Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 153 of 259
Found at i:50168137 original size:66 final size:66
Alignment explanation
Indices: 50168031--50168156 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
50168021 GTGCTTTAAC
* * *
50168031 AGTAGGCACTAAAGTGCAAGATAGTAAGCACCGAAGTGCAATGAAGTAGTCACTATACTGCAAAG
1 AGTAGGCACTAAAGTGCAAGATAATAAGCACCGAAGTGCAAAGAAGTAGGCACTATACTGCAAAG
50168096 A
66 A
* * * *
50168097 AGTAGGCACTAAAGTGCAA-ATCAATAGGGACC-ATAGTGCAAAGTAGTAGGCACTGTACTG
1 AGTAGGCACTAAAGTGCAAGAT-AATAAGCACCGA-AGTGCAAAGAAGTAGGCACTATACTG
50168157 AAGAACAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
65 3 0.06
66 48 0.94
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (66 bp):
AGTAGGCACTAAAGTGCAAGATAATAAGCACCGAAGTGCAAAGAAGTAGGCACTATACTGCAAAG
A
Found at i:50168169 original size:66 final size:65
Alignment explanation
Indices: 50168028--50168171 Score: 148
Period size: 66 Copynumber: 2.2 Consensus size: 65
50168018 AAAGTGCTTT
* * * * *
50168028 AACAGTAGGCACTAAAGTGCAAGATAGTAAGCACCGAAGTGCAATGAAGTAGTCACTATACTGCA
1 AACAATAGGCACTAAAGTGCAAGATAATAAGCACCGAAGTGCAAAGAAGTAGGCACTATACTGAA
* * * * *
50168093 AAGAAGTAGGCACTAAAGTGCAA-ATCAATAGGGACC-ATAGTGCAAAGTAGTAGGCACTGTACT
1 AACAA-TAGGCACTAAAGTGCAAGAT-AATAAGCACCGA-AGTGCAAAGAAGTAGGCACTATACT
50168156 GAA
63 GAA
50168159 GAACAATAGGCAC
1 -AACAATAGGCAC
50168172 CAATACGCAA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
65 6 0.09
66 54 0.84
67 4 0.06
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (65 bp):
AACAATAGGCACTAAAGTGCAAGATAATAAGCACCGAAGTGCAAAGAAGTAGGCACTATACTGAA
Found at i:50170185 original size:10 final size:9
Alignment explanation
Indices: 50170151--50170185 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
50170141 TTTACATAAA
50170151 CGGGCCCAT
1 CGGGCCCAT
50170160 -GGGCCCAT
1 CGGGCCCAT
50170168 CGGGCCCAT
1 CGGGCCCAT
50170177 CGAGGCCCA
1 CG-GGCCCA
50170186 AAATAGTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 10 0.42
10 6 0.25
ACGTcount: A:0.14, C:0.43, G:0.34, T:0.09
Consensus pattern (9 bp):
CGGGCCCAT
Found at i:50174421 original size:15 final size:15
Alignment explanation
Indices: 50174397--50174441 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
50174387 CTTACAACCC
50174397 ATAC-TCTAGGCCCA
1 ATACTTCTAGGCCCA
50174411 ATACTTCTAGGCCCA
1 ATACTTCTAGGCCCA
50174426 ATACTTCTAGGCCCA
1 ATACTTCTAGGCCCA
50174441 A
1 A
50174442 ATTCAGGGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 4 0.13
15 26 0.87
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.24
Consensus pattern (15 bp):
ATACTTCTAGGCCCA
Found at i:50185136 original size:40 final size:39
Alignment explanation
Indices: 50185047--50185308 Score: 329
Period size: 39 Copynumber: 6.6 Consensus size: 39
50185037 TTGAATGATG
*
50185047 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
50185085 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
50185126 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
50185165 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
50185204 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
50185243 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
50185282 AACCGGGCTATGCCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
50185309 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
39 132 0.66
40 57 0.28
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:50193291 original size:40 final size:39
Alignment explanation
Indices: 50193202--50193463 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
50193192 TTGAATGATG
*
50193202 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
50193240 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
50193281 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
50193320 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
50193359 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
50193398 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
50193437 AACCGGGCTATGCCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
50193464 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 130 0.65
40 57 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:50197049 original size:46 final size:46
Alignment explanation
Indices: 50196996--50197169 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
50196986 TATCTGGGCA
*
50196996 TCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATAGATGCAAATG
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* * * *
50197042 TCCGAGCTCATTGAGTTGAGTCCGAGTT--CGT-GAGATGTAACTAGG
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCAA--ATG
* * * * *
50197087 CATCCGAGCTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* *
50197135 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCC-GAGCTCATTGAGTTGAGTCCGAGTTCACTTAT
50197170 GGGCGGGTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 7 0.07
44 2 0.02
45 4 0.04
46 56 0.54
47 25 0.24
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
Found at i:50197151 original size:93 final size:93
Alignment explanation
Indices: 50196992--50197164 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
50196982 AGGATATCTG
* **
50196992 GGCATCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATAGATGCAAATGTCCGAGCTCATTGAG
1 GGCATCCGAGCTCATTAAGTTGAGTCCAAGTTCACTTATAGATGCAAATGTCCGAGCTCATTGAG
50197057 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
50197085 GGCATCCGAGCTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGA
1 GGCATCCGAGCTCATTAAGTTGAGTCCAAGTTCACTTATAGATGCAAATGTCC-GAGCTCATTGA
50197149 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
50197165 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCATTAAGTTGAGTCCAAGTTCACTTATAGATGCAAATGTCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:50199368 original size:63 final size:64
Alignment explanation
Indices: 50199264--50199470 Score: 179
Period size: 63 Copynumber: 3.2 Consensus size: 64
50199254 CATCATGTGT
*
50199264 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TA-AATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
50199329 TAG
62 TAG
* * * * * * * *
50199332 ACAAGAGAGCTA-GGGATACATGTAGCTAGGTCGCATGCGTGGTTCCAGATGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGT-GATAC-TATG-TGTACACCATGT
50199396 AG
63 AG
* * * * *
50199398 ACAAGACAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATAAA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
50199460 TACAAGAGAGC
1 -ACAAGAGAGC
50199471 CAAAATTATG
Statistics
Matches: 112, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
62 1 0.01
63 38 0.34
64 7 0.06
65 7 0.06
66 37 0.33
67 8 0.07
68 14 0.12
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:50199889 original size:28 final size:28
Alignment explanation
Indices: 50199857--50199913 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
50199847 CTGAATGAGA
50199857 TATCAAATTAGAGCTTAATGAGTCTATT
1 TATCAAATTAGAGCTTAATGAGTCTATT
50199885 TATCAAATTAGAGCTTAATGAGTCTATT
1 TATCAAATTAGAGCTTAATGAGTCTATT
50199913 T
1 T
50199914 TCATATAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (28 bp):
TATCAAATTAGAGCTTAATGAGTCTATT
Found at i:50201800 original size:20 final size:21
Alignment explanation
Indices: 50201775--50201814 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
50201765 ACATGCAGTT
50201775 TAAAATTTTCAAAT-TTTTCC
1 TAAAATTTTCAAATGTTTTCC
50201795 TAAAATTTTCAAATGTTTTC
1 TAAAATTTTCAAATGTTTTC
50201815 GATTTAGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (21 bp):
TAAAATTTTCAAATGTTTTCC
Found at i:50202342 original size:23 final size:23
Alignment explanation
Indices: 50202312--50202356 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
50202302 ATAAGAGTTT
50202312 GAAATGGGTAGCTTGTTGGTGCC
1 GAAATGGGTAGCTTGTTGGTGCC
50202335 GAAATGGGTAGCTTGTTGGTGC
1 GAAATGGGTAGCTTGTTGGTGC
50202357 AAAATTCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.11, G:0.40, T:0.31
Consensus pattern (23 bp):
GAAATGGGTAGCTTGTTGGTGCC
Found at i:50229329 original size:6 final size:6
Alignment explanation
Indices: 50229299--50229423 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
50229289 AAGAAACACT
* * *
50229299 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * * *
50229348 ATCAGA ATCAGA TTCATA ATCAGA ATTAG- GTGACAGA ATCAAA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
50229397 ATCAGGTA A-CATA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
50229424 GTGAATACAA
Statistics
Matches: 88, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 71 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:50229347 original size:43 final size:43
Alignment explanation
Indices: 50229299--50229400 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
50229289 AAGAAACACT
*
50229299 ATCAGAA-CTAGAATCAAAATGAGAATCAGAATCAGGTGACAGA
1 ATCAGAATC-AGAATCAAAATCAGAATCAGAATCAGGTGACAGA
* * * *
50229342 ATCAGAATCAGAATCAGATTCATAATCAGAATTAGGTGACAGA
1 ATCAGAATCAGAATCAAAATCAGAATCAGAATCAGGTGACAGA
* *
50229385 ATCAAAATCAGTATCA
1 ATCAGAATCAGAATCA
50229401 GGTAACATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 50 0.98
44 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (43 bp):
ATCAGAATCAGAATCAAAATCAGAATCAGAATCAGGTGACAGA
Found at i:50229351 original size:25 final size:25
Alignment explanation
Indices: 50229320--50229423 Score: 96
Period size: 25 Copynumber: 4.4 Consensus size: 25
50229310 AATCAAAATG
50229320 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
*
50229345 AGAATCAG-A--A--T--CAGATTC
1 AGAATCAGAATCAGGTGACAGAATC
* *
50229363 ATAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
* * * *
50229388 AAAATCAGTATCAGGTAACATAATC
1 AGAATCAGAATCAGGTGACAGAATC
50229413 AGAATCAGAAT
1 AGAATCAGAAT
50229424 GTGAATACAA
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
18 13 0.21
19 1 0.02
20 1 0.02
21 1 0.02
22 1 0.02
23 1 0.02
24 1 0.02
25 43 0.69
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGGTGACAGAATC
Found at i:50229401 original size:43 final size:44
Alignment explanation
Indices: 50229322--50229420 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
