.46
26 10 0.38
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (24 bp):
TAAAAAATACTTAAAGAAAATAAA
Found at i:41795007 original size:12 final size:13
Alignment explanation
Indices: 41794990--41795027 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
41794980 ATCTTGGAAT
41794990 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
41795002 ATTAAGAACACATA
1 ATTAAGAACA-AGA
41795016 ATTAAGAACAAG
1 ATTAAGAACAAG
41795028 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:41799638 original size:56 final size:56
Alignment explanation
Indices: 41799542--41800093 Score: 764
Period size: 56 Copynumber: 9.9 Consensus size: 56
41799532 ACATTTTTTA
**
41799542 GTTGGCATCGATATGTGA-TCTCGATATGTGTGTGTAAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTC-CGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * * *
41799598 GTTGGCATCAATATCTGATTCCCATATGTATGTGCGAGTAAGACCACGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * *
41799654 TTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAAACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * *
41799710 ATTGGCATCGATATGTGATTCCAATATGTGTGTGCGAGTAAGACCACGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* *
41799766 GTTGGCATCAATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41799822 GTTAGCATCAATATGTGATTCCGATATTTGTGTGCAAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * ***
41799878 GTTAGCATCGATATGTGATTCTGATATGTGTGCGTTTGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * * * *
41799934 GTTAGCATCAATATGTGATTTCGATATTTGTGTGCGAGTAAGACCAAGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41799990 GTTGGCATTGGTATGTGATTCCAATATGTGTGTGCGAGTAAGACCACATTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
*
41800046 GTTGGCATCGATATGTGATTCCAATATGTGTGTGCGAGTAAGACCACG
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACG
41800094 ACCATGTGGG
Statistics
Matches: 438, Mismatches: 57, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
56 436 1.00
57 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (56 bp):
GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
Found at i:41804194 original size:56 final size:56
Alignment explanation
Indices: 41804098--41805000 Score: 1214
Period size: 56 Copynumber: 16.1 Consensus size: 56
41804088 ACATTTTTTA
**
41804098 GTTGGCATCGATATGTGA-TCTCGATATGTGTGTGTAAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTC-CGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * * *
41804154 GTTGGCATCAATATCTGATTCCCATATGTATGTGCGAGTAAGACCACGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * *
41804210 TTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAAACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * *
41804266 ATTGGCATCGATATGTGATTCCAATATGTGTGTGCGAGTAAGACCACGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* *
41804322 GTTGGCATCAATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41804378 GTTAGCATCAATATGTGATTCCGATATTTGTGTGCAAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * ***
41804434 GTTAGCATCGATATGTGATTCTGATATGTGTGCGTTTGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * * * *
41804490 GTTAGCATCAATATGTGATTTCGATATTTGTGTGCGAGTAAGACCAAGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41804546 GTTGGCATTGGTATGTGATTCCAATATGTGTGTGCGAGTAAGACCACGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41804602 GTTGGCATCAATATGTGATTCGGATATGTGTGTGCGAGTAAGACCATGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41804658 GTTGGCATTGATATGTGATGCCGATATGTGTGTGCGAGTGAGACCACGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
**
41804714 GTTGGCATTAATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * *** * *
41804770 GTTAGCATCGATATGTGATTCTGATATGTGTGTGTTTGTAAGCCCACATTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41804826 GTTAGCATCAATATGTGATTTCGATATGTGTGTGCGAGTAAGACCATGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41804882 GTTGGCATTGGTATGTGATTCCAATATGTGTGTGCGAGTAAGACCACATTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41804938 GTTGGCATCGATATGTGATTCCGATATGTGTCTGCGAATATGACCACTTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
41804994 GTTGGCA
1 GTTGGCA
41805001 CTAATATGTG
Statistics
Matches: 745, Mismatches: 101, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
56 743 1.00
57 2 0.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (56 bp):
GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
Found at i:41805026 original size:43 final size:43
Alignment explanation
Indices: 41804961--41805043 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
41804951 TGTGATTCCG
* *
41804961 ATATGTGTCTGCGAATATGACCACTTTTAATACGTTGGCACTA
1 ATATGTGTCTGCGAATAAGACCACATTTAATACGTTGGCACTA
* * * *
41805004 ATATGTGTGTGTGAGTAAGACCACATTTAATATGTTGGCA
1 ATATGTGTCTGCGAATAAGACCACATTTAATACGTTGGCA
41805044 TCGATATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (43 bp):
ATATGTGTCTGCGAATAAGACCACATTTAATACGTTGGCACTA
Found at i:41805051 original size:43 final size:42
Alignment explanation
Indices: 41804959--41805053 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 42
41804949 TATGTGATTC
* *
41804959 CGATATGTGTCTGCGAATATGACCACTTTTAATACGTTGGCA
1 CGATATGTGTCTGCGAATAAGACCACATTTAATACGTTGGCA
* * * * *
41805001 CTAATATGTGTGTGTGAGTAAGACCACATTTAATATGTTGGCA
1 C-GATATGTGTCTGCGAATAAGACCACATTTAATACGTTGGCA
41805044 TCGATATGTG
1 -CGATATGTG
41805054 ATTCCGATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
42 1 0.02
43 41 0.95
44 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (42 bp):
CGATATGTGTCTGCGAATAAGACCACATTTAATACGTTGGCA
Found at i:41805121 original size:99 final size:99
Alignment explanation
Indices: 41804904--41805126 Score: 235
Period size: 99 Copynumber: 2.3 Consensus size: 99
41804894 ATGTGATTCC
*
41804904 AATATGTGTGTG-CGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATATGTG
1 AATATGTATGTGAC-AGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATATGTG
* * * *
41804968 TCTGCGAATATGACCACTTTTAATACGTTGGCACT
65 TCTACGAATAAGACCACTTTGAACACGTTGGCACT
* ** *
41805003 AATATGTGTGTGTGAGTAAGACCACATTTAATATGTTGGCATCGATATGTGATTCCGATATGTGT
1 AATATGTATGTGACAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATATGTGT
* *
41805068 TTAC-AAGTAAGACC-CTATCTGGAACA-G-TGGCATT
66 CTACGAA-TAAGACCACT-T-T-GAACACGTTGGCACT
41805102 AATATGTAAT-T-ACATGTAAGACCAC
1 AATATGT-ATGTGACA-GTAAGACCAC
41805127 GTTTGGGACG
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
98 5 0.05
99 95 0.90
100 3 0.03
101 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (99 bp):
AATATGTATGTGACAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATATGTGT
CTACGAATAAGACCACTTTGAACACGTTGGCACT
Found at i:41805426 original size:16 final size:17
Alignment explanation
Indices: 41805394--41805426 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
41805384 ATGTGTGAAA
41805394 AATGTGTATACATATATG
1 AATGTGTATA-ATATATG
41805412 AATGTGTAT-ATATAT
1 AATGTGTATAATATAT
41805427 TCATCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATGTGTATAATATATG
Found at i:41809721 original size:17 final size:19
Alignment explanation
Indices: 41809689--41809723 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
41809679 GGGGCTATTT
41809689 TGGGCCTCGATGGGCCTGA
1 TGGGCCTCGATGGGCCTGA
41809708 TGGGCC-CG-TGGGCCTG
1 TGGGCCTCGATGGGCCTG
41809724 CTTGTGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.06, C:0.29, G:0.46, T:0.20
Consensus pattern (19 bp):
TGGGCCTCGATGGGCCTGA
Found at i:41813802 original size:22 final size:22
Alignment explanation
Indices: 41813772--41813826 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
41813762 TATGGCCTTT
*
41813772 AGCCATCCTGTCTACAACATTG
1 AGCCGTCCTGTCTACAACATTG
* *
41813794 AGCCGTCCTGTCTACGACGTTG
1 AGCCGTCCTGTCTACAACATTG
41813816 AGCCGTCCTGT
1 AGCCGTCCTGT
