Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 358 of 425
Found at i:110622028 original size:16 final size:16
Alignment explanation
Indices: 110622007--110622056 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
110621997 ATATTTAATT
110622007 ATATAATAAATTATTA
1 ATATAATAAATTATTA
110622023 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
110622036 TTGTAATAAATTATTTA
1 ATATAATAAATTA-TTA
110622053 ATAT
1 ATAT
110622057 TTTGATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:110639613 original size:42 final size:42
Alignment explanation
Indices: 110639549--110639635 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
110639539 CTATCTACAC
110639549 TGATCACAAAAGCCTCAAATATCTCTTCACCCAGAAGAAAGT
1 TGATCACAAAAGCCTCAAATATCTCTTCACCCAGAAGAAAGT
* *
110639591 TGATCACAAAAGCCTCACATATCTTTTCACCCAGAAGAAAGT
1 TGATCACAAAAGCCTCAAATATCTCTTCACCCAGAAGAAAGT
110639633 TGA
1 TGA
110639636 ATCTTAAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (42 bp):
TGATCACAAAAGCCTCAAATATCTCTTCACCCAGAAGAAAGT
Found at i:110644925 original size:24 final size:24
Alignment explanation
Indices: 110644895--110645231 Score: 579
Period size: 24 Copynumber: 14.1 Consensus size: 24
110644885 GAATGTGACT
* *
110644895 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
110644919 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110644943 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110644967 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
* *
110644991 ATAATGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
110645015 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
110645039 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
110645063 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110645086 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
110645110 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110645133 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110645157 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110645181 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110645205 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110645229 ATA
1 ATA
110645232 TGGTCTTTGC
Statistics
Matches: 303, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
23 45 0.15
24 258 0.85
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:110652007 original size:24 final size:24
Alignment explanation
Indices: 110651977--110652314 Score: 579
Period size: 24 Copynumber: 14.1 Consensus size: 24
110651967 GAATGTGACT
* *
110651977 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
110652001 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110652025 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110652049 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
* *
110652073 ATAATGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
110652097 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
110652121 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
* *
110652145 ATAATGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110652169 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
110652193 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110652216 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110652240 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110652264 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110652288 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
110652312 ATA
1 ATA
110652315 TGGTCTTTGC
Statistics
Matches: 303, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 22 0.07
24 281 0.93
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:110653548 original size:13 final size:13
Alignment explanation
Indices: 110653530--110653554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110653520 AAGATGAACA
110653530 CTTTTTTTTTTTC
1 CTTTTTTTTTTTC
110653543 CTTTTTTTTTTT
1 CTTTTTTTTTTT
110653555 TCATACTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
CTTTTTTTTTTTC
Found at i:110672314 original size:35 final size:35
Alignment explanation
Indices: 110672287--110672452 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
110672277 CATGGAAAAG
*
110672287 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
110672322 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
110672357 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
110672397 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
110672432 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
110672453 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:110672406 original size:75 final size:75
Alignment explanation
Indices: 110672287--110672457 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
110672277 CATGGAAAAG
** *
110672287 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
110672346 CCATACTGAGC
65 CCATACCGAGC
110672357 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
110672422 CATACCGAGT
66 CATACCGAGC
**
110672432 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
110672458 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:110679792 original size:35 final size:35
Alignment explanation
Indices: 110679753--110679879 Score: 173
Period size: 35 Copynumber: 3.5 Consensus size: 35
110679743 CCATGGAAAG
110679753 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
110679788 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
110679823 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
**
110679863 TAAGAAATGTAGGTATG
1 TGTGAAATGTAGGTATG
110679880 CATTTCCCAT
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
35 51 0.63
38 3 0.04
40 27 0.33
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:110680490 original size:24 final size:22
Alignment explanation
Indices: 110680447--110680492 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
110680437 ATAAATCATG
*
110680447 AAAATATAATTAAAGGTTGAAT
1 AAAATATAATTAAAGATTGAAT
*
110680469 AAAATATGAAATTAAATATTGAAT
1 AAAATAT--AATTAAAGATTGAAT
110680493 CTAGTTTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.33
Consensus pattern (22 bp):
AAAATATAATTAAAGATTGAAT
Found at i:110681342 original size:27 final size:26
Alignment explanation
Indices: 110681293--110681344 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
110681283 ACACCTATTA
110681293 TTTATTTTTACTTTTTTAAATATTTAT
1 TTTATTTTTACTTTTTT-AATATTTAT
110681320 TTTATTTTTATCTTTATTT-ATATTT
1 TTTATTTTTA-CTTT-TTTAATATTT
110681345 TAAAATTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 16 0.70
28 4 0.17
29 3 0.13
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATTTTTACTTTTTTAATATTTAT
Found at i:110683734 original size:3 final size:3
Alignment explanation
Indices: 110683726--110683776 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
110683716 TGTTTATGAA
110683726 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
110683774 ATT
1 ATT
110683777 TAGTATGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:110686054 original size:20 final size:19
Alignment explanation
Indices: 110686001--110686058 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
110685991 AACATATGAG
* *
110686001 ACTGTTTTATTATGGGCCA
1 ACTGTATTAATATGGGCCA
110686020 ACTGTATTGAA-ATGGGCCCA
1 ACTGTATT-AATATGGG-CCA
*
110686040 ACTGTGTTAATAT-GGCCA
1 ACTGTATTAATATGGGCCA
110686058 A
1 A
110686059 GGCCCAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 4 0.12
19 16 0.48
20 13 0.39
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (19 bp):
ACTGTATTAATATGGGCCA
Found at i:110686126 original size:60 final size:59
Alignment explanation
Indices: 110686060--110686178 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 59
110686050 TATGGCCAAG
*