50229312 TCAAAATGAG
* *
50229322 AATCAGAATCAGGTGACAGAATCAGAATCAGAATCAGAT-TCAT
1 AATCAGAATCAGGTGACAGAATCAAAATCAGAATCAGATAACAT
* * *
50229365 AATCAGAATTAGGTGACAGAATCAAAATCAGTATCAGGTAACAT
1 AATCAGAATCAGGTGACAGAATCAAAATCAGAATCAGATAACAT
50229409 AATCAGAATCAG
1 AATCAGAATCAG
50229421 AATGTGAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
43 35 0.71
44 14 0.29
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (44 bp):
AATCAGAATCAGGTGACAGAATCAAAATCAGAATCAGATAACAT
Found at i:50229577 original size:27 final size:26
Alignment explanation
Indices: 50229540--50229646 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
50229530 AACATGGCTG
* *
50229540 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
50229566 CCAGATACAGATA-TGTGGCAAAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
50229592 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
50229619 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
50229646 C
1 C
50229647 TTAACAAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
25 7 0.10
26 20 0.28
27 36 0.51
28 8 0.11
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:50229615 original size:53 final size:53
Alignment explanation
Indices: 50229540--50229646 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
50229530 AACATGGCTG
* *
50229540 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGAT-ATGTGGCAAAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
*
50229592 CCAGAACAGATATTTGTGGCAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
50229646 C
1 C
50229647 TTAACAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 12 0.24
53 23 0.46
54 15 0.30
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
Found at i:50229833 original size:22 final size:22
Alignment explanation
Indices: 50229805--50229853 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
50229795 GCAAATACGT
50229805 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACACAGCCAT-ATGTAGG
*
50229827 TTGGCACAGAGCCATATGTAGG
1 TTGGCACACAGCCATATGTAGG
50229849 TTGGC
1 TTGGC
50229854 GCAAAACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (22 bp):
TTGGCACACAGCCATATGTAGG
Found at i:50229863 original size:22 final size:22
Alignment explanation
Indices: 50229805--50229864 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
50229795 GCAAATACGT
* *
50229805 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACAAAACCAT-ATGTAGG
* *
50229827 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAAAACCATATGTAGG
*
50229849 TTGGCGCAAAACCATA
1 TTGGCACAAAACCATA
50229865 ATCAGAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAACCATATGTAGG
Found at i:50230315 original size:27 final size:27
Alignment explanation
Indices: 50230258--50230337 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
50230248 GGGCAAAATG
* *
50230258 GTAATTTTAGCCC-ACAAGGGTA-TTCA
1 GTAATTCTA-CCCTACAGGGGTATTTCA
50230284 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
50230311 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
50230338 ATAACTTTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
25 3 0.06
26 16 0.33
27 30 0.61
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:50234767 original size:24 final size:23
Alignment explanation
Indices: 50234722--50234768 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
50234712 TACAATCAGA
* *
50234722 GAATGAGCTAAAGAAGACAAGGG
1 GAATGAGCAAAAGAAGAAAAGGG
*
50234745 GAATGAGTCAAAAGAATAAAAGGG
1 GAATGAG-CAAAAGAAGAAAAGGG
50234769 AAGATTCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.51, C:0.06, G:0.32, T:0.11
Consensus pattern (23 bp):
GAATGAGCAAAAGAAGAAAAGGG
Found at i:50245175 original size:28 final size:27
Alignment explanation
Indices: 50245121--50245220 Score: 137
Period size: 28 Copynumber: 3.6 Consensus size: 27
50245111 CAGGAAATTG
50245121 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGC-GGTTC-AATTGTATA
50245150 GCACTAAGTGTGCGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGTTCAA-TTGTATA
* *
50245178 GCACTAAGTGTGCGAGTTCGATTATATA
1 GCACTAAGTGTGCG-GTTCAATTGTATA
*
50245206 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
50245221 ACTTACTATA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
27 3 0.05
28 45 0.68
29 18 0.27
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGGTTCAATTGTATA
Found at i:50249368 original size:40 final size:40
Alignment explanation
Indices: 50249323--50249474 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
50249313 ATAACCAAAA
* * *
50249323 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
50249363 GCACAAATACCTTCGGGTCTTAGCCCGAATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
50249403 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
50249443 GCATAAATGCCTTCGAGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
50249475 CATTCAGATG
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 92 0.95
41 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:50257505 original size:40 final size:40
Alignment explanation
Indices: 50257460--50257610 Score: 205
Period size: 40 Copynumber: 3.8 Consensus size: 40
50257450 ATAATCACAA
* * *
50257460 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
50257500 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
50257540 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
50257580 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
50257611 ACATTCAGAT
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:50257611 original size:40 final size:41
Alignment explanation
Indices: 50257440--50257611 Score: 201
Period size: 40 Copynumber: 4.3 Consensus size: 41
50257430 TCTTCGGAAT
* * *
50257440 TTAG-CCGGATATAATC-ACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCAACTAGCACAAATGCCTTCGGGTC
* * * * *
50257479 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCAACTAGCACAAATGCCTTCGGGTC
* *
50257519 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCAACTAGCACAAATGCCTTCGGGTC
* *
50257559 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCAACTAGCACAAATGCCTTCGGGTC
50257599 TTAGCCCGGATAA
1 TTAGCCCGGATAA
50257612 CATTCAGATA
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 5 0.04
40 106 0.92
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
TTAGCCCGGATAAAATCAACTAGCACAAATGCCTTCGGGTC
Found at i:50264493 original size:31 final size:28
Alignment explanation
Indices: 50264447--50264507 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
50264437 ATTTTAATCC
*
50264447 TTTTATATATAATTTATTTATTTTAAATA
1 TTTTATATATAATTTATTT-TTATAAATA
50264476 TTTTATATATATTATTTATTTTTATAAATA
1 TTTTATATATA--ATTTATTTTTATAAATA
50264506 TT
1 TT
50264508 ATTTATACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.38
30 10 0.34
31 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTATATATAATTTATTTTTATAAATA
Found at i:50264500 original size:19 final size:19
Alignment explanation
Indices: 50264476--50264513 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
50264466 ATTTTAAATA
*
50264476 TTTTATATATATTATTTAT
1 TTTTATAAATATTATTTAT
50264495 TTTTATAAATATTATTTAT
1 TTTTATAAATATTATTTAT
50264514 ACATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATAAATATTATTTAT
Found at i:50264585 original size:9 final size:10
Alignment explanation
Indices: 50264570--50264632 Score: 58
Period size: 9 Copynumber: 6.2 Consensus size: 10
50264560 ATCATGTTAT
50264570 TTATATTTTA
1 TTATATTTTA
50264580 -TATATTTTA
1 TTATATTTTA
50264589 TTTATAGCTTTTA
1 -TTATA--TTTTA
**
50264602 TTATAAATTA
1 TTATATTTTA
50264612 -TATATTTTA
1 TTATATTTTA
*
50264621 TTATATATTA
1 TTATATTTTA
50264631 TT
1 TT
50264633 CCCTATATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.37
10 13 0.30
11 4 0.09
12 5 0.12
13 5 0.12
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTATATTTTA
Found at i:50264676 original size:15 final size:15
Alignment explanation
Indices: 50264566--50264684 Score: 61
Period size: 14 Copynumber: 7.7 Consensus size: 15
50264556 ATTTATCATG
*
50264566 TTATTTATATTTTATA
1 TTATTT-TATTATATA
50264582 -TATTTTATT-TATA
1 TTATTTTATTATATA
**
50264595 -GCTTTTATTATAAATTA
1 TTATTTTATTAT--A-TA
50264612 TATATTTTATTATATA
1 T-TATTTTATTATATA
*
50264628 TTATTCCCTATATTATCT-
1 TTATT---T-TATTATATA
*
50264646 TCATTTT-TTATATA
1 TTATTTTATTATATA
*
50264660 TTATTTTATTATTTA
1 TTATTTTATTATATA
50264675 TTA-TTTATTA
1 TTATTTTATTA
50264685 GTACATATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
13 16 0.20
14 19 0.23
15 19 0.23
16 4 0.05
17 3 0.04
18 5 0.06
19 16 0.20
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (15 bp):
TTATTTTATTATATA
Found at i:50268812 original size:29 final size:28
Alignment explanation
Indices: 50268755--50268840 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 28
50268745 TACCTGTATC
*
50268755 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
*
50268783 TGGCCCATTAAGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCC-AATCACATTCATA
* *
50268812 TGGCCCGTTAAGCCCAGTCACATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
50268840 T
1 T
50268841 TCATGCTCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
28 27 0.52
29 25 0.48
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAAGCCCAATCACATTCATA
Found at i:50268920 original size:17 final size:17
Alignment explanation
Indices: 50268898--50268932 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
50268888 TTACCTGATA
50268898 TGGGCCCAACAGCCCAT
1 TGGGCCCAACAGCCCAT
**
50268915 TGGGCCCATTAGCCCAT
1 TGGGCCCAACAGCCCAT
50268932 T
1 T
50268933 TCAGCCCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (17 bp):
TGGGCCCAACAGCCCAT
Found at i:50269101 original size:24 final size:25
Alignment explanation
Indices: 50269050--50269101 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
50269040 GTAGCCCAAC
*
50269050 TTTCGACTTTTTCGACATTTCGACT
1 TTTCCACTTTTTCGACATTTCGACT
*
50269075 TTTCCACTTTTTCG-CATTTCGGCT
1 TTTCCACTTTTTCGACATTTCGACT
50269099 TTT
1 TTT
50269102 GCCGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.52
Consensus pattern (25 bp):
TTTCCACTTTTTCGACATTTCGACT