41813827 TGACTTAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.18, C:0.33, G:0.22, T:0.27
Consensus pattern (22 bp):
AGCCGTCCTGTCTACAACATTG
Found at i:41816975 original size:56 final size:56
Alignment explanation
Indices: 41816887--41817619 Score: 725
Period size: 56 Copynumber: 12.8 Consensus size: 56
41816877 AAATTTTTGA
** *
41816887 GTTGGCATCGATATGTGATTTTGATATATGTGTGCGAGTAAGACAACTTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
* * *
41816943 GTTGGCATCGATATGTGATTCCGACATGTGTGTGCGAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
* * * * * *
41816999 GTTGGAATCGATATGTGATTCCGATATGTGTGTGTGAGTAAAACCACGTTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
* * *
41817055 GTTGGCATCGATATGCGATTCCGATATATGTGTGTGTGTAAGACAACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
* * * * * * *
41817111 GTTGGCATCAATAATATGTTTGCATCGATATGTGATTCTGATATGTGTGTGAGAGTA-AGACCAC
1 GTTGGCATCGAT-ATGTGATT-C--CGATA--T-A---TG-TGTGCGAGT-A-AG-ACA-A-C-G
* *
41817175 GTTTAATAT
49 TTT-AATAC
* * * * **
41817184 GTTGGCATCGATATGTTATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
* * * * **
41817240 ATTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
* * *
41817296 ATTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGA-ACACATTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACA-ACGTTTAATAC
* * * * * *
41817352 ATTGGCATTGATATATGATTCCGATATATGTGTGCGAGTAAGACCATGTTAAATAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
* *
41817408 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGA-ACACATTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACA-ACGTTTAATAC
* * * * * *
41817464 ATTGGCATTGATATATGATTCCGATATATGTGTGCGAGTAAGACCATGTTAAATAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
* * *
41817520 GTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
* * * *
41817576 GTTGGCATCGATATGTGATTCCAATATGTGTTTACGAGTAAGAC
1 GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGAC
41817620 CTTGTCTGGG
Statistics
Matches: 572, Mismatches: 82, Indels: 46
0.82 0.12 0.07
Matches are distributed among these distances:
56 498 0.87
57 7 0.01
58 1 0.00
59 2 0.00
60 7 0.01
61 1 0.00
62 7 0.01
63 3 0.01
66 2 0.00
67 9 0.02
68 1 0.00
69 8 0.01
70 2 0.00
71 2 0.00
72 7 0.01
73 15 0.03
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (56 bp):
GTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAATAC
Found at i:41817087 original size:112 final size:112
Alignment explanation
Indices: 41816887--41817620 Score: 883
Period size: 112 Copynumber: 6.4 Consensus size: 112
41816877 AAATTTTTGA
** * * *
41816887 GTTGGCATCGATATGTGATTTTGATATATGTGTGCGAGTAAGACAACTTTTAATACGTTGGCATC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
*
41816952 GATATGTGATTCCGACATGTGTGTGCGAGTAAGACCACGTTTAATAC
66 GATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * *
41816999 GTTGGAATCGATATGTGATTCCGATATGTGTGTGTGAGTAAAACCACGTTTAATATGTTGGCATC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
* * * * *
41817064 GATATGCGATTCCGATATATGTGTGTGTGTAAGACAACGTTTAATAC
66 GATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * *
41817111 GTTGGCATCAATAATATGTTTGCATCGATATGTGATTCTGATATGTGTGTGAGAGTAAGACCACG
1 GTTGGCATC--------G-AT--AT-G-T----GATTCCGATATGTGTGTGCGAGTAAGACCACG
* * * **
41817176 TTTAATATGTTGGCATCGATATGTTATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCAC
49 TTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * ** *
41817240 ATTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCACATTGGCATC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
* *
41817305 GATATGTGATTCCGATATGTGTGTGCGAGTAAGAACACATTTAATAC
66 GATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * * * *
41817352 ATTGGCATTGATATATGATTCCGATATATGTGTGCGAGTAAGACCATGTTAAATACGTTGGCATC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
* *
41817417 GATATGTGATTCCGATATGTGTGTGCGAGTAAGAACACATTTAATAC
66 GATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * * * *
41817464 ATTGGCATTGATATATGATTCCGATATATGTGTGCGAGTAAGACCATGTTAAATACGTTGGCATC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
*
41817529 GATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
66 GATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * *
41817576 GTTGGCATCGATATGTGATTCCAATATGTGTTTACGAGTAAGACC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACC
41817621 TTGTCTGGGA
Statistics
Matches: 544, Mismatches: 61, Indels: 34
0.85 0.10 0.05
Matches are distributed among these distances:
112 440 0.81
116 1 0.00
117 1 0.00
118 2 0.00
120 2 0.00
121 2 0.00
123 2 0.00
124 1 0.00
125 1 0.00
129 92 0.17
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (112 bp):
GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
GATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
Found at i:41817136 original size:73 final size:73
Alignment explanation
Indices: 41817049--41817192 Score: 216
Period size: 73 Copynumber: 2.0 Consensus size: 73
41817039 AAACCACGTT
* *
41817049 TAATATGTTGGCATCGATATGCGATTCCGATATATGTGTGTGTGTAAGACAACGTTTAATACGTT
1 TAATATGTTGGCATCGATATGCGATTCCGATATATGTGTGAGAGTAAGACAACGTTTAATACGTT
41817114 GGCATCAA
66 GGCATCAA
* * * * * *
41817122 TAATATGTTTGCATCGATATGTGATTCTGATATGTGTGTGAGAGTAAGACCACGTTTAATATGTT
1 TAATATGTTGGCATCGATATGCGATTCCGATATATGTGTGAGAGTAAGACAACGTTTAATACGTT
41817187 GGCATC
66 GGCATC
41817193 GATATGTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (73 bp):
TAATATGTTGGCATCGATATGCGATTCCGATATATGTGTGAGAGTAAGACAACGTTTAATACGTT
GGCATCAA
Found at i:41817245 original size:129 final size:129
Alignment explanation
Indices: 41817005--41817248 Score: 371
Period size: 129 Copynumber: 1.9 Consensus size: 129
41816995 ATACGTTGGA
*
41817005 ATCGATATGTGATTCCGATATGTGTGTGTGAGTAAAACCACGTTTAATATGTTGGCATCGATATG
1 ATCGATATGTGATTCCGATATGTGTGTGAGAGTAAAACCACGTTTAATATGTTGGCATCGATATG
* * * *
41817070 CGATTCCGATATATGTGTGTGTGTAAGACAACGTTTAATACGTTGGCATCAATAATATGTTTGC
66 CGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAACACATTGGCATCAATAATATGTTTGC
* *
41817134 ATCGATATGTGATTCTGATATGTGTGTGAGAGTAAGACCACGTTTAATATGTTGGCATCGATATG
1 ATCGATATGTGATTCCGATATGTGTGTGAGAGTAAAACCACGTTTAATATGTTGGCATCGATATG
** * * * *
41817199 TTATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCACATTGGCATC
66 CGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAACACATTGGCATC
41817249 GATATGTGAT
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 102 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (129 bp):
ATCGATATGTGATTCCGATATGTGTGTGAGAGTAAAACCACGTTTAATATGTTGGCATCGATATG
CGATTCCGATATATGTGTGCGAGTAAGACAACGTTTAACACATTGGCATCAATAATATGTTTGC
Found at i:41817386 original size:168 final size:168
Alignment explanation
Indices: 41816887--41817645 Score: 840
Period size: 168 Copynumber: 4.4 Consensus size: 168
41816877 AAATTTTTGA
** * * ** *
41816887 GTTGGCATCGATATGTGATTTTGATATATGTGTGCGAGTAAGACAACT-TTTAATACGTTGGCAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCA-TGTTTAGCACATTGGCAT
* * * *
41816951 CGATATGTGATTCCGACATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGAATCGATATGTG
65 CGATATGTGATTCCGATATGTGTGTGCGAGTAAGAACACATTTAATACGTTGGCATCGATATGTG
* * *
41817016 ATTCCGATATGTGTGTGTGAGTAAAACCACGTTTAATAT
130 ATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * * * *
41817055 GTTGGCATCGATATGCGATTCCGATATATGTGTGTGTGTAAGACAACGTTTAATACGTTGGCATC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCATG-TT--TA-----GCA-C
* * * * *
41817120 AATAATATGTTTGCATCGATATGTGATTCTGATATGTGTGTGAGAGTAAGACCACGTTTAATATG
57 ----AT-TG---GCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGAACACATTTAATACG
* * **
41817185 TTGGCATCGATATGTTATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCAC
114 TTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
*