110686060 GCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTGATATGGGCTAC
1 GCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTGATATGGGCTAC
* * *
110686120 GCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGATATGGGCTA
1 GCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTGATATGGGCTA
110686179 AGGCCCAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
59 1 0.02
60 43 0.83
61 8 0.15
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (59 bp):
GCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTGATATGGGCTAC
Found at i:110688265 original size:18 final size:18
Alignment explanation
Indices: 110688242--110688312 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
110688232 GGGACGTGTC
110688242 ATTCATTTTCAAAACGTT
1 ATTCATTTTCAAAACGTT
*
110688260 ATTCATTATCACAAA-GTT
1 ATTCATTTTCA-AAACGTT
* *
110688278 ATAC-TATTTCAAAACGCT
1 ATTCAT-TTTCAAAACGTT
*
110688296 ATTAATTTTCAAAACGT
1 ATTCATTTTCAAAACGT
110688313 CACTTATTGC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 4 0.10
18 34 0.81
19 4 0.10
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
ATTCATTTTCAAAACGTT
Found at i:110700188 original size:21 final size:19
Alignment explanation
Indices: 110700162--110700200 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
110700152 ACGAATGAGC
110700162 AAGGAAAGAAAGAAGGAAAAA
1 AAGGAAAGAAA-AA-GAAAAA
110700183 AAGGAAAGAAAAAGAAAA
1 AAGGAAAGAAAAAGAAAA
110700201 GGGAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAAAGAAAAA
Found at i:110702117 original size:49 final size:49
Alignment explanation
Indices: 110702045--110702197 Score: 227
Period size: 49 Copynumber: 3.1 Consensus size: 49
110702035 ACTACTTGTA
110702045 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGTATGG
1 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGTATGG
* * *
110702094 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAAAT-TCAAAGTA
1 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGT--ATG-G
* *
110702145 AAACACAATTATACATTTGTAAATAATCTTGATTAAACTGGATGTATGG
1 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGTATGG
110702194 AAAC
1 AAAC
110702198 CTCATATCAT
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
48 1 0.01
49 46 0.50
50 4 0.04
51 40 0.43
52 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.32
Consensus pattern (49 bp):
AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGTATGG
Found at i:110704157 original size:27 final size:27
Alignment explanation
Indices: 110704119--110704172 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
110704109 GTCCAAAAAC
110704119 TTAGAATTTGGAAAAATTGCTCTCCAA
1 TTAGAATTTGGAAAAATTGCTCTCCAA
110704146 TTAGAATTTGGAAAAATTGCTCTCCAA
1 TTAGAATTTGGAAAAATTGCTCTCCAA
110704173 GACCTTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
TTAGAATTTGGAAAAATTGCTCTCCAA
Found at i:110707920 original size:49 final size:47
Alignment explanation
Indices: 110707862--110707995 Score: 171
Period size: 47 Copynumber: 2.8 Consensus size: 47
110707852 TCAGCTACGA
* * * *
110707862 GATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTT
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACT-GA-ATG
* *
110707912 GAT-AGTCAGTGTAAGACCATATCTGGGACATGGCATCGACTTAATG
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGAATG
*
110707958 GATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
110707996 AGCATTATAC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 4 0.05
47 33 0.44
48 3 0.04
49 32 0.43
50 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (47 bp):
GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGAATG
Found at i:110719446 original size:43 final size:43
Alignment explanation
Indices: 110719356--110719483 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 43
110719346 ATAGGATTTT
* *
110719356 CGATATGTGTTCTCGTGTAAGACCACATCTGAGACGTTGGCAT
1 CGATATGTGTTCCCGTGTAAGACCACATCTGAGACGTTGGCAA
*
110719399 CGATATGTGTTCCCGTGTAAGACC-CTGTCT-AGGACAG-TGGCAA
1 CGATATGTGTTCCCGTGTAAGACCAC-ATCTGA-GAC-GTTGGCAA
*** * *
110719442 CGATATGTGATT-ATATGTAAGACCACGTCTGGGACGTTGGCA
1 CGATATGTG-TTCCCGTGTAAGACCACATCTGAGACGTTGGCA
110719484 TTGTACGATA
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
42 3 0.04
43 64 0.90
44 4 0.06
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (43 bp):
CGATATGTGTTCCCGTGTAAGACCACATCTGAGACGTTGGCAA
Found at i:110719889 original size:19 final size:20
Alignment explanation
Indices: 110719852--110719889 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
110719842 CCAAGATAAA
*
110719852 GTTTATATATGAAAGTATAT
1 GTTTATATATGAAACTATAT
*
110719872 GTTT-TATATGAACCTATA
1 GTTTATATATGAAACTATA
110719890 AGCTTGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (20 bp):
GTTTATATATGAAACTATAT
Found at i:110735074 original size:2 final size:2
Alignment explanation
Indices: 110735067--110735094 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
110735057 TAAACTTATC
110735067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110735095 TAATAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110737326 original size:17 final size:17
Alignment explanation
Indices: 110737301--110737338 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
110737291 ACAGCCTAGC
*
110737301 CACAAGGGCGTGTGTCA
1 CACAAGGGCATGTGTCA
*
110737318 CACATGGGCATGTGTCA
1 CACAAGGGCATGTGTCA
110737335 CACA
1 CACA
110737339 CAAGCAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (17 bp):
CACAAGGGCATGTGTCA
Found at i:110740011 original size:32 final size:32
Alignment explanation
Indices: 110739975--110740041 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
110739965 ATTCGTAGTT
110739975 AAAAACAACGCAGGACCATTAAAAGGGAAAGG
1 AAAAACAACGCAGGACCATTAAAAGGGAAAGG
*
110740007 AAAAACAATGCAGGACCATTAAAAGGGAAAGG
1 AAAAACAACGCAGGACCATTAAAAGGGAAAGG
110740039 AAA
1 AAA
110740042 TTCAAGAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.55, C:0.13, G:0.24, T:0.07
Consensus pattern (32 bp):
AAAAACAACGCAGGACCATTAAAAGGGAAAGG
Found at i:110741293 original size:60 final size:60
Alignment explanation
Indices: 110741215--110741354 Score: 185
Period size: 60 Copynumber: 2.3 Consensus size: 60
110741205 CAGTGTTAAC
*
110741215 TGGGCCTTAGCCCATATCAATATTAATATGGGCCATAGCCC-CTTAC-AGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATTAATATGGGCCATAGCCCTATTACAAGT-TCAGA-TATAT
* * * *
110741276 TGGGCCTAGCCCATATCAGTATTAATCTTGGCCATAGCCCTATTACAAGTTGAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATATGGGCCATAGCCCTATTACAAGTTCAGATATAT
*
110741336 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
110741355 CACAGTTGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 53 0.76
61 14 0.20
62 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATTAATATGGGCCATAGCCCTATTACAAGTTCAGATATAT
Found at i:110741313 original size:28 final size:28
Alignment explanation
Indices: 110741215--110741315 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 28
110741205 CAGTGTTAAC
* *
110741215 TGGGCCTTAGCCCATATCAATATTAATA
1 TGGGCCATAGCCCATATCAGTATTAATA
* *
110741243 TGGGCCATAGCCCCT-TACAGTATCAGAGTATA
1 TGGGCCATAGCCCATAT-CAGTAT--TA--ATA
*
110741275 TTGGGCC-TAGCCCATATCAGTATTAATC
1 -TGGGCCATAGCCCATATCAGTATTAATA
*
110741303 TTGGCCATAGCCC
1 TGGGCCATAGCCC
110741316 TATTACAAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
27 6 0.11
28 26 0.46
30 2 0.04
32 16 0.28
33 7 0.12
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (28 bp):
TGGGCCATAGCCCATATCAGTATTAATA
Found at i:110741387 original size:19 final size:20
Alignment explanation
Indices: 110741344--110741389 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
110741334 ATTGGGCCTT
110741344 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* *