Found at i:50273115 original size:29 final size:29
Alignment explanation
Indices: 50273049--50273157 Score: 116
Period size: 29 Copynumber: 3.8 Consensus size: 29
50273039 TACCTATATT
* *
50273049 TGGCCCATTAAGCCCAA-TCATAT-TCATA
1 TGGCCCATTAGGCCCAAGTCACATGT-ATA
* *
50273077 TGGCCTATTAGGCCCAAGTCACCTGTATA
1 TGGCCCATTAGGCCCAAGTCACATGTATA
* * * *
50273106 TAGCCCATTAGGCGCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAGTCACATGTATA
50273135 TGGCCCATTAGGCCC-AGTCACAT
1 TGGCCCATTAGGCCCAAGTCACAT
50273158 TCATATTCAT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
28 22 0.33
29 43 0.65
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAGTCACATGTATA
Found at i:50273399 original size:16 final size:16
Alignment explanation
Indices: 50273390--50273438 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
50273380 CTTTTCGGCA
* *
50273390 TTTTGACTTTTCAACT
1 TTTTGACATTTCGACT
50273406 TTTTGACATTTCGACT
1 TTTTGACATTTCGACT
50273422 TTTTGACATTTCGACT
1 TTTTGACATTTCGACT
50273438 T
1 T
50273439 CTGTCGATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.53
Consensus pattern (16 bp):
TTTTGACATTTCGACT
Found at i:50273406 original size:24 final size:24
Alignment explanation
Indices: 50273374--50273424 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
50273364 ATAGCCCAAC
* * *
50273374 TTTCGACTTTTCGGCATTTTGACT
1 TTTCAACTTTTCGACATTTCGACT
*
50273398 TTTCAACTTTTTGACATTTCGACT
1 TTTCAACTTTTCGACATTTCGACT
50273422 TTT
1 TTT
50273425 TGACATTTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.20, G:0.12, T:0.53
Consensus pattern (24 bp):
TTTCAACTTTTCGACATTTCGACT
Found at i:50279299 original size:39 final size:40
Alignment explanation
Indices: 50279095--50279317 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
50279085 TTGAATGCTG
* * * * * *
50279095 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
50279135 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
50279175 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
50279215 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
50279255 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
50279294 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
50279318 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:50287137 original size:80 final size:79
Alignment explanation
Indices: 50287000--50287224 Score: 247
Period size: 80 Copynumber: 2.8 Consensus size: 79
50286990 TTGAATGCTG
* * * * * * * *
50287000 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCATT
50287064 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* *
50287080 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
50287145 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
50287160 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAAT-CGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTA-TTAAATCCGGGCTAAGTCCCGAAGGCATTT
50287224 G
65 G
50287225 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
79 31 0.25
80 88 0.72
81 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:50287210 original size:39 final size:41
Alignment explanation
Indices: 50287053--50287222 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 41
50287043 GGACTAAGAT
* * *
50287053 CCGAAGGCCTTTGTGCGAGATAC-TAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTTAAATCCGGGTTAAGTC
50287093 CCGAAGGCATTCGTGCGAGTTA-TTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTTAAATCCGGGTTAAGTC
* *
50287133 CCGAAGGCATTCGTGCGAGTT-GTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTTAAATCCGGGTTAAGTC
* * * *
50287173 CCGAAGGCATT-GTGTGAGTTACTAAAAT-CGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTTAAATCCGGGTTAAGTC
50287212 CCGAAGGCATT
1 CCGAAGGCATT
50287223 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 29 0.24
40 90 0.76
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
CCGAAGGCATTCGTGCGAGTTACTTAAATCCGGGTTAAGTC
Found at i:50290441 original size:25 final size:25
Alignment explanation
Indices: 50290413--50290460 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
50290403 TTAATTAGTA
50290413 TAAAATATT-AATAATTC-AATAAATT
1 TAAAA-ATTAAATAA-TCAAATAAATT
50290438 TAAAAATTAAATAATCAAATAAA
1 TAAAAATTAAATAATCAAATAAA
50290461 ATTGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAAATTAAATAATCAAATAAATT
Found at i:50300899 original size:21 final size:21
Alignment explanation
Indices: 50300874--50300914 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
50300864 GCATAGGAAG
50300874 AAAAGAAATCCTTTAGGATTT
1 AAAAGAAATCCTTTAGGATTT
50300895 AAAAGAAATCCTTTAGGATT
1 AAAAGAAATCCTTTAGGATT
50300915 CCTAAGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (21 bp):
AAAAGAAATCCTTTAGGATTT
Found at i:50304223 original size:12 final size:12
Alignment explanation
Indices: 50304208--50304291 Score: 52
Period size: 14 Copynumber: 7.0 Consensus size: 12
50304198 TATTTTTTTG
50304208 TATATTATTTAT
1 TATATTATTTAT
50304220 TATATTA-TTA-
1 TATATTATTTAT
*
50304230 TAAATTA-TTA-
1 TATATTATTTAT
*
50304240 TATATTATGTTACC
1 TATATTAT-TTA-T
*
50304254 TATATTTTATTAT
1 TATATTAT-TTAT
50304267 ATATATTATTTTAT
1 -TATATTA-TTTAT
*
50304281 T-TATTACTTAT
1 TATATTATTTAT
50304292 CATACTGTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
10 15 0.25
11 7 0.12
12 15 0.25
13 1 0.02
14 20 0.34
15 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:50306225 original size:20 final size:20
Alignment explanation
Indices: 50306159--50306225 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
50306149 ATTTTAATAA
*
50306159 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
50306179 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
50306199 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50306219 ACATGAT
1 ACATGAT
50306226 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:50306309 original size:25 final size:24
Alignment explanation
Indices: 50306274--50306443 Score: 236
Period size: 24 Copynumber: 7.0 Consensus size: 24
50306264 GGAGGAAGTG
*
50306274 TAAAAAGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
50306298 GATAAAGGGCTTATGCCCAAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
50306323 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
50306348 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
50306372 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
50306396 TAAAAGGGCTT-TGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
50306419 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
50306444 ATGATAAAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 18 0.13
24 64 0.48
25 52 0.39
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:50306669 original size:31 final size:31
Alignment explanation
Indices: 50306631--50306690 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
50306621 CGTTTACAGT
50306631 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
50306662 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
50306691 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:50309564 original size:27 final size:27
Alignment explanation
Indices: 50309525--50309576 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
50309515 AGAGCCGAGA
*
50309525 AGTTGATTTAGAAAGGTTGTAAGGCGT
1 AGTTGATTCAGAAAGGTTGTAAGGCGT
*
50309552 AGTTGATTCAGAAAGGTTGTGAGGC
1 AGTTGATTCAGAAAGGTTGTAAGGC
50309577 ATACTTGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.31
Consensus pattern (27 bp):
AGTTGATTCAGAAAGGTTGTAAGGCGT
Found at i:50314321 original size:20 final size:20
Alignment explanation
Indices: 50314292--50314338 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
50314282 ATTTTAGTAA
*
50314292 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
50314312 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50314332 ACATGAT
1 ACATGAT
50314339 GTATTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:50314471 original size:24 final size:24
Alignment explanation
Indices: 50314387--50314531 Score: 188
Period size: 25 Copynumber: 6.0 Consensus size: 24
50314377 GGAGGAAGTG
50314387 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
50314411 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
50314436 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
50314461 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
50314485 T-AAAGGGCTT-TGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
50314507 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
50314532 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
22 13 0.12
23 14 0.13
24 29 0.26
25 55 0.50
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:50320339 original size:27 final size:27
Alignment explanation
Indices: 50320309--50320485 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50320299 ATATCGAGTC
* * *
50320309 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
50320336 CGCACACTTAGTGCTACATAATCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
50320362 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
50320390 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
50320417 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
50320444 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
50320471 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50320486 GTACAATTTA
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 23 0.18
27 86 0.66
28 22 0.17
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:50320421 original size:81 final size:81
Alignment explanation
Indices: 50320330--50320484 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 81
50320320 TGCTATATAA
*
50320330 TCAACTCGCACACTTAGTGC-TACATAATCA-ATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCATATCGCACACTTAGTGCAACATAGTCAAA-TCGC
50320393 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * *
50320411 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCATATCGCACACTTAGTGCAACATAGTCAAATCGCAC
50320476 ACTTAGTGC
66 ACTTAGTGC
50320485 TGTACAATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
81 41 0.60
82 27 0.40
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCATATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50334230 original size:44 final size:43