41817240 ATTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCACATTGGCATC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCACATTGGCATC
* * *
41817305 GATATGTGATTCCGATATGTGTGTGCGAGTAAGAACACATTTAATACATTGGCATTGATATATGA
66 GATATGTGATTCCGATATGTGTGTGCGAGTAAGAACACATTTAATACGTTGGCATCGATATGTGA
* * *
41817370 TTCCGATATATGTGTGCGAGTAAGACCATGTTAAATAC
131 TTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* ** ** *
41817408 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGAACACATTTAATACATTGGCATT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCACATTGGCATC
* *
41817473 GATATATGATTCCGATATATGTGTGCGAGTAAG-AC-CATGTTAAATACGTTGGCATCGATATGT
66 GATATGTGATTCCGATATGTGTGTGCGAGTAAGAACACAT-TT-AATACGTTGGCATCGATATGT
*
41817536 GATTCTGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
129 GATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * * * * * *
41817576 GTTGGCATCGATATGTGATTCCAATATGTGTTTACGAGTAAGACCTTGTCTGGGACAGTGGCATC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCACATTGGCATC
41817641 GATAT
66 GATAT
41817646 CTAATTACAT
Statistics
Matches: 501, Mismatches: 70, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
166 3 0.01
167 4 0.01
168 336 0.67
169 2 0.00
171 4 0.01
172 2 0.00
176 2 0.00
177 4 0.01
181 1 0.00
182 4 0.01
184 2 0.00
185 137 0.27
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (168 bp):
GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCATGTTTAGCACATTGGCATC
GATATGTGATTCCGATATGTGTGTGCGAGTAAGAACACATTTAATACGTTGGCATCGATATGTGA
TTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
Found at i:41818877 original size:50 final size:50
Alignment explanation
Indices: 41818810--41818913 Score: 199
Period size: 50 Copynumber: 2.1 Consensus size: 50
41818800 ATATGAATTA
41818810 TGTTAGTAAATTAATCATGATTCGACACTTATATATATAAACATATGATG
1 TGTTAGTAAATTAATCATGATTCGACACTTATATATATAAACATATGATG
*
41818860 TGTTAGTAAATTAATCATGATTCGGCACTTATATATATAAACATATGATG
1 TGTTAGTAAATTAATCATGATTCGACACTTATATATATAAACATATGATG
41818910 TGTT
1 TGTT
41818914 GGTTTGATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (50 bp):
TGTTAGTAAATTAATCATGATTCGACACTTATATATATAAACATATGATG
Found at i:41820087 original size:40 final size:40
Alignment explanation
Indices: 41820040--41820234 Score: 237
Period size: 40 Copynumber: 4.9 Consensus size: 40
41820030 AGGGGCATGA
*
41820040 AAGTGCAACCAAGGGTACCGAAGTACAAATAGGGGCACAT
1 AAGTGCAATCAAGGGTACCGAAGTACAAATAGGGGCACAT
* * * * * *
41820080 AATTGCAATAAAGAGTATCGAAGTACAAACAGGGGCACGT
1 AAGTGCAATCAAGGGTACCGAAGTACAAATAGGGGCACAT
* * *
41820120 AAGTGCAATCAAGGGTATCGAAGAACAAATAGGGGCAAAT
1 AAGTGCAATCAAGGGTACCGAAGTACAAATAGGGGCACAT
* * *
41820160 AAGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACGT
1 AAGTGCAATCAAGGGTACCGAAGTACAAATAGGGGCACAT
* * * *
41820200 AAATGCAATCAAAGGTACTGAAGTACAAACAGGGG
1 AAGTGCAATCAAGGGTACCGAAGTACAAATAGGGG
41820235 TACCAAAGTA
Statistics
Matches: 129, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.42, C:0.16, G:0.27, T:0.15
Consensus pattern (40 bp):
AAGTGCAATCAAGGGTACCGAAGTACAAATAGGGGCACAT
Found at i:41820167 original size:80 final size:79
Alignment explanation
Indices: 41820010--41820234 Score: 252
Period size: 80 Copynumber: 2.8 Consensus size: 79
41820000 TATTTTATTT
* * * * * *
41820010 AGAGTGACCAGAGTATAACCAGGGGCATGAAAGTGCAACCAAGGGTACCGAAGTACAAATAGGGG
1 AGAGT-ACCAAAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTA-CGAAGTACAAATAGGGG
* *
41820075 CACATAATTGCAATAA
64 CAAATAAGTGCAATAA
* * *
41820091 AGAGTATCGAAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTATCGAAGAACAAATAGGGGC
1 AGAGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTA-CGAAGTACAAATAGGGGC
*
41820156 AAATAAGTGCAATCA
65 AAATAAGTGCAATAA
* * * * * *
41820171 GGGGTACCAAAGTACAAATAGGGGCACGTAAATGCAATCAAAGGTACTGAAGTACAAACAGGGG
1 AGAGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTAC-GAAGTACAAATAGGGG
41820235 TACCAAAGTA
Statistics
Matches: 121, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 1 0.01
80 115 0.95
81 5 0.04
ACGTcount: A:0.41, C:0.16, G:0.28, T:0.15
Consensus pattern (79 bp):
AGAGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTACGAAGTACAAATAGGGGCA
AATAAGTGCAATAA
Found at i:41820183 original size:20 final size:20
Alignment explanation
Indices: 41820160--41820294 Score: 73
Period size: 20 Copynumber: 6.8 Consensus size: 20
41820150 AGGGGCAAAT
*
41820160 AAGTGCAATCAGGGGTACCA
1 AAGTACAATCAGGGGTACCA
* *
41820180 AAGTACAAAT-AGGGGCACGTA
1 AAGTAC-AATCAGGGGTAC-CA
* ** **
41820201 AA-TGCAATCAAAGGTACTG
1 AAGTACAATCAGGGGTACCA
*
41820220 AAGTACAAACAGGGGTACCA
1 AAGTACAATCAGGGGTACCA
*
41820240 AAGTACAAACAGGGG--CTCA
1 AAGTACAATCAGGGGTAC-CA
* * *
41820259 TAGGTGCAATCAGGGGTACCG
1 -AAGTACAATCAGGGGTACCA
41820280 AAGTACCAAT-AGGGG
1 AAGTA-CAATCAGGGG
41820295 CACATAAGTG
Statistics
Matches: 86, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
18 1 0.01
19 8 0.09
20 65 0.76
21 11 0.13
22 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.15
Consensus pattern (20 bp):
AAGTACAATCAGGGGTACCA
Found at i:41820253 original size:80 final size:80
Alignment explanation
Indices: 41820100--41820254 Score: 197
Period size: 80 Copynumber: 1.9 Consensus size: 80
41820090 AAGAGTATCG
* * * *
41820100 AAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTATCGAAGAACAAATAGGGGCAAATAAGTG
1 AAGTACAAACAGGGGCACGTAAATGCAATCAAAGGTATCGAAGAACAAACAGGGGCAAATAAGTA
*
41820165 CAATCAGGGGTACCA
66 CAAACAGGGGTACCA
* * * *
41820180 AAGTACAAATAGGGGCACGTAAATGCAATCAAAGGTA-CTGAAGTACAAACAGGGGTACCA-AAG
1 AAGTACAAACAGGGGCACGTAAATGCAATCAAAGGTATC-GAAGAACAAACAGGGGCA-AATAAG
41820243 TACAAACAGGGG
64 TACAAACAGGGG
41820255 CTCATAGGTG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.02
80 62 0.97
81 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.28, T:0.14
Consensus pattern (80 bp):
AAGTACAAACAGGGGCACGTAAATGCAATCAAAGGTATCGAAGAACAAACAGGGGCAAATAAGTA
CAAACAGGGGTACCA
Found at i:41820267 original size:60 final size:60
Alignment explanation
Indices: 41820160--41820294 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 60
41820150 AGGGGCAAAT
* * * * *
41820160 AAGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACGTAAATGCAATCAAAGGTACTG
1 AAGTACAAACAGGGGTACCAAAGTACAAACAGGGGCACATAAATGCAATCAAAGGTACCG
* ** **
41820220 AAGTACAAACAGGGGTACCAAAGTACAAACAGGGGCTCATAGGTGCAATCAGGGGTACCG
1 AAGTACAAACAGGGGTACCAAAGTACAAACAGGGGCACATAAATGCAATCAAAGGTACCG
* *
41820280 AAGTACCAATAGGGG
1 AAGTACAAACAGGGG
41820295 CACATAAGTG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.15
Consensus pattern (60 bp):
AAGTACAAACAGGGGTACCAAAGTACAAACAGGGGCACATAAATGCAATCAAAGGTACCG
Found at i:41820273 original size:40 final size:40
Alignment explanation
Indices: 41820229--41820310 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
41820219 GAAGTACAAA
* * *
41820229 CAGGGGTACCAAAGTACAAACAGGGGCTCATAGGTGCAAT
1 CAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGAAAT
* * *
41820269 CAGGGGTACCGAAGTACCAATAGGGGCACATAAGTGAAAT
1 CAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGAAAT
41820309 CA
1 CA
41820311 TTCAATAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.29, T:0.15
Consensus pattern (40 bp):
CAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGAAAT
Found at i:41822830 original size:20 final size:20
Alignment explanation
Indices: 41822781--41822830 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
41822771 ATGACTTATG
*
41822781 CACATAT-AA-ATATATGTA
1 CACATATCAATATATATATA
*
41822799 CTCAT-TCAAATATATATATA
1 CACATATC-AATATATATATA
41822819 CACATATCAATA
1 CACATATCAATA
41822831 CACAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 1 0.04
18 4 0.16
19 2 0.08
20 16 0.64
21 2 0.08
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (20 bp):
CACATATCAATATATATATA