110741364 GCCCATCTCAATACAGTT-G
1 GCCCATATCAACACAGTTGG
110741383 GCCCATA
1 GCCCATA
110741390 ACAAAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:110743909 original size:3 final size:3
Alignment explanation
Indices: 110743901--110743945 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
110743891 ATTTAATTAC
110743901 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
110743946 TTCATAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:110744358 original size:42 final size:41
Alignment explanation
Indices: 110744256--110744359 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
110744246 GGGCGTTACA
** *
110744256 GATGATGCACTTACGTGTTAGTATATTTGATTCGATATATT
1 GATGATGCACTTACGTGCCAGTATATTTGATTCGATACATT
** * **
110744297 GATGATGCGTTTACATGCCAGTATATTTTCTTCGATACATCT
1 GATGATGCACTTACGTGCCAGTATATTTGATTCGATACAT-T
*
110744339 GATGATGCACTTAGGTGCCAG
1 GATGATGCACTTACGTGCCAG
110744360 CATGATTGCT
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 32 0.64
42 18 0.36
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (41 bp):
GATGATGCACTTACGTGCCAGTATATTTGATTCGATACATT
Found at i:110749184 original size:46 final size:46
Alignment explanation
Indices: 110749131--110749306 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
110749121 TATTTGGGCA
110749131 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
110749177 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
110749224 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
110749270 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110749307 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:110749286 original size:93 final size:93
Alignment explanation
Indices: 110749127--110749298 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
110749117 GGGATATTTG
* *
110749127 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
110749192 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
110749220 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
110749285 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
110749299 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:110752271 original size:15 final size:15
Alignment explanation
Indices: 110752251--110752319 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
110752241 GTATCTTGGG
110752251 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
110752266 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
110752281 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
110752296 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
110752311 TTTCTTTAT
1 TTTCTTTAT
110752320 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:110752320 original size:30 final size:30
Alignment explanation
Indices: 110752242--110752329 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
110752232 CATAGTATCG
* * * *
110752242 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
110752272 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
110752302 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
110752330 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:110754765 original size:46 final size:46
Alignment explanation
Indices: 110754712--110754887 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
110754702 TATTTGGGCA
110754712 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
110754758 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
110754805 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
110754851 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110754888 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:110754867 original size:93 final size:93
Alignment explanation
Indices: 110754708--110754879 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
110754698 GGGATATTTG
* *
110754708 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
110754773 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
110754801 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
110754866 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
110754880 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:110757013 original size:30 final size:30
Alignment explanation
Indices: 110756961--110757028 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
110756951 AATCCCAAAA
*
110756961 TCCTAAATAAGATCTCGAGTCTTCCCAAGC
1 TCCTAAATAAGATATCGAGTCTTCCCAAGC
* * * * *
110756991 TCCTGAATGAGATATCGGGTCTTCTCAAGT
1 TCCTAAATAAGATATCGAGTCTTCCCAAGC
*
110757021 TACTAAAT
1 TCCTAAAT
110757029 GTCCTCGTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (30 bp):
TCCTAAATAAGATATCGAGTCTTCCCAAGC
Found at i:110762230 original size:43 final size:43
Alignment explanation
Indices: 110762078--110762240 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
110762068 ATCAAGATGA
* * * *
110762078 GATTACATGTAAGACCATGTCTGGGACATTGGTATTG-TATTGT
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGATA-TAT
* * *
110762121 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATAT
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGATATAT
* * * * *
110762164 GATTTCGTGTAAAACCACGTTTGGGACGTTGGCATCGATATAT
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGATATAT
* *
110762207 G-TTAACATGTAAGACCATATTTGGGATA-TGGCAT
1 GATT-ACATGTAAGACCATGTTTGGGACATTGGCAT
110762241 TGTATGAGCT
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 8 0.08
43 91 0.90
44 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTTTGGGACATTGGCATCGATATAT
Found at i:110765178 original size:32 final size:32
Alignment explanation
Indices: 110765141--110765201 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
110765131 GGTTAGTAGG
** *
110765141 TTAATTAAACTTAATTCTTAAGTTAATCATGA
1 TTAATTAAACAAAATCCTTAAGTTAATCATGA
*
110765173 TTAATTAAACAAAATCCTTTAGTTAATCA
1 TTAATTAAACAAAATCCTTAAGTTAATCA
110765202 AATTAATGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (32 bp):
TTAATTAAACAAAATCCTTAAGTTAATCATGA
Found at i:110766024 original size:16 final size:17
Alignment explanation
Indices: 110765997--110766029 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
110765987 TTTCATAGCT
110765997 CCTATAAAAAAATAAAA
1 CCTATAAAAAAATAAAA
110766014 CCTAT-AAAAAATAAAA
1 CCTATAAAAAAATAAAA
110766030 GAAAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (17 bp):
CCTATAAAAAAATAAAA
Found at i:110766809 original size:17 final size:17
Alignment explanation
Indices: 110766777--110766809 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
110766767 GTGAATTGAG
110766777 TTTAGTTTTTGATGATT
1 TTTAGTTTTTGATGATT
110766794 TTTATGTTTTTG-TGAT
1 TTTA-GTTTTTGATGAT
110766810 CGTTGCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.67
Consensus pattern (17 bp):
TTTAGTTTTTGATGATT
Found at i:110767557 original size:43 final size:43
Alignment explanation
Indices: 110767509--110767671 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
110767499 ATCGAGATAT
* *
110767509 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATGGA
1 GATTACATGTAAGACCATATCTGGGACATTGGCATCGATAT-GA
* * * * *
110767552 GATTACGTGTAAGAGCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACATGTAAGACCATATCTGGGACATTGGCATCGAT-ATGA
* * * *
110767596 -ATTTCATGTAAGACCCTATCTGGGACAATGGCATCGATATGT
1 GATTACATGTAAGACCATATCTGGGACATTGGCATCGATATGA
* * *
110767638 GATAATATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATATCTGGGACATTGGCAT
110767672 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
42 8 0.08
43 87 0.88
44 2 0.02
45 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATATCTGGGACATTGGCATCGATATGA
Found at i:110767661 original size:86 final size:84
Alignment explanation
Indices: 110767514--110767671 Score: 192
Period size: 86 Copynumber: 1.8 Consensus size: 84
110767504 GATATGATTA
* * * * * *