Alignment explanation
Indices: 50334146--50334232 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 43
50334136 TGCCATATAC
50334146 ATCATGAACTCAGACCAAACTCAATGAGTTCAGATGTCACATAT
1 ATCATGAACTCAGACCAAACTCAATGAGTTCAGA-GTCACATAT
*
50334190 ATCATGAACTCAGACCACAACTCAAATGCGTTCAGA-TCACATA
1 ATCATGAACTCAGACCA-AACTC-AATGAGTTCAGAGTCACATA
50334233 GTTCCTAGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 24 0.60
45 5 0.12
46 11 0.28
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (43 bp):
ATCATGAACTCAGACCAAACTCAATGAGTTCAGAGTCACATAT
Found at i:50349101 original size:37 final size:37
Alignment explanation
Indices: 50349042--50349150 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
50349032 AGCTCAGACG
* *
50349042 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
50349079 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
50349116 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
50349151 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:50350275 original size:25 final size:25
Alignment explanation
Indices: 50350247--50350325 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
50350237 ACTCGGCCCT
50350247 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
50350272 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
50350294 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
50350319 ATCACAT
1 ATCACAT
50350326 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:50350392 original size:96 final size:96
Alignment explanation
Indices: 50350197--50350829 Score: 1008
Period size: 96 Copynumber: 6.6 Consensus size: 96
50350187 CCCTTCGGGA
* * * * * * * *
50350197 CTTATCACATTTATATACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
50350260 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
50350291 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
50350356 ACTTTCACATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
*
50350387 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
50350450 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATTGGCCATTAGGC
* **
50350483 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCTGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
50350546 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATTGGCCATTAGGC
*
50350579 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
50350644 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATTGGCCATTAGGC
50350677 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
50350742 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
50350773 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
50350830 TTATTCAAAT
Statistics
Matches: 513, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
94 47 0.09
96 375 0.73
98 91 0.18
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:50350456 original size:145 final size:144
Alignment explanation
Indices: 50350197--50350829 Score: 1053
Period size: 145 Copynumber: 4.4 Consensus size: 144
50350187 CCCTTCGGGA
* * * * *
50350197 CTTATCACAT-T-TATATACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
50350260 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
50350324 ATCGGCCATTAGGC
131 ATCGGCCATTAGGC
*
50350338 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
*
50350403 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATC
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
50350467 ACATCGGCCATTAGGC
129 ACATCGGCCATTAGGC
*
50350483 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCTGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
50350548 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
50350613 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
*
50350628 CATATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
50350693 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
* *
50350758 CATTGGCCATTCGGC
130 CATCGGCCATTAGGC
* *
50350773 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAT
50350830 TTATTCAAAT
Statistics
Matches: 469, Mismatches: 17, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
141 10 0.02
142 1 0.00
143 131 0.28
145 327 0.70
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (144 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:50350623 original size:241 final size:241
Alignment explanation
Indices: 50350197--50350829 Score: 1144
Period size: 241 Copynumber: 2.6 Consensus size: 241
50350187 CCCTTCGGGA
* * * * * * * *
50350197 CTTATCACATTTATATACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
50350260 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
50350325 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCAT
50350390 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
196 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
50350436 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
50350501 ACTTTCACATTCATCACATTGGCCATTCTGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
50350566 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCAT
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCAT
*
50350631 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
196 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
50350677 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
50350742 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
50350807 TCGGCCATTAGGCCTTATCACAT
131 TCGGCCATTAGGCCTTATCACAT
50350830 TTATTCAAAT
Statistics
Matches: 379, Mismatches: 13, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
239 47 0.12
241 332 0.88
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (241 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCAT
ATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:50353471 original size:48 final size:48
Alignment explanation
Indices: 50353347--50353531 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
50353337 GCACATCGCC
*
50353347 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
50353397 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
50353445 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
50353493 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
50353532 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
48 84 0.66
49 2 0.02
50 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:50353536 original size:98 final size:97
Alignment explanation
Indices: 50353347--50353530 Score: 318
Period size: 98 Copynumber: 1.9 Consensus size: 97
50353337 GCACATCGCC
*
50353347 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
50353412 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
50353445 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
50353508 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
50353531 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.43
98 46 0.55
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:50353580 original size:47 final size:47
Alignment explanation
Indices: 50353501--50353694 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
50353491 CATACATATT
* * * *
50353501 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
50353548 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
50353595 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
50353642 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
50353689 TCACAT
1 TCACAT
50353695 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:50353621 original size:22 final size:22
Alignment explanation
Indices: 50353594--50353665 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
50353584 GCTCACATTC
50353594 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
50353616 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
50353640 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
50353663 ATC
1 ATC
50353666 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:50353622 original size:94 final size:94
Alignment explanation
Indices: 50353454--50353694 Score: 290
Period size: 94 Copynumber: 2.6 Consensus size: 94
50353444 ATACATATTT
* * * *
50353454 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
* *
50353516 GGCTTTACCACATATATGCATGTTCATATTCAC
62 GGCCTTACCACATATATGCATGTTCACATTCAC
* ** *
50353549 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
* *
50353614 TTATCACATATATGCATGTTCACATTCAT
66 TTACCACATATATGCATGTTCACATTCAC
* * *
50353643 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
50353695 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 93 0.73
95 19 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATATATGCATGTTCACATTCAC
Found at i:50382049 original size:23 final size:23
Alignment explanation
Indices: 50382023--50382071 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
50382013 AATCCATAGG
50382023 TAATCATACATTGAGAATTCAAC
1 TAATCATACATTGAGAATTCAAC
50382046 TAATCATACATTGAGAATTCAAC
1 TAATCATACATTGAGAATTCAAC
50382069 TAA
1 TAA
50382072 AAGAACATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (23 bp):
TAATCATACATTGAGAATTCAAC
Found at i:50382079 original size:23 final size:23
Alignment explanation
Indices: 50382030--50382079 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
50382020 AGGTAATCAT
* *
50382030 ACATTGAGAATTCAACTAATCAT
1 ACATTGAGAATTCAACTAATAAA
50382053 ACATTGAGAATTCAACTAA-AAGA
1 ACATTGAGAATTCAACTAATAA-A
50382076 ACAT
1 ACAT
50382080 CAAAGTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (23 bp):
ACATTGAGAATTCAACTAATAAA
Found at i:50382674 original size:13 final size:13
Alignment explanation
Indices: 50382653--50382690 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
50382643 CAATAATGGG
*
50382653 TTAATGGTTAATA
1 TTAAGGGTTAATA
50382666 TTAAGGGTTAATA
1 TTAAGGGTTAATA
50382679 TTAAGGG-TAATA
1 TTAAGGGTTAATA
50382691 CAAGAAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
TTAAGGGTTAATA
Found at i:50389834 original size:30 final size:29
Alignment explanation
Indices: 50389780--50389839 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
50389770 ATTCTCAGCC