Found at i:41827405 original size:50 final size:49
Alignment explanation
Indices: 41827236--41827479 Score: 290
Period size: 49 Copynumber: 4.9 Consensus size: 49
41827226 TATTGTGAGG
* *
41827236 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGA
* * * * ** * * *
41827285 TCGCATGTGTAGTACTAAGTGCAGGCTAATATGCATACCCGAAAAGTGAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGT-TGA
* *
41827336 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GA
* *
41827386 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGA
* * * *
41827435 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
41827480 CTTCGGCTAC
Statistics
Matches: 161, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 75 0.47
50 52 0.32
51 34 0.21
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGA
Found at i:41828582 original size:115 final size:115
Alignment explanation
Indices: 41828375--41828604 Score: 451
Period size: 115 Copynumber: 2.0 Consensus size: 115
41828365 TAAAGCTTAC
41828375 CCCCCTCCTTTCCATTTCTTTTAGTGTTGTCAGGTTAGCTCAGGGTTGGAGACCGTCGAAGGCAG
1 CCCCCTCCTTTCCATTTCTTTTAGTGTTGTCAGGTTAGCTCAGGGTTGGAGACCGTCGAAGGCAG
41828440 CATCACACTATCAAGCCAACACCTTGACAGTATAAACACATATGCTAGAA
66 CATCACACTATCAAGCCAACACCTTGACAGTATAAACACATATGCTAGAA
41828490 CCCCCTCCTTTCCATTTCTTTTAGTGTTGTCAGGTTAGCTCAGGGTTGGAGACCGTCGAAGGCAG
1 CCCCCTCCTTTCCATTTCTTTTAGTGTTGTCAGGTTAGCTCAGGGTTGGAGACCGTCGAAGGCAG
*
41828555 CATCACACTATCAAGCCAACACTTTGACAGTATAAACACATATGCTAGAA
66 CATCACACTATCAAGCCAACACCTTGACAGTATAAACACATATGCTAGAA
41828605 TTATCAAGTG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (115 bp):
CCCCCTCCTTTCCATTTCTTTTAGTGTTGTCAGGTTAGCTCAGGGTTGGAGACCGTCGAAGGCAG
CATCACACTATCAAGCCAACACCTTGACAGTATAAACACATATGCTAGAA
Found at i:41829213 original size:26 final size:26
Alignment explanation
Indices: 41829147--41829222 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
41829137 AAAAGTAGTT
* *
41829147 AAATTACTATAATACCCCTATGTATGAA
1 AAATTACTATTATACCCCTA-G-GTGAA
* *
41829175 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGAA
*
41829201 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
41829223 GGTACTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGAA
Found at i:41829366 original size:27 final size:26
Alignment explanation
Indices: 41829326--41829437 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
41829316 AGGAAGCGTC
*
41829326 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
41829353 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
41829380 CTGGTGGCTCTGCCACGATTATATGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
41829408 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
41829434 CTGG
1 CTGG
41829438 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.67
28 17 0.23
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:41829434 original size:54 final size:54
Alignment explanation
Indices: 41829326--41829437 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
41829316 AGGAAGCGTC
* * *
41829326 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCACAATTATATGATCTGGTGACTCTGCCACATATATCTGTT
* * *
41829380 CTGGTGGCTCTGCCACGATTATATGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATATG-ATCTGGTGACTCTGCCACATATATCTGTT
41829434 CTGG
1 CTGG
41829438 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATATGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:41830598 original size:42 final size:42
Alignment explanation
Indices: 41830506--41830614 Score: 150
Period size: 41 Copynumber: 2.6 Consensus size: 42
41830496 ATCAACACAG
* * *
41830506 AGCCTGCTAGGTAATAAACCTAAT-TCAATACACCAACATAA
1 AGCCTGCTAGGCAATAAGCCTGATATCAATACACCAACATAA
**
41830547 AGCCTGCTAGGCAATAAGCCTGATATC-ATACACCGGCATCAA
1 AGCCTGCTAGGCAATAAGCCTGATATCAATACACCAACAT-AA
41830589 AGCCTGCTAGGCAATAAGCCTGATAT
1 AGCCTGCTAGGCAATAAGCCTGATAT
41830615 ATCACTGTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
41 31 0.51
42 30 0.49
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (42 bp):
AGCCTGCTAGGCAATAAGCCTGATATCAATACACCAACATAA
Found at i:41833210 original size:27 final size:27
Alignment explanation
Indices: 41833180--41833308 Score: 150
Period size: 27 Copynumber: 4.8 Consensus size: 27
41833170 CCTTAATCGA
* *
41833180 TAAAATGACTATTTTTCCCTTTTGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* *
41833207 TAAAATAACTATTTTGCCCTTATGGGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* * * * * *
41833234 TAAAATAATTGTTTTGCCCCTATAATG
1 TAAAATGACTATTTTGCCCTTATGAGG
*
41833261 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGAGG
*
41833288 TAAAATGACTGTTTTGCCCTT
1 TAAAATGACTATTTTGCCCTT
41833309 TTATGGTAAG
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGAGG
Found at i:41833317 original size:81 final size:81
Alignment explanation
Indices: 41833180--41833337 Score: 217
Period size: 81 Copynumber: 2.0 Consensus size: 81
41833170 CCTTAATCGA
* * *
41833180 TAAAATGACTATTTTTCCCTTTTGAGGTAAAATAACTATTTTGCCCTTATGGGGTAAAATAATTG
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATAACTATTTTGCCCTTATAGGGTAAAATAATTG
*
41833245 TTTTGCCCCTATAATG
66 TTTTACCCCTATAATG
* * * * * * *
41833261 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTTTATGGTAAGATGATTG
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATAACTATTTTGCCCTTATAGGGTAAAATAATTG
41833326 TTTTACCCCTAT
66 TTTTACCCCTAT
41833338 GTGATGTATG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (81 bp):
TAAAATGACTATTTTGCCCTTATGAGGTAAAATAACTATTTTGCCCTTATAGGGTAAAATAATTG
TTTTACCCCTATAATG
Found at i:41833327 original size:27 final size:27
Alignment explanation
Indices: 41833180--41833329 Score: 133
Period size: 27 Copynumber: 5.6 Consensus size: 27
41833170 CCTTAATCGA
* * *
41833180 TAAAATGACTATTTTTCCCTTTTGA-GG
1 TAAAATGACTGTTTTGCCCTTAT-ATGG
* * **
41833207 TAAAATAACTATTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* * *
41833234 TAAAATAATTGTTTTGCCCCTATAAT-G
1 TAAAATGACTGTTTTGCCCTTAT-ATGG
* *
41833261 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
*
41833288 TAAAATGACTGTTTTGCCCTTTTATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
41833315 TAAGATGATTGTTTT
1 TAAAATGACTGTTTT
41833330 ACCCCTATGT
Statistics
Matches: 101, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 100 0.99
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATGG
Found at i:41833339 original size:54 final size:54
Alignment explanation
Indices: 41833180--41833340 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 54
41833170 CCTTAATCGA
* * * *
41833180 TAAAATGACTATTTTTCCCTTTTGA-GGTAAAATAACTATTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTTT-ATGGTAAAATGACTATTTTGCCCTTATGTGG
* * * *
41833234 TAAAATAATTGTTTTGCCCCTATAAT-GTAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTG-CCCTTTTATGGTAAAATGACTATTTTGCCCTTATGTGG
* * * * *
41833288 TAAAATGACTGTTTTGCCCTTTTATGGTAAGATGATTGTTTTACCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTTTATGGTAAAATGACTATTTTGCCCTTATGTG
41833341 ATGTATGTTT
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
53 7 0.08
54 75 0.86
55 5 0.06
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (54 bp):
TAAAATGACTGTTTTGCCCTTTTATGGTAAAATGACTATTTTGCCCTTATGTGG
Found at i:41849140 original size:49 final size:49
Alignment explanation
Indices: 41848923--41849154 Score: 234
Period size: 49 Copynumber: 4.7 Consensus size: 49
41848913 AGGCTATCTA
* * * *
41848923 GTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATTCG
** * * ** **
41848972 GTACATGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCA-TCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATTC-G
* * * *
41849022 ATACACATAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGTTATTGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATTCG
* *