110767514 CATGTAAGACCATGTCTGGGACATTGGCATTGTATGGAGATTACGTGTAAGAGCATGTCTGGGAC
1 CATGTAAGACCATATCTGGGACAATGGCATCGTATGGAGAATAC-TGTAAGACCATATCTGGGAC
110767579 ATTGGCATCGTTAATCAATTT
65 A-TGGCATCGTTAATCAATTT
* *
110767600 CATGTAAGACCCTATCTGGGACAATGGCATCGATATGTGATAATA-TGTAAGACCATATCTGGGA
1 CATGTAAGACCATATCTGGGACAATGGCATCG-TATG-GAGAATACTGTAAGACCATATCTGGGA
*
110767664 TATGGCAT
64 CATGGCAT
110767672 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
85 6 0.10
86 46 0.75
87 4 0.07
88 5 0.08
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (84 bp):
CATGTAAGACCATATCTGGGACAATGGCATCGTATGGAGAATACTGTAAGACCATATCTGGGACA
TGGCATCGTTAATCAATTT
Found at i:110770752 original size:26 final size:26
Alignment explanation
Indices: 110770723--110770832 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
110770713 TGATACAAAT
110770723 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
110770749 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
110770775 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
110770801 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
110770827 TGATAA
1 TGATAA
110770833 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:110772862 original size:136 final size:137
Alignment explanation
Indices: 110772617--110772902 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
110772607 GAGTAGTCTC
110772617 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
110772682 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
110772747 ACTGTTA
131 ACTGTTA
*
110772754 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
110772818 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
110772883 ACTGTTA
131 ACTGTTA
**
110772890 CCTGAATGGGCTT
1 CCCAAATGGGCTT
110772903 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:110777899 original size:40 final size:40
Alignment explanation
Indices: 110777855--110778078 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
110777845 GCTACTCGTT
* *
110777855 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
110777895 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
110777935 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
110777974 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCA
* * ** * *
110778014 CGAATGCCTTC-GGATCTTAGTCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
110778055 CAAAT-CCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
110778079 ACATCATTCG
Statistics
Matches: 157, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 110 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:110777966 original size:79 final size:80
Alignment explanation
Indices: 110777857--110778079 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 80
110777847 TACTCGTTCA
* * *
110777857 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGA
110777921 TTTAGTAACTCGCACC
65 TTTAGTAACTCGCACC
* *
110777937 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGA-CTTAGCCCGGA
*
110778000 TTTAGTAACTCGCACG
65 TTTAGTAACTCGCACC
* * * *
110778016 AATGCCTTCGGATCTTAGTCC-GAATATAGTCACTTAGCACAAAT-CCTTCGGGACTTAGCCCGG
1 AATGCCTTCGG-GCTTAGCCCGGAATATAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCCGG
110778079 A
64 A
110778080 CATCATTCGA
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.02
79 70 0.56
80 42 0.34
81 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCACC
Found at i:110778064 original size:119 final size:120
Alignment explanation
Indices: 110777855--110778079 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
110777845 GCTACTCGTT
*
110777855 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGA
* * *
110777920 ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * **
110777974 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACC
*
110778036 CGAATATAGTCACTTAGCACAAAT-CCTTCGGGACTTAGCCCGGA
63 CGAATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
110778080 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 6 0.07
119 63 0.70
120 21 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:110786131 original size:2 final size:2
Alignment explanation
Indices: 110786124--110786159 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
110786114 AGCTTAAGGG
*
110786124 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110786160 CAGTAGTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110787326 original size:31 final size:31
Alignment explanation
Indices: 110787291--110787353 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
110787281 TCTCCCAGAG
110787291 TACGCTCCTTGTTCTTTTTTTCTTTTTTCTT
1 TACGCTCCTTGTTCTTTTTTTCTTTTTTCTT
110787322 TACGCTCCTTGTTCTTTTTTTCTTTTTTCTT
1 TACGCTCCTTGTTCTTTTTTTCTTTTTTCTT
110787353 T
1 T
110787354 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.03, C:0.22, G:0.06, T:0.68
Consensus pattern (31 bp):
TACGCTCCTTGTTCTTTTTTTCTTTTTTCTT
Found at i:110798372 original size:26 final size:28
Alignment explanation
Indices: 110798336--110798400 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 28
110798326 TTAAGCCTAA
110798336 TTAAACTATCCAAATATGCACATCATCAT
1 TTAAAC-ATCCAAATATGCACATCATCAT
110798365 TTAAATCCACTCCAAATATGCACATCATCAT
1 TTAAA--CA-TCCAAATATGCACATCATCAT
110798396 TTAAA
1 TTAAA
110798401 TCCACTAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 5 0.15
30 1 0.03
31 27 0.82
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.31
Consensus pattern (28 bp):
TTAAACATCCAAATATGCACATCATCAT
Found at i:110798379 original size:31 final size:31
Alignment explanation
Indices: 110798344--110798406 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
110798334 AATTAAACTA
110798344 TCCAAATATGCACATCATCATTTAAATCCAC
1 TCCAAATATGCACATCATCATTTAAATCCAC
110798375 TCCAAATATGCACATCATCATTTAAATCCAC
1 TCCAAATATGCACATCATCATTTAAATCCAC
110798406 T
1 T
110798407 AACTTAACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.29, G:0.03, T:0.30
Consensus pattern (31 bp):
TCCAAATATGCACATCATCATTTAAATCCAC
Found at i:110800768 original size:54 final size:54
Alignment explanation
Indices: 110800661--110800782 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
110800651 ATTGAACATT
* *
110800661 CTTAGTTCACACGCTCGTGTGTCCAACCATGTGCTTACCCGTGTAACTCACTGA
1 CTTAGTTCACACGCTCGTGTGTCCAACCATATGCTTACCCATGTAACTCACTGA
* * * * *
110800715 CTTAGTTCACATGCTTGTGTGT-CAACCCGTATGC-TAGCCCATGTGACTTACTGA
1 CTTAGTTCACACGCTCGTGTGTCCAA-CCATATGCTTA-CCCATGTAACTCACTGA
*
110800769 CTTGGTTCACACGC
1 CTTAGTTCACACGC
110800783 CCATGTGGGC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 5 0.09
54 52 0.91
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.31
Consensus pattern (54 bp):
CTTAGTTCACACGCTCGTGTGTCCAACCATATGCTTACCCATGTAACTCACTGA
Found at i:110803860 original size:22 final size:22
Alignment explanation
Indices: 110803834--110803880 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
110803824 ATTTGAGATA
110803834 TTAATTTTTATTTAAAAGTATT
1 TTAATTTTTATTTAAAAGTATT
110803856 TTAATTTTTATTTAAAAGTATT
1 TTAATTTTTATTTAAAAGTATT
110803878 TTA
1 TTA
110803881 TTAAATGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TTAATTTTTATTTAAAAGTATT
Found at i:110803926 original size:23 final size:23
Alignment explanation
Indices: 110803900--110803947 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
110803890 TTTTAATGAA
*
110803900 TTTCCCAATTAAAGACTAATTTG
1 TTTCCCAATTAAAGACTAAATTG
110803923 TTTCCCAATTAAAGACTAAATTG
1 TTTCCCAATTAAAGACTAAATTG
110803946 TT
1 TT
110803948 GAAATAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (23 bp):
TTTCCCAATTAAAGACTAAATTG
Found at i:110804552 original size:21 final size:21
Alignment explanation
Indices: 110804526--110804565 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
110804516 ATTGGGTGGA