50389780 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGC-AAAGTT
* *
50389810 TAGGGGCAAAA-TGTAATTTTTGCAAAGTT
1 TAGGGGCAAAAGTGTAA-ATATGCAAAGTT
50389839 T
1 T
50389840 GAGTAAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAAATATGCAAAGTT
Found at i:50392597 original size:22 final size:22
Alignment explanation
Indices: 50392569--50392612 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
50392559 TATACTCTCC
50392569 TAAGTATAAAACATGAAATTAA
1 TAAGTATAAAACATGAAATTAA
50392591 TAAGTATAAAACATGAAATTAA
1 TAAGTATAAAACATGAAATTAA
50392613 GGCATTAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (22 bp):
TAAGTATAAAACATGAAATTAA
Found at i:50394318 original size:35 final size:35
Alignment explanation
Indices: 50394272--50394390 Score: 132
Period size: 35 Copynumber: 3.4 Consensus size: 35
50394262 CAAGGTTCAT
* *
50394272 TATATCATCACATATGGCCGAATATACAAGTTAGA
1 TATAACATCACATATAGCCGAATATACAAGTTAGA
* * * * * *
50394307 TAGACCATCACATGTAGCCAAATTTACAAATTCA-A
1 TATAACATCACATATAGCCGAATATACAAGTT-AGA
* *
50394342 TATATCATCACATATAGCTGAATATACAAGTTAGA
1 TATAACATCACATATAGCCGAATATACAAGTTAGA
50394377 TATAACATCACATA
1 TATAACATCACATA
50394391 AGTACATACC
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.01
35 65 0.97
36 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (35 bp):
TATAACATCACATATAGCCGAATATACAAGTTAGA
Found at i:50397043 original size:22 final size:22
Alignment explanation
Indices: 50397016--50397137 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
50397006 CATGTGTATG
50397016 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
50397038 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
50397063 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
50397085 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
50397110 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
50397132 TGTGAT
1 TGTGAT
50397138 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:50397150 original size:47 final size:47
Alignment explanation
Indices: 50396869--50397165 Score: 436
Period size: 47 Copynumber: 6.3 Consensus size: 47
50396859 TGTACAAGTA
* *
50396869 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
50396916 TGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
50396963 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
50397010 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
50397057 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
50397104 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
50397151 TATAAATGTGATAAG
1 TATATATGTGATAAG
50397166 TCCCGAAGGG
Statistics
Matches: 233, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 229 0.98
48 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:50399673 original size:40 final size:40
Alignment explanation
Indices: 50399614--50400134 Score: 756
Period size: 40 Copynumber: 13.1 Consensus size: 40
50399604 AGGTCTCGAC
* *
50399614 GATG-ATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
50399653 GATGTATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
50399693 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
50399733 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
50399773 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
50399813 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
50399853 GATGTATCCGAGCTAAGTCCCAAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
50399893 GATGTACCCGGGCTAAGTCCCGAAGAGCTTTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
50399933 GATGTATCCGGGCTCAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
50399973 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * *
50400013 GATGTATCTGGTCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** ** *
50400053 GATATATCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
50400093 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
50400133 GA
1 GA
50400135 CGTGTATTCG
Statistics
Matches: 439, Mismatches: 42, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.01
40 435 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:50403526 original size:47 final size:46
Alignment explanation
Indices: 50403474--50403685 Score: 271
Period size: 47 Copynumber: 4.8 Consensus size: 46
50403464 AGTATATATA
* *
50403474 TGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-ATGTGTATG
50403521 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAATGTGTATG
*
50403567 CGTGATAAGG-CGAATGGCCAATGTGATGAATGTG--A----TA--
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAATGTGTATG
* * * *
50403604 TGAGATAAGGCCGAATGGCCAATGTGATGATTGTGAAAGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA-TGTGTATG
*
50403651 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
50403686 GAAGTGTCTA
Statistics
Matches: 146, Mismatches: 9, Indels: 20
0.83 0.05 0.11
Matches are distributed among these distances:
37 8 0.05
38 23 0.16
39 2 0.01
40 1 0.01
43 1 0.01
45 26 0.18
46 18 0.12
47 67 0.46
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (46 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAATGTGTATG
Found at i:50403545 original size:38 final size:38
Alignment explanation
Indices: 50403503--50403630 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
50403493 CAATGTGATG
50403503 AATGTGA-ACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGAGA-ATGTGTATGTGTGATAAGGCCGAATGGCC
*
50403541 AATGTGATGAATGTGAAATGTGTATGCGTGATAAGG-CGAATGGCC
1 AA--TG-TG-A---G-AATGTGTATGTGTGATAAGGCCGAATGGCC
* *
50403586 AATGTGATGAATGTG-ATATGAGATAAGGCCGAATGGCC
1 AATGTGA-GAATGTGTATGTGTGATAAGGCCGAATGGCC
50403624 AATGTGA
1 AATGTGA
50403631 TGATTGTGAA
Statistics
Matches: 76, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
37 10 0.13
38 24 0.32
39 2 0.03
40 2 0.03
41 3 0.04
42 3 0.04
43 2 0.03
45 11 0.14
46 18 0.24
47 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.26
Consensus pattern (38 bp):
AATGTGAGAATGTGTATGTGTGATAAGGCCGAATGGCC
Found at i:50403691 original size:47 final size:47
Alignment explanation
Indices: 50403601--50403706 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
50403591 GATGAATGTG
*
50403601 ATATGAGATAAGGCCGAATGGCCAATGTGATGATTGTGAAAGTGTAT
1 ATATGTGATAAGGCCGAATGGCCAATGTGATGATTGTGAAAGTGTAT
* *
50403648 ATATGTGATAAGGCCGAATGGCCAATGTGATGGA-TGTGGAAGTGTCT
1 ATATGTGATAAGGCCGAATGGCCAATGTGAT-GATTGTGAAAGTGTAT
*
50403695 AAATGTGATAAG
1 ATATGTGATAAG
50403707 TCCCGAAGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 52 0.96
48 2 0.04
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.27
Consensus pattern (47 bp):
ATATGTGATAAGGCCGAATGGCCAATGTGATGATTGTGAAAGTGTAT
Found at i:50406328 original size:40 final size:40
Alignment explanation
Indices: 50406264--50406571 Score: 420
Period size: 40 Copynumber: 7.7 Consensus size: 40
50406254 AGGTCTCGAC
*
50406264 GATG-ATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
50406303 GATGTATCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
50406343 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
50406383 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
50406423 GACGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
50406463 GATTTATCTGGACTAAGTTCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
50406503 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
50406543 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
50406572 ATCATGCTGG
Statistics
Matches: 238, Mismatches: 30, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
39 4 0.02
40 234 0.98
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:50409498 original size:35 final size:34
Alignment explanation
Indices: 50409459--50409603 Score: 137
Period size: 35 Copynumber: 4.1 Consensus size: 34
50409449 TAGATATGTA
*
50409459 CATATGTGATGTTATATCTAACTTGTATATTCGGC
1 CATATGTGATGATATAT-TAACTTGTATATTCGGC
* * *
50409494 CATATGTGATGATATATTGAATTTGTAAATTTGGC
1 CATATGTGATGATATATT-AACTTGTATATTCGGC
* * * * *
50409529 TACATGTGATGTTCTATCTAACTTGTATATTTGGC
1 CATATGTGATGATATAT-TAACTTGTATATTCGGC
* * *
50409564 CATTTGTGATGATATAATGAACCTTGTGTATTCGGC
1 CATATGTGATGATAT-ATTAA-CTTGTATATTCGGC
50409600 CATA
1 CATA
50409604 CATGTAAGTA
Statistics
Matches: 87, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
34 1 0.01
35 68 0.78
36 18 0.21
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (34 bp):
CATATGTGATGATATATTAACTTGTATATTCGGC
Found at i:50409646 original size:50 final size:50
Alignment explanation
Indices: 50409571--50409667 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
50409561 GGCCATTTGT
* *
50409571 GATGATATAATGAACCTTGTGTATTCGGCCATACATGTAAGTATTTATGA
1 GATGATATAATGAACCTTGTATATTCGGCCATACAGGTAAGTATTTATGA
* * ** *
50409621 GATGATATATTGGACCTTGTATATTCGGTTATATAGGTAAGTATTTA
1 GATGATATAATGAACCTTGTATATTCGGCCATACAGGTAAGTATTTA
50409668 CGTAATGTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (50 bp):
GATGATATAATGAACCTTGTATATTCGGCCATACAGGTAAGTATTTATGA
Found at i:50409687 original size:50 final size:50
Alignment explanation
Indices: 50409571--50409689 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
50409561 GGCCATTTGT
* * *
50409571 GATGATATAA-TGAACCTTGTGTATTCGGCCATACATGTAAGTATTTATGA
1 GATGATATAATTG-ACCTTGTATATTCGGCCATACAGGTAAGTATTTACGA
** *
50409621 GATGATAT-ATTGGACCTTGTATATTCGGTTATATAGGTAAGTATTTACGTA
1 GATGATATAATT-GACCTTGTATATTCGGCCATACAGGTAAGTATTTACG-A
*
50409672 -ATGTTATAATTGACCTTG
1 GATGATATAATTGACCTTG
50409690 AACATTCAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
49 1 0.02
50 52 0.90
51 5 0.09
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (50 bp):
GATGATATAATTGACCTTGTATATTCGGCCATACAGGTAAGTATTTACGA
Found at i:50413535 original size:45 final size:45
Alignment explanation
Indices: 50413471--50413564 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
50413461 ATCCAGAACC
* *
50413471 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACGAAATT
1 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
50413516 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
1 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
50413561 TAAA
1 TAAA
50413565 TGAAAGCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.30