41849073 GTACGCATAGTAGGCTGCACTTAGTACTACACATGCAACCAATTATTCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATTCG
*
41849122 GTACACGTAGTAGCCTGCACTTAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
41849155 CGTGACCTCA
Statistics
Matches: 146, Mismatches: 30, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
49 72 0.49
50 39 0.27
51 33 0.23
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATTCG
Found at i:41849427 original size:27 final size:27
Alignment explanation
Indices: 41849387--41849440 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
41849377 AAGTACAACC
* *
41849387 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
41849414 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
41849441 TCACATGACA
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:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:41858753 original size:42 final size:42
Alignment explanation
Indices: 41858634--41858762 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
41858624 CACAAAGTAC
* * * *
41858634 CATACCAATGCTATATCCCAGATATGGTATTACATGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
* * * * *
41858676 CATATCGATGCCAATAGCCCAGCTATGGTCCTACACG-AAGTTT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCT
41858719 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
41858761 CA
1 CA
41858763 GTAAACCTAA
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
42 36 0.51
43 34 0.49
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
Found at i:41864891 original size:20 final size:20
Alignment explanation
Indices: 41864856--41864923 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
41864846 CATTTCTATT
* *
41864856 CATATAAACTGTAATTCATC
1 CATATCAACAGTAATTCATC
* * *
41864876 CGTATCAATAGTAATTCATT
1 CATATCAACAGTAATTCATC
*
41864896 CATTTCAACAGTAATTCATC
1 CATATCAACAGTAATTCATC
*
41864916 CATTTCAA
1 CATATCAA
41864924 TATAACTCAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (20 bp):
CATATCAACAGTAATTCATC
Found at i:41865146 original size:22 final size:23
Alignment explanation
Indices: 41865091--41865147 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
41865081 TAAGCTGATT
*
41865091 AACAGTAAGCTCTATTGAGTTGA
1 AACAGTAAGCTCTATCGAGTTGA
*
41865114 AACGGTAAGCTCTATCGAGTTG-
1 AACAGTAAGCTCTATCGAGTTGA
41865136 AACAGTAAGCTC
1 AACAGTAAGCTC
41865148 ATACGAGCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGTTGA
Found at i:41865202 original size:24 final size:23
Alignment explanation
Indices: 41865139--41865203 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 23
41865129 CGAGTTGAAC
* *
41865139 AGTAAGCTCATACGAGCTGAATT
1 AGTAAGCTCATACGAGCTAAAAT
* *
41865162 GGTAAGCTCCA-ATGAGCTAACAAT
1 AGTAAGCT-CATACGAGCTAA-AAT
*
41865186 AGTAAGCTCTTACGAGCT
1 AGTAAGCTCATACGAGCT
41865204 GATATATCGG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (23 bp):
AGTAAGCTCATACGAGCTAAAAT
Found at i:41867064 original size:29 final size:30
Alignment explanation
Indices: 41867026--41867088 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 30
41867016 ACATTTCAGG
41867026 TCATCGAATACATTAAAGGTAATTTGTTGA
1 TCATCGAATACATTAAAGGTAATTTGTTGA
*
41867056 TCAT-GAATACATTGAAGGTAATTTGTTGA
1 TCATCGAATACATTAAAGGTAATTTGTTGA
41867085 TCAT
1 TCAT
41867089 TCATCGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (30 bp):
TCATCGAATACATTAAAGGTAATTTGTTGA
Found at i:41873211 original size:30 final size:30
Alignment explanation
Indices: 41873177--41873237 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
41873167 TCCTTAACTC
41873177 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
41873207 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
41873237 A
1 A
41873238 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:41876044 original size:42 final size:42
Alignment explanation
Indices: 41875952--41876058 Score: 99
Period size: 42 Copynumber: 2.5 Consensus size: 42
41875942 ATAGGTGCTA
* * * * * *
41875952 AACTAAAACCCATAAGGGTTGAACGGAAGCTCATAAAAGCTT
1 AACTGAAACCCATAAGGGTTAAACGAAAGCCCAGAAAAGCTG
* * * *
41875994 AACGGAAACCCGTAAGGGTTAAACTAAAGCCCAGAACAGCTG
1 AACTGAAACCCATAAGGGTTAAACGAAAGCCCAGAAAAGCTG
*
41876036 AACTGAAACTCATTAA-GGTTAAA
1 AACTGAAACCCA-TAAGGGTTAAA
41876059 TGGAAACTCA
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 48 0.94
43 3 0.06
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18
Consensus pattern (42 bp):
AACTGAAACCCATAAGGGTTAAACGAAAGCCCAGAAAAGCTG
Found at i:41885426 original size:28 final size:28
Alignment explanation
Indices: 41885386--41885450 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
41885376 ATGTACTAGA
*
41885386 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
41885414 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
41885442 ATACCCCTA
1 ATACCCCTA
41885451 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:41885614 original size:27 final size:27
Alignment explanation
Indices: 41885556--41885645 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
41885546 AGGAAGCGTC
41885556 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
41885584 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
41885611 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
41885640 CTGGTG
1 CTGGTG
41885646 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:41885664 original size:55 final size:56
Alignment explanation
Indices: 41885556--41885670 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
41885546 AGGAAGCGTC
* *
41885556 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
41885611 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
41885667 CTGG
1 CTGG
41885671 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:41887600 original size:18 final size:19
Alignment explanation
Indices: 41887563--41887600 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
41887553 CTAAGTTAGC
*
41887563 TAAAACTAAGAAAACAAAA
1 TAAAACTAAAAAAACAAAA
*
41887582 TAAAA-TAAAAAAACCAAA
1 TAAAACTAAAAAAACAAAA
41887600 T
1 T
41887601 TGTATCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.74, C:0.11, G:0.03, T:0.13
Consensus pattern (19 bp):
TAAAACTAAAAAAACAAAA
Found at i:41891193 original size:46 final size:48
Alignment explanation
Indices: 41891089--41891202 Score: 142
Period size: 48 Copynumber: 2.4 Consensus size: 48
41891079 TGTCTTCAAC
** * * *
41891089 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
* * *
41891137 ATGGGCTTACATGGCTCATTCCTATCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
41891183 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
41891203 TCTGTCCTNN
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 22 0.39
47 1 0.02
48 34 0.60
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
Found at i:41895761 original size:55 final size:55
Alignment explanation
Indices: 41895600--41895761 Score: 181
Period size: 55 Copynumber: 3.0 Consensus size: 55
41895590 NNNNNNNNNN
* *
41895600 CCTTAT-G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CCTTATAGAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTG
* * * * * *
41895653 CCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 CCTTATAGAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
*
41895708 CC-T-TAGAAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 CCTTATAGAAA-CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
41895762 AAACCCTAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
53 11 0.12
54 9 0.10
55 68 0.76
56 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (55 bp):
CCTTATAGAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
Found at i:41897969 original size:15 final size:13
Alignment explanation
Indices: 41897940--41897966 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41897930 GCTCGGTAGG
41897940 GACACGCCCGTGT
1 GACACGCCCGTGT
41897953 GACACGCCCGTGT