110804526 TCAGCTCTTATAAGCTTCTGT
1 TCAGCTCTTATAAGCTTCTGT
*
110804547 TCAGCTCTTATGAGCTTCT
1 TCAGCTCTTATAAGCTTCT
110804566 ATTGGCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTATAAGCTTCTGT
Found at i:110817578 original size:16 final size:17
Alignment explanation
Indices: 110817551--110817582 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
110817541 TGGAAATAGC
110817551 TATTCTTGAACAATAAT
1 TATTCTTGAACAATAAT
110817568 TATTC-TGAACAATAA
1 TATTCTTGAACAATAA
110817583 GAGTTGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (17 bp):
TATTCTTGAACAATAAT
Found at i:110822397 original size:394 final size:394
Alignment explanation
Indices: 110821669--110822457 Score: 1560
Period size: 394 Copynumber: 2.0 Consensus size: 394
110821659 GTCAAGGCCT
110821669 TCTCTAATGATCTTGCTAGTTTGTTCCAAGATTTTTCCGACTCTTAGGTTGTGAGATTCAATGAG
1 TCTCTAATGATCTTGCTAGTTTGTTCCAAGATTTTTCCGACTCTTAGGTTGTGAGATTCAATGAG
110821734 TGGGATTGCTTCAGCGTCAAGTTCTGACTTACATAGATTTTAATATTTTTCCATTAAACAGATTC
66 TGGGATTGCTTCAGCGTCAAGTTCTGACTTACATAGATTTTAATATTTTTCCATTAAACAGATTC
110821799 TGTGATACACTATATGTAAATTTACAGAAATAGTTTAACCACATCCTTTTTGTTTCTTCCACTTT
131 TGTGATACACTATATGTAAATTTACAGAAATAGTTTAACCACATCCTTTTTGTTTCTTCCACTTT
*
110821864 CATTATATTTCCAGCATAGGTATTGATTTTCTATGAAGTCTAAATCTTGGACCCTTGAGAAGCCT
196 CATTATATTTCCAGCATAGGTATTGATTTCCTATGAAGTCTAAATCTTGGACCCTTGAGAAGCCT
*
110821929 TGGTGGAGAACTTATGTGACACTAAACCAGTTTCGTTTTGCTGTTAAGATAGTATAGTTTACTGA
261 TGGTGGAGAACTTATGTGAAACTAAACCAGTTTCGTTTTGCTGTTAAGATAGTATAGTTTACTGA
110821994 TCATGTGGAATCCTACTCTTTACCTGTTATGTAAAGCTACATAACTATGGAGCGCAGAAGAAAAT
326 TCATGTGGAATCCTACTCTTTACCTGTTATGTAAAGCTACATAACTATGGAGCGCAGAAGAAAAT
110822059 GCAA
391 GCAA
110822063 TCTCTAATGATCTTGCTAGTTTGTTCCAAGATTTTTCCGACTCTTAGGTTGTGAGATTCAATGAG
1 TCTCTAATGATCTTGCTAGTTTGTTCCAAGATTTTTCCGACTCTTAGGTTGTGAGATTCAATGAG
110822128 TGGGATTGCTTCAGCGTCAAGTTCTGACTTACATAGATTTTAATATTTTTCCATTAAACAGATTC
66 TGGGATTGCTTCAGCGTCAAGTTCTGACTTACATAGATTTTAATATTTTTCCATTAAACAGATTC
110822193 TGTGATACACTATATGTAAATTTACAGAAATAGTTTAACCACATCCTTTTTGTTTCTTCCACTTT
131 TGTGATACACTATATGTAAATTTACAGAAATAGTTTAACCACATCCTTTTTGTTTCTTCCACTTT
110822258 CATTATATTTCCAGCATAGGTATTGATTTCCTATGAAGTCTAAATCTTGGACCCTTGAGAAGCCT
196 CATTATATTTCCAGCATAGGTATTGATTTCCTATGAAGTCTAAATCTTGGACCCTTGAGAAGCCT
110822323 TGGTGGAGAACTTATGTGAAACTAAACCAGTTTCGTTTTGCTGTTAAGATAGTATAGTTTACTGA
261 TGGTGGAGAACTTATGTGAAACTAAACCAGTTTCGTTTTGCTGTTAAGATAGTATAGTTTACTGA
110822388 TCATGTGGAATCCTACTCTTTACCTGTTATGTAAAGCTACATAACTATGGAGCGCAGAAGAAAAT
326 TCATGTGGAATCCTACTCTTTACCTGTTATGTAAAGCTACATAACTATGGAGCGCAGAAGAAAAT
110822453 GCAA
391 GCAA
110822457 T
1 T
110822458 GATTGATAAT
Statistics
Matches: 393, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
394 393 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (394 bp):
TCTCTAATGATCTTGCTAGTTTGTTCCAAGATTTTTCCGACTCTTAGGTTGTGAGATTCAATGAG
TGGGATTGCTTCAGCGTCAAGTTCTGACTTACATAGATTTTAATATTTTTCCATTAAACAGATTC
TGTGATACACTATATGTAAATTTACAGAAATAGTTTAACCACATCCTTTTTGTTTCTTCCACTTT
CATTATATTTCCAGCATAGGTATTGATTTCCTATGAAGTCTAAATCTTGGACCCTTGAGAAGCCT
TGGTGGAGAACTTATGTGAAACTAAACCAGTTTCGTTTTGCTGTTAAGATAGTATAGTTTACTGA
TCATGTGGAATCCTACTCTTTACCTGTTATGTAAAGCTACATAACTATGGAGCGCAGAAGAAAAT
GCAA
Found at i:110824429 original size:182 final size:181
Alignment explanation
Indices: 110824081--110824448 Score: 639
Period size: 182 Copynumber: 2.0 Consensus size: 181
110824071 TGTGTTCCAC
110824081 TATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGGTGT
1 TATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGGTGT
* *
110824146 TCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGGAATG
66 TCATAATAACTAAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCAATG
*
110824211 AGGCACATTATTGTCTCCATTTTGTTTTTGCTAAACTTATTTCTTTAACAT
131 AGACACATTATTGTCTCCATTTTGTTTTTGCTAAACTTATTTCTTTAACAT
*
110824262 TATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTTTGTGGTGT
1 TATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGGTGT
* * *
110824327 TTATAATAATTTAAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCAGT
66 TCATAATAA-CTAAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCAAT
*
110824392 GAGACACATTATTGTCTCCATTTTGTATTTT-CTAAACTTGTTTCTTTAACAT
130 GAGACACATTATTGTCTCCATTTTGT-TTTTGCTAAACTTATTTCTTTAACAT
110824444 TATAT
1 TATAT
110824449 GAGATATGTG
Statistics
Matches: 177, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
181 72 0.41
182 101 0.57
183 4 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (181 bp):
TATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGGTGT
TCATAATAACTAAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCAATG
AGACACATTATTGTCTCCATTTTGTTTTTGCTAAACTTATTTCTTTAACAT
Found at i:110825732 original size:13 final size:13
Alignment explanation
Indices: 110825714--110825740 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
110825704 GCTTAGTTTA
110825714 GGTCTAAAGTATT
1 GGTCTAAAGTATT
110825727 GGTCTAAAGTATT
1 GGTCTAAAGTATT
110825740 G
1 G
110825741 ATTCATCGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (13 bp):
GGTCTAAAGTATT
Found at i:110826501 original size:34 final size:34
Alignment explanation
Indices: 110826458--110826525 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
110826448 TATGTTTGGT
110826458 AGAAGTATGTTTGAGTGTATGAGTTAGCAATAAA
1 AGAAGTATGTTTGAGTGTATGAGTTAGCAATAAA
*
110826492 AGAAGTATGTTTGAGTGTATGAGTTGGCAATAAA
1 AGAAGTATGTTTGAGTGTATGAGTTAGCAATAAA
110826526 CTAACATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (34 bp):
AGAAGTATGTTTGAGTGTATGAGTTAGCAATAAA
Found at i:110827764 original size:24 final size:24
Alignment explanation
Indices: 110827737--110827786 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
110827727 TTTGCCGCCT
*
110827737 CCATGCTTTCCGTGCTTGAATTTC
1 CCATGCTTCCCGTGCTTGAATTTC
110827761 CCATGCTTCCCGTGCTTGAATTTC
1 CCATGCTTCCCGTGCTTGAATTTC
110827785 CC
1 CC
110827787 CCCATGATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.34, G:0.16, T:0.38
Consensus pattern (24 bp):
CCATGCTTCCCGTGCTTGAATTTC
Found at i:110827806 original size:21 final size:22
Alignment explanation
Indices: 110827773--110827831 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
110827763 ATGCTTCCCG
*
110827773 TGCTTGAATTTCCCC-CCATGA
1 TGCTTGAACTTCCCCACCATGA
*
110827794 TGCTTAAACTTCCCACCACCATGA
1 TGCTTGAACTT-CC-CCACCATGA
*
110827818 TGTTTGAACTTCCC
1 TGCTTGAACTTCCC
110827832 ATGATGACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 3 0.10
23 4 0.13
24 15 0.48
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (22 bp):
TGCTTGAACTTCCCCACCATGA
Found at i:110827863 original size:9 final size:9
Alignment explanation
Indices: 110827851--110827893 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
110827841 ATGACCAAAC
110827851 CCATGAGCA
1 CCATGAGCA
*
110827860 CCATAAGCA
1 CCATGAGCA
110827869 CCATGAGCA
1 CCATGAGCA
110827878 CCATGAGCA
1 CCATGAGCA
*
110827887 CCGTGAG
1 CCATGAG
110827894 ACACGTGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.33, C:0.33, G:0.23, T:0.12
Consensus pattern (9 bp):
CCATGAGCA
Found at i:110827979 original size:2 final size:2
Alignment explanation
Indices: 110827972--110827999 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
110827962 CCGTGCCCTG
110827972 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
110828000 AAAAGGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:110828193 original size:33 final size:30
Alignment explanation
Indices: 110828135--110828196 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
110828125 GGGGTATCCT
*
110828135 CCTTGAGGAGGGTAGCCAGCTGGTGGATAG
1 CCTTGAGGAGGGTAGCCAGCAGGTGGATAG
*
110828165 CCTTGAGGTGGGTAAGCTCCAGCAGGTGGATA
1 CCTTGAGGAGGGT-AG--CCAGCAGGTGGATA