Consensus pattern (45 bp):
TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
Found at i:50414331 original size:19 final size:19
Alignment explanation
Indices: 50414295--50414333 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50414285 TTTTCATCAT
* *
50414295 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
50414314 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
50414333 A
1 A
50414334 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:50414822 original size:27 final size:27
Alignment explanation
Indices: 50414754--50414854 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 27
50414744 ATACAGAAAA
* *
50414754 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* *
50414783 TGTGGC-GCTGCCACCAGAACAGATATA
1 TGTGGCAG-AGCCACCAGAACAGATATT
*
50414810 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
50414838 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
50414855 GACGCTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.36
28 26 0.43
29 13 0.21
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:50415007 original size:28 final size:28
Alignment explanation
Indices: 50414960--50415027 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
50414950 AAATTAACCC
* *
50414960 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
50414988 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
50415016 TAGGGGTATAAT
1 TAGGGGTATAAT
50415028 AGTACATCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:50416127 original size:18 final size:20
Alignment explanation
Indices: 50416104--50416140 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50416094 ATAGATGGAG
50416104 AGAAAA-AAAGGAA-AGAAA
1 AGAAAAGAAAGGAAGAGAAA
50416122 AGAAAAGAAAGGAAGAGAA
1 AGAAAAGAAAGGAAGAGAA
50416141 GGAAGAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (20 bp):
AGAAAAGAAAGGAAGAGAAA
Found at i:50421819 original size:57 final size:57
Alignment explanation
Indices: 50421750--50421865 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
50421740 TGCTGACGCA
*
50421750 TCGAATCCTTAGGCTCCCACGTGGCCTCATCAGTACTATGATTTCACCATAGCACCT
1 TCGAATCCTTAGGCTCCCACATGGCCTCATCAGTACTATGATTTCACCATAGCACCT
50421807 TCGAATCCTTAGGCTCCCACATGGCCTCATCAGTACTATGATTTCACCATAGCACCT
1 TCGAATCCTTAGGCTCCCACATGGCCTCATCAGTACTATGATTTCACCATAGCACCT
50421864 TC
1 TC
50421866 ACTAAAAGGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (57 bp):
TCGAATCCTTAGGCTCCCACATGGCCTCATCAGTACTATGATTTCACCATAGCACCT
Found at i:50429600 original size:24 final size:24
Alignment explanation
Indices: 50429531--50429610 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 24
50429521 AAGCTCCTCC
* *
50429531 TGAGCTGATGAATAGTAAGCTCTAT
1 TGAGCTGA-AAATAGTAAGCTCTAA
**
50429556 TGAGCTG-AAACGGTAAGCTCTAA
1 TGAGCTGAAAATAGTAAGCTCTAA
* *
50429579 TGAGCTGAAAATAGTAAACTCTTA
1 TGAGCTGAAAATAGTAAGCTCTAA
*
50429603 CGAGCTGA
1 TGAGCTGA
50429611 TATATCGGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 19 0.42
24 19 0.42
25 7 0.16
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (24 bp):
TGAGCTGAAAATAGTAAGCTCTAA
Found at i:50429608 original size:47 final size:51
Alignment explanation
Indices: 50429531--50429625 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 51
50429521 AAGCTCCTCC
* * *
50429531 TGAGCTGATGAATAGTAAGCTCTATTGAGCTGA-A-A-CGGTAAGCTCTAA
1 TGAGCTGATAAATAGTAAACTCTATCGAGCTGATATATCGGTAAGCTCTAA
50429579 TGAGCTGA-AAATAGTAAACTCT-TACGAGCTGATATATCGGTAAGCTC
1 TGAGCTGATAAATAGTAAACTCTAT-CGAGCTGATATATCGGTAAGCTC
50429626 ATACAAGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
46 1 0.03
47 19 0.47
48 9 0.22
49 1 0.03
50 10 0.25
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (51 bp):
TGAGCTGATAAATAGTAAACTCTATCGAGCTGATATATCGGTAAGCTCTAA
Found at i:50435373 original size:20 final size:20
Alignment explanation
Indices: 50435345--50435397 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
50435335 ATTCATTTCT
* *
50435345 ATTCGTATAAACTGTAGTTC
1 ATTCATATAAACAGTAGTTC
*
50435365 ATTCATATAACCAGTAGTTC
1 ATTCATATAAACAGTAGTTC
*
50435385 ATCCATATAAACA
1 ATTCATATAAACA
50435398 CCTATCTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (20 bp):
ATTCATATAAACAGTAGTTC
Found at i:50435593 original size:23 final size:23
Alignment explanation
Indices: 50435565--50435668 Score: 106
Period size: 22 Copynumber: 4.6 Consensus size: 23
50435555 TGAGCTGATG
50435565 AACAGTAAGCTCTATTGAGCTAA
1 AACAGTAAGCTCTATTGAGCTAA
**
50435588 AACAGTAAGCTCTATCAAGCT-A
1 AACAGTAAGCTCTATTGAGCTAA
50435610 AACAGTAAGCTC-ATATGAGC-AA
1 AACAGTAAGCTCTAT-TGAGCTAA
** * * *
50435632 AATGGTAAGCACCAATGAGCTGAA
1 AACAGTAAGCTCTATTGAGCT-AA
50435656 AACAGTAAGCTCT
1 AACAGTAAGCTCT
50435669 TACGAGCTGA
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.03
22 31 0.48
23 20 0.31
24 11 0.17
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTAA
Found at i:50435615 original size:22 final size:23
Alignment explanation
Indices: 50435565--50435621 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
50435555 TGAGCTGATG
**
50435565 AACAGTAAGCTCTATTGAGCTAA
1 AACAGTAAGCTCTATCAAGCTAA
50435588 AACAGTAAGCTCTATCAAGCT-A
1 AACAGTAAGCTCTATCAAGCTAA
50435610 AACAGTAAGCTC
1 AACAGTAAGCTC
50435622 ATATGAGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCTATCAAGCTAA
Found at i:50450784 original size:22 final size:22
Alignment explanation
Indices: 50450723--50450799 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
50450713 GTAGCTCCTC
50450723 TGAGCTGAATGAATGTAAGCTCTA
1 TGAGCTGAA--AATGTAAGCTCTA
**
50450747 TTGAGCTG-AACGGTAAGCTCTA
1 -TGAGCTGAAAATGTAAGCTCTA
*
50450769 TGAGCTGAAAATGTAAACTCTTA
1 TGAGCTGAAAATGTAAGCTC-TA
*
50450792 CGAGCTGA
1 TGAGCTGA
50450800 TATATCGGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 7 0.16
22 20 0.45
23 9 0.20
24 1 0.02
25 7 0.16
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (22 bp):
TGAGCTGAAAATGTAAGCTCTA
Found at i:50456501 original size:20 final size:20
Alignment explanation
Indices: 50456473--50456525 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
50456463 ATTCATTTCT
* *
50456473 ATTCGTATAAACTGTAGTTC
1 ATTCATATAAACAGTAGTTC
*
50456493 ATTCATATAACCAGTAGTTC
1 ATTCATATAAACAGTAGTTC
*
50456513 ATCCATATAAACA
1 ATTCATATAAACA
50456526 CCTATCTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (20 bp):
ATTCATATAAACAGTAGTTC
Found at i:50456721 original size:23 final size:23
Alignment explanation
Indices: 50456693--50456796 Score: 106
Period size: 22 Copynumber: 4.6 Consensus size: 23
50456683 TGAGCTGATG
50456693 AACAGTAAGCTCTATTGAGCTAA
1 AACAGTAAGCTCTATTGAGCTAA
**
50456716 AACAGTAAGCTCTATCAAGCT-A
1 AACAGTAAGCTCTATTGAGCTAA
50456738 AACAGTAAGCTC-ATATGAGC-AA
1 AACAGTAAGCTCTAT-TGAGCTAA
** * * *
50456760 AATGGTAAGCACCAATGAGCTGAA
1 AACAGTAAGCTCTATTGAGCT-AA
50456784 AACAGTAAGCTCT
1 AACAGTAAGCTCT
50456797 TACGAGCTGA
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.03
22 31 0.48
23 20 0.31
24 11 0.17
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTAA
Found at i:50456743 original size:22 final size:23
Alignment explanation
Indices: 50456693--50456749 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
50456683 TGAGCTGATG
**
50456693 AACAGTAAGCTCTATTGAGCTAA
1 AACAGTAAGCTCTATCAAGCTAA
50456716 AACAGTAAGCTCTATCAAGCT-A
1 AACAGTAAGCTCTATCAAGCTAA
50456738 AACAGTAAGCTC
1 AACAGTAAGCTC
50456750 ATATGAGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCTATCAAGCTAA
Found at i:50460564 original size:16 final size:17
Alignment explanation
Indices: 50460543--50460577 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
50460533 TAATGTCTAG
50460543 GAAAATTA-TTAATTGA
1 GAAAATTACTTAATTGA
50460559 GAAAATTATCTTAATTGA
1 GAAAATTA-CTTAATTGA
50460577 G
1 G
50460578 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (17 bp):
GAAAATTACTTAATTGA
Found at i:50461749 original size:31 final size:31
Alignment explanation
Indices: 50461711--50461769 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
50461701 ATGATAAGTA
50461711 AAAAGTGGTAGCTTCGGCTACCTAATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTAATCAGTG
50461742 AAAAGTGGTAGCTTCGGCTACCTAATCA
1 AAAAGTGGTAGCTTCGGCTACCTAATCA
50461770 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTAATCAGTG
Found at i:50461791 original size:46 final size:46
Alignment explanation
Indices: 50461724--50461815 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
50461714 AGTGGTAGCT
* * *
50461724 TCGGCTACCTAATCAGTGAAAAGTGGTAGCTTCGGCTACCTAATCA
1 TCGGCTACCTAATCAGTGAAAAATGGTAACTCCGGCTACCTAATCA
* * *
50461770 TCGGCTACTTGATCAGTGAAAAATGGTAACTCCGGCTACCTGATCA
1 TCGGCTACCTAATCAGTGAAAAATGGTAACTCCGGCTACCTAATCA
50461816 GTGAATAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (46 bp):
TCGGCTACCTAATCAGTGAAAAATGGTAACTCCGGCTACCTAATCA
Found at i:50461814 original size:31 final size:31
Alignment explanation
Indices: 50461771--50461839 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
50461761 ACCTAATCAT
*
50461771 CGGCTACTTGATCAGTGAAAAATGGTAACTC
1 CGGCTACCTGATCAGTGAAAAATGGTAACTC
* * * *
50461802 CGGCTACCTGATCAGTGAATAGTGGTAGCTT
1 CGGCTACCTGATCAGTGAAAAATGGTAACTC
50461833 CGGCTAC
1 CGGCTAC
50461840 AAGTGACAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGGTAACTC
Found at i:50465442 original size:137 final size:136
Alignment explanation
Indices: 50465141--50465425 Score: 466
Period size: 137 Copynumber: 2.1 Consensus size: 136
50465131 GAGTAGTCTC
* * *
50465141 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAGTGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TGATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
50465206 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
50465271 ACTGTTC
130 ACTGTTA
*
50465278 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TGATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
50465343 TGTTATCTGAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGG-CCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
50465406 ATTGTTA
130 ACTGTTA
**
50465413 CCTGAATGGGCTT
1 CCCAAATGGGCTT
50465426 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