1 GACACGCCCGTGT
41897966 G
1 G
41897967 TGATTACTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:41900146 original size:13 final size:13
Alignment explanation
Indices: 41900128--41900152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41900118 CATTGGTGTA
41900128 CACGGCCATGTTG
1 CACGGCCATGTTG
41900141 CACGGCCATGTT
1 CACGGCCATGTT
41900153 AGTCTCCGTT
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:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (13 bp):
CACGGCCATGTTG
Found at i:41901327 original size:38 final size:39
Alignment explanation
Indices: 41901285--41901373 Score: 146
Period size: 38 Copynumber: 2.3 Consensus size: 39
41901275 GCAGGTCTCT
41901285 AGCCCGGATAACATTCCAGCAC-AGCCTGCGGGTT-TTTA
1 AGCCCGGATAACATTCCAGCACAAGCCTGC-GGTTCTTTA
41901323 AGCCCGGATAACATTCCAGCACAAAGCCTGCGGTTCTTTA
1 AGCCCGGATAACATTCCAGCAC-AAGCCTGCGGTTCTTTA
41901363 AGCCCGGATAA
1 AGCCCGGATAA
41901374 TACCTCAAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
38 22 0.46
39 4 0.08
40 22 0.46
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCCCGGATAACATTCCAGCACAAGCCTGCGGTTCTTTA
Found at i:41907991 original size:39 final size:40
Alignment explanation
Indices: 41907957--41908061 Score: 160
Period size: 39 Copynumber: 2.7 Consensus size: 40
41907947 ACCAGCTTGT
*
41907957 AGCCTGCAGGTCTCT-AGCCCGGATAACATTCCAGCACGA
1 AGCCTGCAGGTCTTTAAGCCCGGATAACATTCCAGCACGA
* * *
41907996 AGCCTGC-GGTTTTTAAGCCCAGATAACATTCTAGCACGA
1 AGCCTGCAGGTCTTTAAGCCCGGATAACATTCCAGCACGA
41908035 AGCCTGCAGGTCTTTAAGCCCGGATAA
1 AGCCTGCAGGTCTTTAAGCCCGGATAA
41908062 TACCTCAAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 5 0.09
39 36 0.62
40 17 0.29
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
AGCCTGCAGGTCTTTAAGCCCGGATAACATTCCAGCACGA
Found at i:41915061 original size:92 final size:94
Alignment explanation
Indices: 41914944--41915115 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 94
41914934 ATATCTGTGC
* * *
41914944 CGATGCCATGTCCCAGACATGGTCTTACAC-TG-ACACAT-CTCGTAGCTGATGCATGTCCCAGA
1 CGATGCCATGTCCCAAACATAGTCTTACACTTGCACACATAAT-GTAGCTGATGCATGTCCCAGA
41915006 CATGTCTTACACTAGCACTCATCTTAATGT
65 CATGTCTTACACTAGCACTCATCTTAATGT
* * * *
41915036 CGATGTCATGTCCCAAACATAGTCTTACACTTGCTCTCATAATGTGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAAACATAGTCTTACACTTGCACACATAATGTAGCTGATGCATGTCCCAGAC
41915101 ATGTCTTACACTAGC
66 ATGTCTTACACTAGC
41915116 TCACAATAAC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 27 0.39
93 2 0.03
94 40 0.57
95 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAAACATAGTCTTACACTTGCACACATAATGTAGCTGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCATCTTAATGT
Found at i:41915065 original size:48 final size:46
Alignment explanation
Indices: 41914890--41915115 Score: 166
Period size: 50 Copynumber: 4.8 Consensus size: 46
41914880 ATGGGGTAAG
* * *
41914890 GTGCCGATGTCATGTCCCATACATGGTCTTACA-TAAG-CTCTAGCATATCT
1 GTGCTGATG-CATGTCCCAGACAT-GTCTTACACT-AGCCTCT--CATA-AT
* *
41914940 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACATCTCGT-A-
1 GTGCTGATG-CATGTCCCAGACAT-GTCTTACACTAG-C-C-TCTCATAAT
*
41914988 --GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTAAT
1 GTGCTGATGCATGTCCCAGACATGTCTTACACTAGC-CTC-TCATAAT
* *
41915034 GT-C-GATGTCATGTCCCAAACATAGTCTTACACTTG-CTCTCATAAT
1 GTGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCCTCTCATAAT
41915079 GTGGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GT-GCTGATGCATGTCCCAGACATGTCTTACACTAGC
41915116 TCACAATAAC
Statistics
Matches: 148, Mismatches: 11, Indels: 37
0.76 0.06 0.19
Matches are distributed among these distances:
43 2 0.01
44 16 0.11
45 24 0.16
46 24 0.16
47 28 0.19
48 15 0.10
49 1 0.01
50 31 0.21
51 3 0.02
52 1 0.01
53 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
GTGCTGATGCATGTCCCAGACATGTCTTACACTAGCCTCTCATAAT
Found at i:41915093 original size:47 final size:46
Alignment explanation
Indices: 41914890--41915118 Score: 186
Period size: 46 Copynumber: 4.8 Consensus size: 46
41914880 ATGGGGTAAG
* * * *
41914890 GTGCCGATGTCATGTCCCATACATGGTCTTACA-TAAGCTCTAGCATATCT
1 GTGCTGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTC-ATCATA-AT
* * *
41914940 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACATC-T--C
1 GTGCTGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCATCATAAT
*
41914985 GTAGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTAAT
1 GT-GCTGATGCATGTCCCAGACATGTCTTACACTAG--CTCATCATAAT
* *
41915034 GT-C-GATGTCATGTCCCAAACATAGTCTTACACTTGCTC-TCATAAT
1 GTGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCATAAT
41915079 GTGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 GT-GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCA
41915119 CAATAACCTA
Statistics
Matches: 152, Mismatches: 13, Indels: 31
0.78 0.07 0.16
Matches are distributed among these distances:
44 10 0.07
45 25 0.16
46 33 0.22
47 29 0.19
48 16 0.11
49 5 0.03
50 33 0.22
51 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
GTGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCATCATAAT
Found at i:41915255 original size:27 final size:28
Alignment explanation
Indices: 41915225--41915292 Score: 75
Period size: 33 Copynumber: 2.3 Consensus size: 28
41915215 ACAAAATCAA
*
41915225 GCAATTCATGC-TATATTAAATTCAAAT
1 GCAATTCATACATATATTAAATTCAAAT
41915252 GCAATTCAACACATACATATATTAAATTCAAAT
1 GCAATT-----CATACATATATTAAATTCAAAT
41915285 GCAATTCA
1 GCAATTCA
41915293 ACACATACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
27 6 0.18
28 2 0.06
32 4 0.12
33 22 0.65
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (28 bp):
GCAATTCATACATATATTAAATTCAAAT
Found at i:41915273 original size:33 final size:33
Alignment explanation
Indices: 41915236--41915302 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
41915226 CAATTCATGC
41915236 TATATTAAATTCAAATGCAATTCAACACATACA
1 TATATTAAATTCAAATGCAATTCAACACATACA
41915269 TATATTAAATTCAAATGCAATTCAACACATACA
1 TATATTAAATTCAAATGCAATTCAACACATACA
41915302 T
1 T
41915303 TAACATTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (33 bp):
TATATTAAATTCAAATGCAATTCAACACATACA
Found at i:41929287 original size:49 final size:49
Alignment explanation
Indices: 41929217--41929345 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
41929207 TGAGTTCATG
* * * * *
41929217 TGTGTAGTACTAAGTGCAGGCTACTCCGTGTACCGGATAA-TT-GGTCGCA
1 TGTGTAGTACTAAGTGTAGGCTACT--GCGTACCCGATAACTTCGATCACA
*
41929266 TGTGTAGTACTAAGTGTAGGCTACATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGTAGGCTAC-TGCGTACCCGATAACTTCGATCACA
*
41929316 TGTGTAGTACTAAGTGCT-GGCTACTACGTA
1 TGTGTAGTACTAAGTG-TAGGCTACTGCGTA
41929346 TATTAGATGG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
48 11 0.16
49 30 0.43
50 27 0.39
51 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGTAGGCTACTGCGTACCCGATAACTTCGATCACA
Found at i:41929330 original size:50 final size:48
Alignment explanation
Indices: 41929216--41929340 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 48
41929206 GTGAGTTCAT
* * * * *
41929216 GTGTGTAGTACTAAGTGCAGGCTACTCCGTGTACCGGATAATTGGTCGC
1 GTGTGTAGTACTAAGTGTAGGCTACT-CGCGTACCCGATAATTGATCAC
*
41929265 ATGTGTAGTACTAAGTGTAGGCTACAT-GCGTACCCGATAACTTCGATCAC
1 GTGTGTAGTACTAAGTGTAGGCTAC-TCGCGTACCCGATAA-TT-GATCAC
41929315 GTGTGTAGTACTAAGTGCT-GGCTACT
1 GTGTGTAGTACTAAGTG-TAGGCTACT
41929341 ACGTATATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
48 11 0.17
49 26 0.40
50 27 0.42
51 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (48 bp):
GTGTGTAGTACTAAGTGTAGGCTACTCGCGTACCCGATAATTGATCAC
Found at i:41931292 original size:27 final size:27
Alignment explanation
Indices: 41931261--41931438 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41931251 TAAATTGTAC