110828197 TCCGCCAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 12 0.44
31 2 0.07
33 13 0.48
ACGTcount: A:0.21, C:0.18, G:0.40, T:0.21
Consensus pattern (30 bp):
CCTTGAGGAGGGTAGCCAGCAGGTGGATAG
Found at i:110829299 original size:2 final size:2
Alignment explanation
Indices: 110829292--110829327 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
110829282 AATGTTAAAC
110829292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110829328 TAGTTTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110830514 original size:16 final size:15
Alignment explanation
Indices: 110830481--110830514 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
110830471 ACGAAATAGG
*
110830481 GCTGTAATGAATAGA
1 GCTGTAATGAATAAA
110830496 GCTGTAATAGAATAAA
1 GCTGTAAT-GAATAAA
110830512 GCT
1 GCT
110830515 AATGGAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (15 bp):
GCTGTAATGAATAAA
Found at i:110830570 original size:46 final size:44
Alignment explanation
Indices: 110830514--110830603 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
110830504 AGAATAAAGC
* *
110830514 TAATGGAATAGAGTTGTAATTAGTAATTCAAT-TGTTTGGTTGAATG
1 TAATGAAATAGAATTGTAA-TAGT-ATTC-ATGTGTTTGGTTGAATG
*
110830560 TAATGAAATAGAATTGTAATAGTATTCTTGTGTTTGGTTGAATG
1 TAATGAAATAGAATTGTAATAGTATTCATGTGTTTGGTTGAATG
110830604 GAACAGATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.45
45 4 0.10
46 17 0.43
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.42
Consensus pattern (44 bp):
TAATGAAATAGAATTGTAATAGTATTCATGTGTTTGGTTGAATG
Found at i:110836427 original size:20 final size:21
Alignment explanation
Indices: 110836389--110836427 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
110836379 GGATTATTAC
*
110836389 GATGAATTGTTTTAGAAAAAG
1 GATGAATTGTTTAAGAAAAAG
110836410 GATGAATTG-TTAAGAAAA
1 GATGAATTGTTTAAGAAAA
110836428 TGAGCTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (21 bp):
GATGAATTGTTTAAGAAAAAG
Found at i:110836552 original size:2 final size:2
Alignment explanation
Indices: 110836545--110836575 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
110836535 ATGAAATTGC
110836545 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110836576 CTGTGTTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:110838042 original size:24 final size:24
Alignment explanation
Indices: 110838005--110838067 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
110837995 TCATGTACAC
*
110838005 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
110838029 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
110838053 ATTATTGTATTTATT
1 ATTATTGTATTTATT
110838068 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:110838082 original size:24 final size:24
Alignment explanation
Indices: 110838026--110838082 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
110838016 TATTTTCATG
* *
110838026 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
110838050 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
110838074 ATTAGTATT
1 ATTATTATT
110838083 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:110838282 original size:2 final size:2
Alignment explanation
Indices: 110838275--110838354 Score: 60
Period size: 2 Copynumber: 41.5 Consensus size: 2
110838265 GTGTATGCAT
* * *
110838275 TA TA TA TA TT TT TA -A TA CTA TA T- TA TG TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
110838315 TA TA TA TA TA TA TA TA TT TA T- TA TA TT TT TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110838355 TTTTAATATC
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
1 4 0.06
2 57 0.90
3 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (2 bp):
TA
Found at i:110838371 original size:25 final size:23
Alignment explanation
Indices: 110838277--110838394 Score: 98
Period size: 23 Copynumber: 5.0 Consensus size: 23
110838267 GTATGCATTA
110838277 TATATATTTTTAATACTATATTATG
1 TATATATTTTT-ATA-TATATTATG
* *
110838302 TATATA-TTATATATATATATATA
1 TATATATTTTTATATATAT-TATG
*
110838325 TATATATTTATTATAT-TTTTATG
1 TATATATTT-TTATATATATTATG
*
110838348 TATATATTTTTAATATCACATTAT-
1 TATATATTTTT-ATAT-ATATTATG
* *
110838372 TCATATGTTTTTTTATATATTAT
1 T-ATATATTTTTATATATATTAT
110838395 CCCATGTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
22 7 0.09
23 34 0.45
24 11 0.14
25 24 0.32
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (23 bp):
TATATATTTTTATATATATTATG
Found at i:110838551 original size:2 final size:2
Alignment explanation
Indices: 110838505--110838531 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
110838495 TATACGTCTG
110838505 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
110838532 TTTTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:110838555 original size:3 final size:3
Alignment explanation
Indices: 110838549--110838610 Score: 72
Period size: 3 Copynumber: 20.0 Consensus size: 3
110838539 TTTATTCATA
* *
110838549 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
110838596 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
110838611 CATTGTCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 2 0.04
3 45 0.88
4 1 0.02
5 2 0.04
6 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:110838565 original size:32 final size:32
Alignment explanation
Indices: 110838505--110838596 Score: 82
Period size: 32 Copynumber: 2.8 Consensus size: 32
110838495 TATACGTCTG
* *
110838505 TATATATATATATATATATATATATATTTTTTTC-T
1 TATAT-TATATAT-TAT-TATAT-TATTTTCTACGT
110838540 T-TATTCATATATTATTATCATTATTTTCTACGT
1 TATATT-ATATATTATTAT-ATTATTTTCTACGT
110838573 TATATTAT-TATTATTATTATTATT
1 TATATTATATATTATTA-TATTATT
110838597 ATTATTATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
32 25 0.50
33 11 0.22
34 13 0.26
35 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (32 bp):
TATATTATATATTATTATATTATTTTCTACGT
Found at i:110851081 original size:45 final size:44
Alignment explanation
Indices: 110851024--110851321 Score: 208
Period size: 49 Copynumber: 6.6 Consensus size: 44
110851014 ACCATCCTAG
*
110851024 CTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAATCTTAT
* * * * *
110851069 TTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAG----A-TACAAATCTTAT
* * * * *
110851118 CTCTCTGAAGTTGCAGTAGAGCAG-GTCGAAGTTACAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATACAAATCTTAT
* * *
110851162 CTCCTTGAAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAATCTTAT
* * * *
110851207 TTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTAAATTACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAG----A-TACAAATCTTAT
* * * * * * *
110851256 CTCTCTAAAGTTGCAGTAGAGCAGA-TCAA-A-ATAGATCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTAT
* *
110851297 CTCCCTGAAGTTGTAGTGGAACAGA
1 CTCCCTGAAGTTGCAGTGGAGCAGA
110851322 TCGAAAACGG
Statistics
Matches: 199, Mismatches: 41, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
41 29 0.15
43 1 0.01
44 37 0.19
45 61 0.31
48 4 0.02
49 63 0.32
50 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTAT
Found at i:110851199 original size:138 final size:138
Alignment explanation
Indices: 110851031--110851279 Score: 444
Period size: 138 Copynumber: 1.8 Consensus size: 138
110851021 TAGCTCCCTA
* *
110851031 AAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
1 AAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
*
110851096 AAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTA
66 AAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTA
110851161 TCTCCTTG
131 TCTCCTTG
* *
110851169 AAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAGCAGATT
1 AAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
*
110851234 GAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAG
66 AAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAG
110851280 ATCAAAATAG
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
138 105 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (138 bp):
AAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
AAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTA
TCTCCTTG
Found at i:110851438 original size:224 final size:224
Alignment explanation
Indices: 110851187--110851685 Score: 800
Period size: 224 Copynumber: 2.2 Consensus size: 224
110851177 GTAGAGCAGA
* * *
110851187 CTGAAAATAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTAAATTACAGATC
1 CTGAAAATAACAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATC
* * **
110851252 TTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAATAGATCTTGTCTCCCTGAAGTTGTAGTGGA
66 TTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTAAAGTTACAGTGGA
110851317 ACAGATCGAAAACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGC
131 ACAGATCGAAAACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGC
* *
110851382 CTTAATCCCCAAAGCAGTAGGGTAATAGG
196 CTTAACCCCCAAAGCAATAGGGTAATAGG
* *
110851411 TTGAAAATAACAAATTTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATC
1 CTGAAAATAACAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATC
*
110851476 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTAAAGTTACAGTGGA
66 TTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTAAAGTTACAGTGGA
* * *
110851541 ACAGATCGAAGACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCTACCAAGT
131 ACAGATCGAAAACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGC
*
110851606 CTTAACCCCCTAAGCAATAGGGTAATAGG
196 CTTAACCCCCAAAGCAATAGGGTAATAGG
* * * * * *
110851635 CTGAAAATCACTAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAG
1 CTGAAAATAACAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAG
110851686 ACAACGGATC
Statistics
Matches: 251, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
224 251 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (224 bp):
CTGAAAATAACAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATC
TTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTAAAGTTACAGTGGA
ACAGATCGAAAACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGC
CTTAACCCCCAAAGCAATAGGGTAATAGG
Found at i:110851532 original size:41 final size:41
Alignment explanation
Indices: 110851469--110851547 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
110851459 AAGCTAAATT
* * * *
110851469 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAA
1 ACAGATCTTATCTCCCTAAAGTTACAGTAGAACAGATCAAA
* *
110851510 ACAGATCTTGTCTCCCTAAAGTTACAGTGGAACAGATC
1 ACAGATCTTATCTCCCTAAAGTTACAGTAGAACAGATC
110851548 GAAGACGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (41 bp):
ACAGATCTTATCTCCCTAAAGTTACAGTAGAACAGATCAAA
Found at i:110853266 original size:24 final size:24
Alignment explanation
Indices: 110853229--110853291 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
110853219 TCATGTACAC
*
110853229 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
110853253 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
110853277 ATTATTGTATTTATT
1 ATTATTGTATTTATT
110853292 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:110853306 original size:24 final size:24
Alignment explanation
Indices: 110853250--110853306 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
110853240 TATTTTCATG
* *
110853250 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
110853274 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
110853298 ATTAGTATT
1 ATTATTATT
110853307 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:110853421 original size:2 final size:2
Alignment explanation
Indices: 110853414--110853455 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
110853404 TATTTTTAAC
* *
110853414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110853456 TTATGAAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110853526 original size:2 final size:2
Alignment explanation
Indices: 110853519--110853610 Score: 70
Period size: 2 Copynumber: 48.5 Consensus size: 2
110853509 GTGCATGTAT
* *
110853519 TA TA TA TA T- TT TA -A TA CTA TA T- TA TG TA TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * *
110853557 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TT TA T- TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
110853598 TT TA TG TA TA TA T
1 TA TA TA TA TA TA T
110853611 TTTTAATATC
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
1 6 0.08
2 64 0.89
3 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:110853597 original size:40 final size:38
Alignment explanation
Indices: 110853516--110853596 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
110853506 AATGTGCATG
* *
110853516 TATTATATATATTTTAATACTATATTATGTATATATTA
1 TATTATATATATTATAATACTATATTATATATATATTA
110853554 TATTATATATA-TATACATA-TATA-TATATATATATT-
1 TATTATATATATTATA-ATACTATATTATATATATATTA
110853589 TATTATAT
1 TATTATAT
110853597 TTTTATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
35 8 0.20
36 11 0.28
37 7 0.17
38 14 0.35
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (38 bp):
TATTATATATATTATAATACTATATTATATATATATTA
Found at i:110853607 original size:29 final size:29
Alignment explanation
Indices: 110853513--110853610 Score: 87
Period size: 29 Copynumber: 3.3 Consensus size: 29
110853503 TCTAATGTGC
*
110853513 ATGTAT-TATATATATTT-TAATACTATATT
1 ATGTATATATATATATTTATTATA-T-TATT
*
110853542 ATGTATATAT-TATA-TTATATATATATACAT
1 ATGTATATATATATATTTAT-TATAT-TA-TT
* *
110853572 ATATATATATATATATTTATTATATTTTT
1 ATGTATATATATATATTTATTATATTATT
110853601 ATGTATATAT
1 ATGTATATAT
110853611 TTTTAATATC
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
28 2 0.04
29 25 0.44
30 17 0.30
31 9 0.16
32 4 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
ATGTATATATATATATTTATTATATTATT
Found at i:110854855 original size:26 final size:26
Alignment explanation
Indices: 110854810--110854904 Score: 136
Period size: 26 Copynumber: 3.7 Consensus size: 26
110854800 AACACGTCAG
* *
110854810 GAAATGGAAGCTTTTGTGGTGTGTCT
1 GAAATGGAAACCTTTGTGGTGTGTCT
* * *
110854836 GGAATGGAAACCTTTATGGTGTTTCT
1 GAAATGGAAACCTTTGTGGTGTGTCT
110854862 GAAATGGAAACCTTTGTGGTGTGTCT
1 GAAATGGAAACCTTTGTGGTGTGTCT
*
110854888 AAAATGGAAACCTTTGT
1 GAAATGGAAACCTTTGT
110854905 AGCATAATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.36
Consensus pattern (26 bp):
GAAATGGAAACCTTTGTGGTGTGTCT
Found at i:110858370 original size:33 final size:33
Alignment explanation
Indices: 110858328--110858395 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
110858318 GAAGTTAGGG
110858328 AAAGAACAAAAATCAAGAGTGCTGCGCGAGTAC
1 AAAGAACAAAAATCAAGAGTGCTGCGCGAGTAC
110858361 AAAGAACAAAAATCAAGAGTGCTGCGCGAGTAC
1 AAAGAACAAAAATCAAGAGTGCTGCGCGAGTAC
110858394 AA
1 AA
110858396 CAAGTCACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.12
Consensus pattern (33 bp):
AAAGAACAAAAATCAAGAGTGCTGCGCGAGTAC
Found at i:110859142 original size:130 final size:131
Alignment explanation
Indices: 110858842--110859661 Score: 821
Period size: 130 Copynumber: 6.3 Consensus size: 131
110858832 TTAAAACTAT
* * * *
110858842 AACCTAAGTTCATTCAATCTAATATCATGAACAATCTTATCTGAGTTAGTTTATTTAATATCGCT
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTTAGCTGATTTAATATCACT
* * * * ** * * *
110858907 ACTCTAAATAGCTCGTTGATTTAATATCGTATCTAATATCGTTAAGGTTCGCTTATTTAAGATCA
66 ACTCTAAACAACTCGTTGATTTAAGATCGCAGATGATATCGTTAAGGTTCGCTAATTTAAGATCG
110858972 C
131 C
*** * * * * *
110858973 AGTATAAGTTCATTCGATTTAATATCATGAACAACCTTATTTGA-TTCTGCTGATTTAATATCGC
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTT-AGCTGATTTAATATCAC
* * * *