135 24 0.17
136 41 0.29
137 77 0.54
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTGATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:50470500 original size:26 final size:26
Alignment explanation
Indices: 50470471--50470578 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
50470461 TGATACAAAT
50470471 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* **
50470497 TGATAATTGGTTAGGTAAATGTTTAA
1 TGATAATGGGTTAGGTAAATGTTCCA
50470523 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
50470549 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
50470575 TGAT
1 TGAT
50470579 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:50472612 original size:136 final size:137
Alignment explanation
Indices: 50472363--50472650 Score: 481
Period size: 137 Copynumber: 2.1 Consensus size: 137
50472353 TTGAGTAGTC
* *
50472363 TCCCCAAATAGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATAGGCCTCTGGCCATA
1 TCCCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATAGGCCTATGGCCATA
*
50472428 CTGTTATCCGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGGAAAA-GGCTCTGGCCCAGTA
66 CTGTTATCCGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGGAAAAGGGCTCTGGCCCAGTA
50472492 CCACTGT
131 CCACTGT
*
50472499 TCCCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
1 TCCCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATAGGCCTAT-GGCCAT
* *
50472564 ACTGTTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCT-GAAAAGGGCTCTGGGCCAGT
65 ACTGTTATCCGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGGAAAAGGGCTCTGGCCCAGT
50472628 ACCACTGT
130 ACCACTGT
* *
50472636 TACCTAAATGGGCTT
1 TCCCCAAATGGGCTT
50472651 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
136 60 0.42
137 82 0.58
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
TCCCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATAGGCCTATGGCCATA
CTGTTATCCGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGGAAAAGGGCTCTGGCCCAGTA
CCACTGT
Found at i:50481559 original size:27 final size:28
Alignment explanation
Indices: 50481511--50481566 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
50481501 TTATTTATTT
* * * *
50481511 TTCCTTTATTTTTCTTCTCTTTTGCTTC
1 TTCCTTTAGTTTTCCTCCCTTTTCCTTC
50481539 TTCCTTT-GTTTTCCTCCCTTTTCCTTC
1 TTCCTTTAGTTTTCCTCCCTTTTCCTTC
50481566 T
1 T
50481567 CTTTTAATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.02, C:0.30, G:0.04, T:0.64
Consensus pattern (28 bp):
TTCCTTTAGTTTTCCTCCCTTTTCCTTC
Found at i:50481895 original size:18 final size:18
Alignment explanation
Indices: 50481872--50481907 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50481862 TGAAATGATG
50481872 ATTTAACATGCCACGCCA
1 ATTTAACATGCCACGCCA
*
50481890 ATTTAACATGTCACGCCA
1 ATTTAACATGCCACGCCA
50481908 GCTTACCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.31, G:0.11, T:0.25
Consensus pattern (18 bp):
ATTTAACATGCCACGCCA
Found at i:50486400 original size:6 final size:6
Alignment explanation
Indices: 50486370--50486457 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
50486360 AAGAAACACT
* * * *
50486370 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
50486419 ATTAGA ATCAGT ATCAGGTA AT-AGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
50486458 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
5 5 0.08
6 49 0.78
7 6 0.10
8 3 0.05
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:50486424 original size:25 final size:25
Alignment explanation
Indices: 50486391--50486457 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
50486381 AATCAAAATG
*
50486391 AGAATTAGAATCAGAATCAGGTGAC
1 AGAATTAGAATCAGAATCAGGTAAC
* *
50486416 AGAATTAGAATCAGTATCAGGTAAT
1 AGAATTAGAATCAGAATCAGGTAAC
*
50486441 AGAATCAGAATCAGAAT
1 AGAATTAGAATCAGAAT
50486458 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.22
Consensus pattern (25 bp):
AGAATTAGAATCAGAATCAGGTAAC
Found at i:50486630 original size:27 final size:26
Alignment explanation
Indices: 50486575--50486647 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
50486565 AGCATGGCTG
** *
50486575 CCAGAACAGATATTGTGATAGATTCA
1 CCAGAACAGATATTGTGGCAGACTCA
50486601 CCAGATACAGATATTGTGGCAGAGCT-A
1 CCAGA-ACAGATATTGTGGCAGA-CTCA
*
50486628 CCAGAACAGATAATGTGGCA
1 CCAGAACAGATATTGTGGCA
50486648 AAGCCACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.46
27 21 0.51
28 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGACTCA
Found at i:50487360 original size:35 final size:35
Alignment explanation
Indices: 50487309--50487381 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
50487299 CCCCACAAGG
50487309 GTATCTCGGTAATTCTACCCTATAGGGATATTTCA
1 GTATCTCGGTAATTCTACCCTATAGGGATATTTCA
* * *
50487344 GTATTTCGGTAATTCTATCCTATAGGGGTATTTCA
1 GTATCTCGGTAATTCTACCCTATAGGGATATTTCA
50487379 GTA
1 GTA
50487382 ATTCTACCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (35 bp):
GTATCTCGGTAATTCTACCCTATAGGGATATTTCA
Found at i:50487789 original size:27 final size:27
Alignment explanation
Indices: 50487344--50487781 Score: 570
Period size: 27 Copynumber: 16.2 Consensus size: 27
50487334 GGATATTTCA
* *
50487344 GTATTTCGGTAATTCTATCCTATAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
*
50487371 GTATTTCAGTAATTCTACCCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * * *
50487398 GTATTTCGATATTTCTACCCTATAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* *
50487425 GTATTTCGGTATTTCTATCCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
*
50487452 GTATTTCAGTAATTCTACCCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* *
50487479 GTATTTCGGTATTTCTACCCTACAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * *
50487506 GTATTTTGGTATTTCTACCCTACAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
*
50487533 GTATTTCGGTAATTCTACCCTATAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* *
50487560 GTATTTCAGTAATTCTACCCTACAGAG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * *
50487587 GTATTTCGGTATTTCTACCCTATAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * *
50487614 GTATTTCGGTATTTCAACCCTACAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
*
50487641 GTATTTCGGTAATTTTACCCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* *
50487668 GTATTTCAGTAATTCTACTCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * *
50487695 GTATTTCAGTATTTCTACCCTACAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * *
50487722 GTATTTCGATATTTCTACCCTACAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
*
50487749 GTATTTCGATAATTCTACCCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
50487776 GTATTT
1 GTATTT
50487782 TAATAATTTT
Statistics
Matches: 364, Mismatches: 47, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 364 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTATTTCGGTAATTCTACCCTACAGGG
Found at i:50487789 original size:108 final size:108
Alignment explanation
Indices: 50487344--50487781 Score: 696
Period size: 108 Copynumber: 4.1 Consensus size: 108
50487334 GGATATTTCA
* * * * *
50487344 GTATTTCGGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATA
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
* * *
50487409 TTTCTACCCTATAAGGGTATTTCGGTATTTCTATCCTACAGGG
66 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
* * *
50487452 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGGTA
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
*
50487517 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGG
66 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
* * * *
50487560 GTATTTCAGTAATTCTACCCTACAGAGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCGGTA
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
* *
50487625 TTTCAACCCTACAAGGGTATTTCGGTAATTTTACCCTACAGGG
66 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
*
50487668 GTATTTCAGTAATTCTACTCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
*
50487733 TTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGG
66 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
50487776 GTATTT
1 GTATTT
50487782 TAATAATTTT
Statistics
Matches: 304, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 304 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (108 bp):
GTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
Found at i:50487858 original size:54 final size:54
Alignment explanation
Indices: 50487772--50487905 Score: 126
Period size: 54 Copynumber: 2.5 Consensus size: 54
50487762 TCTACCCTAC
** ** * * * *
50487772 AGGGGTATTTTAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATT
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTAAAACAGTAATTCTGCAAACT
* **** *
50487826 AGGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTGCAAACT
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTAAAACAGTAATTCTGCAAACT
50487880 -GAGGGTATTTTGGTAATTTTACAAAT
1 AG-GGGTATTTTGGTAATTTTACAAAT
50487906 TGAGGGTATT
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAATCAAGGGTAAAACAGTAATTCTGCAAACT
Found at i:50487978 original size:107 final size:106
Alignment explanation
Indices: 50487828--50488431 Score: 538
Period size: 107 Copynumber: 5.7 Consensus size: 106
50487818 TGTAAATTAG
* * * * *
50487828 GGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTTGG
1 GGGTA-TTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGGTATTTTGG
* *
50487893 TAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAATCGA
65 TAATTTTACAAATCGAGGGTATTTTCGTAATTTTACAATCGA
* * * * * *
50487935 CGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAATC-GACGGTATTTCGA
1 GGGTATTT-GATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGGTATTTTGG
* ** * *
50487999 TAATTTTACAAATCGAGGATATTTGGGTAATTTTATAGA-CTGG
65 TAATTTTACAAATCGAGGGTATTTTCGTAATTTTACA-ATC-GA
*
50488042 GGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATC-G-GCGGTATTTTG
1 GGGTA-TTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAG-GGTATTTTG
* ** * * *
50488105 GTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACTGG
64 GTAATTTTACAAATCGAGGGTATTTTCGTAATTTTACAATC-GA
* *