41931261 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
41931288 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41931314 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
41931342 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
41931370 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41931397 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
41931424 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
41931439 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:41931375 original size:82 final size:81
Alignment explanation
Indices: 41931262--41931417 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41931252 AAATTGTACA
* *
41931262 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
41931326 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
41931343 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
41931408 TGCGAGTTGA
65 TGCGAATTGA
41931418 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:41931429 original size:82 final size:81
Alignment explanation
Indices: 41931258--41931438 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
41931248 GATTAAATTG
* *
41931258 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
41931323 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
41931339 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
41931403 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
41931421 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
41931439 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:41944454 original size:16 final size:16
Alignment explanation
Indices: 41944433--41944468 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41944423 ATTTTTATAA
41944433 ATATTAAATTATTTAT
1 ATATTAAATTATTTAT
* *
41944449 ATATTATATTTTTTAT
1 ATATTAAATTATTTAT
41944465 ATAT
1 ATAT
41944469 ATTCTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAAATTATTTAT
Found at i:41944483 original size:20 final size:18
Alignment explanation
Indices: 41944424--41944481 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
41944414 GTGAAAAATA
* *
41944424 TTTTTATAAATATTA-AA
1 TTTTTATATATATTATAT
*
41944441 TTATT-TATATATTATAT
1 TTTTTATATATATTATAT
*
41944458 TTTTTATATATATTCTAT
1 TTTTTATATATATTATAT
41944476 TATTTT
1 T-TTTT
41944482 TAATTGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 8 0.24
17 9 0.27
18 12 0.36
19 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATAT
Found at i:41945268 original size:10 final size:9
Alignment explanation
Indices: 41945255--41945300 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
41945245 ATATTTAAAA
41945255 ATTAAACATT
1 ATTAAA-ATT
41945265 ATTAAAATT
1 ATTAAAATT
*
41945274 ATTAAAAGT
1 ATTAAAATT
41945283 ATATAAAATT
1 AT-TAAAATT
*
41945293 ATAAAAAT
1 ATTAAAAT
41945301 ATTTTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 18 0.56
10 14 0.44
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (9 bp):
ATTAAAATT
Found at i:41945269 original size:17 final size:17
Alignment explanation
Indices: 41945225--41945271 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
41945215 TTAATTTTTT
41945225 AAAAA-ATTAAAAAATA
1 AAAAATATTAAAAAATA
*
41945241 AAAAATATTTAAAAATTA
1 AAAAATA-TTAAAAAATA
* *
41945259 AACATTATTAAAA
1 AAAAATATTAAAA
41945272 TTATTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 14 0.54
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATATTAAAAAATA
Found at i:41945271 original size:27 final size:27
Alignment explanation
Indices: 41945241--41945304 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
41945231 TTAAAAAATA
41945241 AAAAATATTTAAAA-AT-TAAACATTAT
1 AAAAATATTTAAAAGATATAAA-ATTAT
*
41945267 TAAAAT-TATTAAAAGTATATAAAATTAT
1 AAAAATAT-TTAAAAG-ATATAAAATTAT
41945295 AAAAATATTT
1 AAAAATATTT
41945305 TTTAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
25 1 0.03
26 11 0.35
28 14 0.45
29 5 0.16
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
AAAAATATTTAAAAGATATAAAATTAT
Found at i:41946096 original size:26 final size:26
Alignment explanation
Indices: 41946023--41946098 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
41946013 AACAATTAAA
* *
41946023 TAATTTTTAAAATTATAAAAATAATTT
1 TAATTTTTATAATT-TTAAAATAATTT
* * *
41946050 TATTTTTTATATTTTTAAAATATTTT
1 TAATTTTTATAATTTTAAAATAATTT
41946076 TAATTTTTATAATTTTAAAATAA
1 TAATTTTTATAATTTTAAAATAA
41946099 ATTAATTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 30 0.73
27 11 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TAATTTTTATAATTTTAAAATAATTT
Found at i:41951608 original size:8 final size:7
Alignment explanation
Indices: 41951582--41951607 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
41951572 TATTATTTTA
41951582 AAAAATT
1 AAAAATT
41951589 AAAAATT
1 AAAAATT
41951596 AAAAATT
1 AAAAATT
41951603 AAAAA
1 AAAAA
41951608 AATATCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:41952584 original size:44 final size:44
Alignment explanation
Indices: 41952534--41952620 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
41952524 AGAAAAATTA
41952534 ATTTTTGTGAATTAGAAAGAAAAATTATGATTTCTTCTATTTTG
1 ATTTTTGTGAATTAGAAAGAAAAATTATGATTTCTTCTATTTTG
*
41952578 ATTTTTGTGAATTAGAATGAAAAATTATGATTTCTTCTATTTT
1 ATTTTTGTGAATTAGAAAGAAAAATTATGATTTCTTCTATTTT
41952621 CTTTCCTCGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (44 bp):
ATTTTTGTGAATTAGAAAGAAAAATTATGATTTCTTCTATTTTG
Found at i:41952714 original size:24 final size:24
Alignment explanation
Indices: 41952682--41952727 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
41952672 AATAATTTAC
*
41952682 ATATTTTAT-TAAACTTAAATAAGA
1 ATATATTATATAAA-TTAAATAAGA
*
41952706 ATATATTATATTAATTAAATAA
1 ATATATTATATAAATTAAATAA
41952728 TAATCTTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATATTATATAAATTAAATAAGA
Found at i:41959856 original size:33 final size:33
Alignment explanation
Indices: 41959810--41959878 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
41959800 TTACTATCCT
* * * **
41959810 AGTGGACTTTCTCTTTTCTTTGTTTATTGTCCC
1 AGTGGACTATCTCTATTCTGTGTTTACAGTCCC
41959843 AGTGGACTATCTCTATTCTGTGTTTACAGTCCC
1 AGTGGACTATCTCTATTCTGTGTTTACAGTCCC
41959876 AGT
1 AGT
41959879 ATGGACGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (33 bp):
AGTGGACTATCTCTATTCTGTGTTTACAGTCCC
Found at i:41962157 original size:71 final size:71
Alignment explanation
Indices: 41962041--41962181 Score: 273
Period size: 71 Copynumber: 2.0 Consensus size: 71
41962031 GTTAAAGAAG
*
41962041 GGGTGAGTTTGGAAACTCAGTGTGTAAGGAAACCCATCCAAAGCCCAAGTCAGCTCAAGCCCATT
1 GGGTGAGTTTGGAAACTCAATGTGTAAGGAAACCCATCCAAAGCCCAAGTCAGCTCAAGCCCATT
41962106 GGGCCA
66 GGGCCA
41962112 GGGTGAGTTTGGAAACTCAATGTGTAAGGAAACCCATCCAAAGCCCAAGTCAGCTCAAGCCCATT
1 GGGTGAGTTTGGAAACTCAATGTGTAAGGAAACCCATCCAAAGCCCAAGTCAGCTCAAGCCCATT
41962177 GGGCC
66 GGGCC
41962182 TAAGCCCATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (71 bp):
GGGTGAGTTTGGAAACTCAATGTGTAAGGAAACCCATCCAAAGCCCAAGTCAGCTCAAGCCCATT
GGGCCA
Found at i:41962220 original size:32 final size:32
Alignment explanation
Indices: 41962176--41962269 Score: 93
Period size: 32 Copynumber: 2.8 Consensus size: 32
41962166 TCAAGCCCAT
*
41962176 TGGGCCTAAGCCC-ATTCAGATAACAGTGATAC
1 TGGGCC-AAGCCCTATTCAGATAACAGTGAAAC
* * *
41962208 TGGGCCAGAGCCCTTTTCAGATTACA-TTAAAC
1 TGGGCCA-AGCCCTATTCAGATAACAGTGAAAC
41962240 TGGGCCATAGCCCCTTATTCAGATAACAGT
1 TGGGCCA-AG-CCC-TATTCAGATAACAGT
41962270 ATGGCCCATA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
31 1 0.02
32 24 0.48
33 13 0.26
34 11 0.22
35 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (32 bp):
TGGGCCAAGCCCTATTCAGATAACAGTGAAAC
Found at i:41969119 original size:54 final size:54
Alignment explanation
Indices: 41969055--41969158 Score: 208
Period size: 54 Copynumber: 1.9 Consensus size: 54