50488149 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAA-TCGAGGGTATTTAT
1 GGGTA-TTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACT-GAGGGTATTT-T
* *
50488213 --TAATTTTGCAAA-CTGAGGGTA-TTTCGACAATTTTACAAATCGA
63 GGTAATTTTACAAATC-GAGGGTATTTTCG-TAATTTTAC-AATCGA
* * *
50488256 GGGTATTTTAGTAATTTTAC-AATCGAAGGTATTTC-GATAATTTTACAAA-TCGAGGGTATTTC
1 GGGTATTTGA-TAATTTTACAAATCGAGGGTATTTCAG-TAATTTTACAAACT-GAGGGTATTTT
* *
50488318 AGTAATTTTAC-AATCGACGGTA-TTTCGATAATTTTACAAATCGA
63 GGTAATTTTACAAATCGAGGGTATTTTCG-TAATTTTAC-AATCGA
* * * * * * **
50488362 GGATATTTGGGTAATTTTATAAATCAAGGGTACTTT-GGTAATTTTAC-AACTGGGGGTATTTCA
1 GGGTATTT-GATAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAAACTGAGGGTATTTTG
50488425 GTAATTT
64 GTAATTT
50488432 GGTAAACTAA
Statistics
Matches: 426, Mismatches: 48, Indels: 47
0.82 0.09 0.09
Matches are distributed among these distances:
105 1 0.00
106 155 0.36
107 250 0.59
108 18 0.04
109 2 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (106 bp):
GGGTATTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGGTATTTTGGT
AATTTTACAAATCGAGGGTATTTTCGTAATTTTACAATCGA
Found at i:50488407 original size:27 final size:27
Alignment explanation
Indices: 50487828--50488431 Score: 590
Period size: 27 Copynumber: 22.6 Consensus size: 27
50487818 TGTAAATTAG
* * *
50487828 GGGTATTTTGGTAATTTTACAAGTCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
** *
50487855 GGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTACAAATC-GA
* *
50487882 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
**
50487909 GGGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
50487935 CGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
**
50487962 GGGTATTTCAATAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
50487988 CGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * * *
50488015 GGATATTTGGGTAATTTTATAGA-CTGG
1 GGGTATTTCGGTAATTTTACAAATC-GA
*
50488042 GGGTACTTT-GATAATTTTACAAATCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGA
*
50488069 GGGTATTTCAGTAATTTTAC-AATCG-
1 GGGTATTTCGGTAATTTTACAAATCGA
*
50488094 GCGGTATTTTGGTAATTTTACAAATCGA
1 G-GGTATTTCGGTAATTTTACAAATCGA
* * * *
50488122 GGATATTTGGGTAATTTTATAAA-CTGG
1 GGGTATTTCGGTAATTTTACAAATC-GA
*
50488149 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGA
*
50488176 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
** *
50488203 GGGTATTT-ATTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTACAAATC-GA
**
50488229 GGGTATTTCGACAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
**
50488256 GGGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
50488282 AGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
50488309 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
50488335 CGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * *
50488362 GGATATTTGGGTAATTTTATAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
50488389 GGGTACTTT-GGTAATTTTACAACT-GG
1 GGGTA-TTTCGGTAATTTTACAAATCGA
*
50488415 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
50488432 GGTAAACTAA
Statistics
Matches: 480, Mismatches: 75, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
25 5 0.01
26 155 0.32
27 307 0.64
28 13 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:50488422 original size:53 final size:54
Alignment explanation
Indices: 50487828--50488431 Score: 590
Period size: 53 Copynumber: 11.3 Consensus size: 54
50487818 TGTAAATTAG
* * * ** *
50487828 GGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATC-GA
* * **
50487882 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * **
50487935 CGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * * * * * *
50487988 CGGTATTTCGATAATTTTACAAATCGAGGATATTTGGGTAATTTTATAGA-CTGG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATC-GA
* *
50488042 GGGTACTTT-GATAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AATCG-
1 GGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * * * *
50488094 GCGGTATTTTGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAA-CTGG
1 G-GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATC-GA
* *
50488149 GGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
** * **
50488203 GGGTATTT-ATTAATTTTGCAAA-CTGAGGGTATTTCGACAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATC-GAGGGTATTTCGGTAATTTTACAAATCGA
** * *
50488256 GGGTATTTTAGTAATTTTAC-AATCGAAGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * *
50488309 GGGTATTTCAGTAATTTTAC-AATCGACGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * * * * *
50488362 GGATATTTGGGTAATTTTATAAATCAAGGGTACTTT-GGTAATTTTACAACT-GG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTA-TTTCGGTAATTTTACAAATCGA
*
50488415 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
50488432 GGTAAACTAA
Statistics
Matches: 474, Mismatches: 59, Indels: 35
0.83 0.10 0.06
Matches are distributed among these distances:
52 5 0.01
53 292 0.62
54 166 0.35
55 11 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
Found at i:50492607 original size:23 final size:21
Alignment explanation
Indices: 50492581--50492623 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
50492571 ATATTAGAGA
50492581 AATTATAATTACAATGATTTAGC
1 AATTATAATT-CAAT-ATTTAGC
50492604 AATTATAATTCAATATTTAG
1 AATTATAATTCAATATTTAG
50492624 AGAGGTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 4 0.20
23 10 0.50
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (21 bp):
AATTATAATTCAATATTTAGC
Found at i:50495006 original size:35 final size:34
Alignment explanation
Indices: 50494915--50495047 Score: 144
Period size: 34 Copynumber: 3.9 Consensus size: 34
50494905 CTCACTAATT
* *
50494915 ATTCATCAGCTTATCTGACTAGTGTTGGGCACAC
1 ATTCATCAGTTTATCTGACTAGTGCTGGGCACAC
* * *
50494949 ATTCGTCTGTTTATTTGACTAGTGCTGGGCACGAC
1 ATTCATCAGTTTATCTGACTAGTGCTGGGCAC-AC
*
50494984 -TTCCATCAGTTTATCTGGCTAGTGCTGGGCACAC
1 ATT-CATCAGTTTATCTGACTAGTGCTGGGCACAC
** *
50495018 ATTTGTC-GATTTATCCGACTAGTGCTGGGC
1 ATTCATCAG-TTTATCTGACTAGTGCTGGGC
50495048 GCAAATTCTT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
33 1 0.01
34 52 0.63
35 29 0.35
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (34 bp):
ATTCATCAGTTTATCTGACTAGTGCTGGGCACAC
Found at i:50495006 original size:69 final size:69
Alignment explanation
Indices: 50494918--50495047 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 69
50494908 ACTAATTATT
* **
50494918 CATCAGCTTATCTGACTAGTGTTGGGCACACATTCGTCTG-TTTATTTGACTAGTGCTGGGCACG
1 CATCAGCTTATCTGACTAGTGCTGGGCACACATTCGTC-GATTTATCCGACTAGTGCTGGGCACG
50494982 ACTTC
65 ACTTC
* * *
50494987 CATCAGTTTATCTGGCTAGTGCTGGGCACACATTTGTCGATTTATCCGACTAGTGCTGGGC
1 CATCAGCTTATCTGACTAGTGCTGGGCACACATTCGTCGATTTATCCGACTAGTGCTGGGC
50495048 GCAAATTCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 53 0.98
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (69 bp):
CATCAGCTTATCTGACTAGTGCTGGGCACACATTCGTCGATTTATCCGACTAGTGCTGGGCACGA
CTTC
Found at i:50499386 original size:21 final size:20
Alignment explanation
Indices: 50499360--50499403 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
50499350 CATCAAGTTC
*
50499360 ATTTATGAGTATTTTCATATA
1 ATTTATGAATATTTT-ATATA
* *
50499381 ATTTATTAATATTTTTTATA
1 ATTTATGAATATTTTATATA
50499401 ATT
1 ATT
50499404 AATATCTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTATGAATATTTTATATA
Found at i:50499433 original size:28 final size:25
Alignment explanation
Indices: 50499397--50499448 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
50499387 TAATATTTTT
50499397 TATAATTAATATCTTATTTAAATATTA
1 TATAATTAATATC-T-TTTAAATATTA
*
50499424 TATATATTAATTTCTTTTAAATATT
1 TATA-ATTAATATCTTTTAAATATT
50499449 GGTAAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 5 0.22
28 8 0.35
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAATTAATATCTTTTAAATATTA
Found at i:50508979 original size:17 final size:16
Alignment explanation
Indices: 50508946--50508976 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50508936 GTTTATGATA
50508946 AATTTGAGTTAAATTG
1 AATTTGAGTTAAATTG
*
50508962 AATTTGAGTTTAATT
1 AATTTGAGTTAAATT
50508977 TGATCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
AATTTGAGTTAAATTG
Found at i:50511844 original size:39 final size:39
Alignment explanation
Indices: 50511747--50511995 Score: 381
Period size: 39 Copynumber: 6.4 Consensus size: 39
50511737 CAGGACTTTA
*
50511747 AGCCCGGATATAATACCAGCACGAATGCCTGCGGGACTTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGAC-TT
50511787 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
* * *
50511826 AGCCCGAATATAACACCAGCACAAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
* *
50511865 AGCCCGGATATAATACCAGTACGAATTCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
*
50511904 AGCCCGGATATAATACCAGCACGAATTCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
* * *
50511943 AGCCCGGATATAACACCAGCACAAATACCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
* *
50511982 AACTCGGATATAAT
1 AGCCCGGATATAAT
50511996 TCTCCATTAT
Statistics
Matches: 193, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 157 0.81
40 36 0.19
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (39 bp):
AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
Found at i:50514298 original size:21 final size:21
Alignment explanation
Indices: 50514268--50514315 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
50514258 CACGAGCTGC
* *
50514268 TCACACGGGCATGTGTGGCCT
1 TCACATGGGCATGTGTCGCCT
*
50514289 TCACATGGGCGTGTGTCGCCT
1 TCACATGGGCATGTGTCGCCT
50514310 TCACAT
1 TCACAT
50514316 AGGTGTGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.27
Consensus pattern (21 bp):
TCACATGGGCATGTGTCGCCT
Found at i:50514323 original size:21 final size:21
Alignment explanation
Indices: 50514279--50514323 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
50514269 CACACGGGCA
* *
50514279 TGTGTGGCCTTCACATGGGCG
1 TGTGTCGCCTTCACATAGGCG
*
50514300 TGTGTCGCCTTCACATAGGTG
1 TGTGTCGCCTTCACATAGGCG
50514321 TGT
1 TGT
50514324 AGACCCCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (21 bp):
TGTGTCGCCTTCACATAGGCG
Done.