41969045 ATGATAGCAG
41969055 TACAAGAGGTATCTATGTTAGTTTATTCACCCTTTTTCAAATTTTTATGCGCAC
1 TACAAGAGGTATCTATGTTAGTTTATTCACCCTTTTTCAAATTTTTATGCGCAC
41969109 TACAAGAGGTATCTATGTTAGTTTATTCACCCTTTTTCAAATTTTTATGC
1 TACAAGAGGTATCTATGTTAGTTTATTCACCCTTTTTCAAATTTTTATGC
41969159 CTCGACATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.44
Consensus pattern (54 bp):
TACAAGAGGTATCTATGTTAGTTTATTCACCCTTTTTCAAATTTTTATGCGCAC
Found at i:41971126 original size:47 final size:47
Alignment explanation
Indices: 41971073--41971485 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
41971063 TTAGGATTCT
41971073 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41971120 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41971167 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
41971214 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
41971263 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41971310 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41971357 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
41971404 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
41971451 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41971486 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:41971356 original size:190 final size:188
Alignment explanation
Indices: 41971073--41971485 Score: 727
Period size: 190 Copynumber: 2.2 Consensus size: 188
41971063 TTAGGATTCT
41971073 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
41971138 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* ** *
41971203 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
131 CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAAGGCCGAATGGCCA
41971263 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
41971328 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
41971393 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
131 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCA
* * *
41971451 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41971486 TCCCGAAGGG
Statistics
Matches: 214, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 53 0.25
190 161 0.75
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (188 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCA
Found at i:41971660 original size:37 final size:37
Alignment explanation
Indices: 41971604--41971682 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41971594 CCGAGCTCTA
* * *
41971604 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
41971641 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
41971678 AAGAC
1 AAGAC
41971683 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:41977153 original size:25 final size:25
Alignment explanation
Indices: 41977124--41977171 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41977114 TAATAACATG
* * *
41977124 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
41977149 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
41977172 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:41980366 original size:21 final size:21
Alignment explanation
Indices: 41980340--41980408 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
41980330 TTGTGCCGAT
*
41980340 TTTTCTTAAGCAATTCCTTTA
1 TTTTCTTAAGCAATTCCTCTA
41980361 TTTTCTTAAGCAATTCCTCTA
1 TTTTCTTAAGCAATTCCTCTA
*
41980382 TTTTCTTAAGCAATTCCTCTC
1 TTTTCTTAAGCAATTCCTCTA
41980403 TTTTCT
1 TTTTCT
41980409 CTTCCATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.20, C:0.23, G:0.04, T:0.52
Consensus pattern (21 bp):
TTTTCTTAAGCAATTCCTCTA
Found at i:41981804 original size:11 final size:11
Alignment explanation
Indices: 41981770--41981826 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
41981760 GCATGGTATG
41981770 TATGATATGCA
1 TATGATATGCA
* *
41981781 CATGACATG--
1 TATGATATGCA
41981790 TATGATATGCA
1 TATGATATGCA
41981801 TATGATATG--
1 TATGATATGCA
*
41981810 TATGATAGGCA
1 TATGATATGCA
*
41981821 CATGAT
1 TATGAT
41981827 GTATTCATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (11 bp):
TATGATATGCA
Found at i:41981826 original size:20 final size:20
Alignment explanation
Indices: 41981761--41981826 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
41981751 TTTTGATAAG
*
41981761 CATGGTATGTATGATATGCA
1 CATGATATGTATGATATGCA
*
41981781 CATGACATGTATGATATGCA
1 CATGATATGTATGATATGCA
* *
41981801 TATGATATGTATGATAGGCA
1 CATGATATGTATGATATGCA
41981821 CATGAT
1 CATGAT
41981827 GTATTCATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (20 bp):
CATGATATGTATGATATGCA
Found at i:41981902 original size:24 final size:24
Alignment explanation
Indices: 41981876--41982007 Score: 210
Period size: 24 Copynumber: 5.4 Consensus size: 24
41981866 GAGGAAGTGC
*
41981876 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
41981900 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
41981924 AAAAAAGGGCTTATGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
41981950 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
41981974 AAAAGGGCTTTTACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
41981998 AAAAGAGGCT
1 AAAAG-GGCT
41982008 AGGCCTCCAA
Statistics
Matches: 102, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
24 74 0.73
25 4 0.04
26 24 0.24
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:41981954 original size:50 final size:48
Alignment explanation
Indices: 41981876--41982007 Score: 210
Period size: 50 Copynumber: 2.7 Consensus size: 48
41981866 GAGGAAGTGC
*
41981876 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
41981924 AAAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* *
41981974 AAAAGGGCTTTTACCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCT
41982008 AGGCCTCCAA
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
48 27 0.35
49 4 0.05
50 47 0.60
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:41984803 original size:19 final size:22
Alignment explanation
Indices: 41984765--41984812 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 22
41984755 AGACATGAAA
41984765 ATGGTTTGTAGTCAATGTGTAT
1 ATGGTTTGTAGTCAATGTGTAT
41984787 ATGGTTT-T-GTC-ATGTGTA-
1 ATGGTTTGTAGTCAATGTGTAT
41984805 ATTGGTTT
1 A-TGGTTT
41984813 ATTTGCATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.52
20 3 0.12
21 1 0.04
22 7 0.28
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (22 bp):
ATGGTTTGTAGTCAATGTGTAT
Found at i:41986109 original size:15 final size:15
Alignment explanation
Indices: 41986089--41986118 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
41986079 ATAATCCTAA
41986089 TAATTATCCTAATAT
1 TAATTATCCTAATAT
41986104 TAATTATCCTAATAT
1 TAATTATCCTAATAT
41986119 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:41986728 original size:4 final size:4
Alignment explanation
Indices: 41986721--41986753 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
41986711 TTTTATTATT
41986721 TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
41986754 TGAACCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:41989684 original size:4 final size:4
Alignment explanation
Indices: 41989670--41989714 Score: 63
Period size: 4 Copynumber: 10.8 Consensus size: 4
41989660 AAATAAAACA
*
41989670 AAAT AAAAT AAAT AAAT AAAT AAAT AAAT AAAT AATAG AAAT AAA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAA
41989715 ATTTAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 30 0.81
5 7 0.19
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:41996143 original size:15 final size:15
Alignment explanation
Indices: 41996123--41996152 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
41996113 ATAATCCTAA
41996123 TAATTATCCTAATAT
1 TAATTATCCTAATAT
41996138 TAATTATCCTAATAT
1 TAATTATCCTAATAT
41996153 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATCCTAATAT
Done.