110859037 TACTCTAAACAACTTGTTGATTTAAGATTGCAGATGATAT-TTTAAGGTTCGCTAATTTAATATC
65 TACTCTAAACAACTCGTTGATTTAAGATCGCAGATGATATCGTTAAGGTTCGCTAATTTAAGATC
110859101 GC
130 GC
* ** * * *
110859103 AACCTAAGTTCATTCGATTTAATATCACAAACAATCTTATCTAAGTTAGTTGATTTAATATTACT
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTTAGCTGATTTAATATCACT
* ** ** * * * *
110859168 ACTTTAAACATTTCACTGATTTAATATCGCAGTTGATATCGTTAAGGTTTGTTAATTTAAGATCG
66 ACTCTAAACAACTCGTTGATTTAAGATCGCAGATGATATCGTTAAGGTTCGCTAATTTAAGATCG
110859233 C
131 C
** * * **
110859234 AACAGAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGCA-TTAGCTGATTTAATATTGC
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTG-AGTTAGCTGATTTAATATCAC
** * **
110859298 TACTCTAAACAGGTCATTGATTTAAGATTACA-ACTGATATCG-TAAGG-TCTGCTAATTTAAGA
65 TACTCTAAACAACTCGTTGATTTAAGATCGCAGA-TGATATCGTTAAGGTTC-GCTAATTTAAGA
*
110859360 TTGC
128 TCGC
* * * * *
110859364 AATCTAAGTTTATTCAATTTAATATTATGAACAATCTTATCTAAGTTAGCTGGTTTAATATCACT
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTTAGCTGATTTAATATCACT
* ** * * * *
110859429 ACTCTAAACAACTTGTCAATTTAAGATCGCA-ACTGATATCGTTAA-GTTCACTGATTTAAAATT
66 ACTCTAAACAACTCGTTGATTTAAGATCGCAGA-TGATATCGTTAAGGTTCGCTAATTTAAGATC
110859492 GC
130 GC
* * *
110859494 AACCTAAGTTCATTAAATTTAATATCATGAA-AAGTTTTATCTGACTTAGCTGATTTAATATCAC
1 AACCTAAGTTCATTCAATTTAATATCATGAACAA-TCTTATCTGAGTTAGCTGATTTAATATCAC
* * * * * * * * *
110859558 TACTATAAATAGCTCGTTGATTTAATATCCCAGTTGATACCGTTAAGGTTCGCTATTTTAAGATT
65 TACTCTAAACAACTCGTTGATTTAAGATCGCAGATGATATCGTTAAGGTTCGCTAATTTAAGATC
110859623 GC
130 GC
* *
110859625 AACCTAATTTCATTCCATTTAATATCATGAACAATCT
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCT
110859662 CATTTTTGCT
Statistics
Matches: 561, Mismatches: 115, Indels: 26
0.80 0.16 0.04
Matches are distributed among these distances:
129 4 0.01
130 310 0.55
131 244 0.43
132 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (131 bp):
AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTTAGCTGATTTAATATCACT
ACTCTAAACAACTCGTTGATTTAAGATCGCAGATGATATCGTTAAGGTTCGCTAATTTAAGATCG
C
Found at i:110859288 original size:261 final size:257
Alignment explanation
Indices: 110858809--110859661 Score: 908
Period size: 261 Copynumber: 3.3 Consensus size: 257
110858799 ATATTGTAGT
* * * * ** *
110858809 TGATATCATTAAGGTTCGTTGATTTAAAACTATAACCTAAGTTCATTCAATCTAATATCATGAAC
1 TGATATC-TTAAGGTTCGCTAATTTAAGATTGCAACCTAAGTTCATTCAATTTAATATCATGAAC
* * * * ** * *
110858874 AATCTTATCTGAGTTAGTTTATTTAATATCGCTACTCTAAATAGCTCGTTGATTTAATATCGTAT
65 AATCTTATCTAAGTTAGTTGATTTAATATCACTACTCTAAACATTTC-ATGATTTAATATCGCAT
* * **
110858939 CTAATATCGTTAAGGTTCGCTTATTTAAGATCACAGTATAAGTTCATTCGATTTAATATCATGAA
129 -TGATATCGTTAAGGTTCG-TTATTTAAGATCGCAACATAAGTTCATTCGATTTAATATCATGAA
* * * * *
110859004 CAACCTTATTTGATTCTGCTGATTTAATATCGCTACTCTAAACAACTTGTTGATTTAAGATTGCA
192 CAATCTTATTTGATT-AGCTGATTTAATATCGCTACTCTAAACAGCTCGTTGATTTAAGATTACA
110859069 GA
256 GA
* * * * **
110859071 TGATATTTTAAGGTTCGCTAATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCACAAACA
1 TGATATCTTAAGGTTCGCTAATTTAAGATTGCAACCTAAGTTCATTCAATTTAATATCATGAACA
* *
110859136 ATCTTATCTAAGTTAGTTGATTTAATATTACTACTTTAAACATTTCACTGATTTAATATCGCAGT
66 ATCTTATCTAAGTTAGTTGATTTAATATCACTACTCTAAACATTTCA-TGATTTAATATCGCA-T
* *
110859201 TGATATCGTTAAGGTTTGTTAATTTAAGATCGCAACAGAAGTTCATTCGATTTAATATCATGAAC
129 TGATATCGTTAAGGTTCGTT-ATTTAAGATCGCAACATAAGTTCATTCGATTTAATATCATGAAC
* * *
110859266 AATCTTATTTGCATTAGCTGATTTAATATTGCTACTCTAAACAGGTCATTGATTTAAGATTACA-
193 AATCTTATTTG-ATTAGCTGATTTAATATCGCTACTCTAAACAGCTCGTTGATTTAAGATTACAG
110859330 A
257 A
* * * *
110859331 CTGATATCGTAAGG-TCTGCTAATTTAAGATTGCAATCTAAGTTTATTCAATTTAATATTATGAA
1 -TGATATCTTAAGGTTC-GCTAATTTAAGATTGCAACCTAAGTTCATTCAATTTAATATCATGAA
* * *
110859395 CAATCTTATCTAAGTTAGCTGGTTTAATATCACTACTCTAAACAACTTGTCA--ATTTAAGATCG
64 CAATCTTATCTAAGTTAGTTGATTTAATATCACTACTCTAAAC-A-TT-TCATGATTTAATATCG
* * * * * * **
110859458 CAACTGATATCGTTAA-GTTCACTGATTTAAAATTGCAACCTAAGTTCATTAAATTTAATATCAT
126 C-ATTGATATCGTTAAGGTTC-GTTATTTAAGATCGCAACATAAGTTCATTCGATTTAATATCAT
* * * * * *
110859522 GAA-AAGTTTTATCTGACTTAGCTGATTTAATATCACTACTATAAATAGCTCGTTGATTTAATAT
189 GAACAA-TCTTATTTGA-TTAGCTGATTTAATATCGCTACTCTAAACAGCTCGTTGATTTAAGAT
** *
110859586 CCCAGT
252 TACAGA
* * * *
110859592 TGATACCGTTAAGGTTCGCTATTTTAAGATTGCAACCTAATTTCATTCCATTTAATATCATGAAC
1 TGATATC-TTAAGGTTCGCTAATTTAAGATTGCAACCTAAGTTCATTCAATTTAATATCATGAAC
110859657 AATCT
65 AATCT
110859662 CATTTTTGCT
Statistics
Matches: 494, Mismatches: 81, Indels: 33
0.81 0.13 0.05
Matches are distributed among these distances:
259 3 0.01
260 100 0.20
261 372 0.75
262 14 0.03
263 2 0.00
264 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (257 bp):
TGATATCTTAAGGTTCGCTAATTTAAGATTGCAACCTAAGTTCATTCAATTTAATATCATGAACA
ATCTTATCTAAGTTAGTTGATTTAATATCACTACTCTAAACATTTCATGATTTAATATCGCATTG
ATATCGTTAAGGTTCGTTATTTAAGATCGCAACATAAGTTCATTCGATTTAATATCATGAACAAT
CTTATTTGATTAGCTGATTTAATATCGCTACTCTAAACAGCTCGTTGATTTAAGATTACAGA
Found at i:110866746 original size:46 final size:47
Alignment explanation
Indices: 110866661--110866755 Score: 174
Period size: 46 Copynumber: 2.0 Consensus size: 47
110866651 TTTTTCGATA
*
110866661 CTACTATTTCACATGGAGTCACCAAAGTCAGT-AAAAAAAATTCTCC
1 CTACCATTTCACATGGAGTCACCAAAGTCAGTAAAAAAAAATTCTCC
110866707 CTACCATTTCACATGGAGTCACCAAAGTCAGTAAAAAAAAATTCTCC
1 CTACCATTTCACATGGAGTCACCAAAGTCAGTAAAAAAAAATTCTCC
110866754 CT
1 CT
110866756 GGTCCCTACC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 31 0.66
47 16 0.34
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (47 bp):
CTACCATTTCACATGGAGTCACCAAAGTCAGTAAAAAAAAATTCTCC
Found at i:110873883 original size:21 final size:22
Alignment explanation
Indices: 110873857--110873901 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
110873847 TAAAAACCAT
* *
110873857 AAATTTTA-TAAAATTTATAAA
1 AAATTTTATTAAAAATCATAAA
110873878 AAATTTTATTAAAAATCATAAA
1 AAATTTTATTAAAAATCATAAA
110873900 AA
1 AA
110873902 TTAATAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATTTTATTAAAAATCATAAA
Found at i:110874311 original size:14 final size:14
Alignment explanation
Indices: 110874292--110874333 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
110874282 ATTTTTTGTG
*
110874292 ATTTTTAATAACTT
1 ATTTTTAATAAATT
*
110874306 ATTTTTAAAAAATT
1 ATTTTTAATAAATT
*
110874320 ATTTTTAATTAATT
1 ATTTTTAATAAATT
110874334 TCTAATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTTAATAAATT
Found at i:110877378 original size:2 final size:2
Alignment explanation
Indices: 110877371--110877407 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
110877361 GACTTTGGTT
110877371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110877408 TGTAATGGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:110879358 original size:35 final size:35
Alignment explanation
Indices: 110879314--110879479 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
110879304 TCCTCATTGA
** *
110879314 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
110879349 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
110879388 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
110879423 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
110879458 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
110879480 CTTTCCATGG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:110879399 original size:74 final size:73
Alignment explanation
Indices: 110879309--110879479 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
110879299 GGTTTTCCTC
** * * **
110879309 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
110879372 TCAGTATGG
65 TCAGTATGG
*
110879381 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
110879446 CTCAGTATGG
64 CTCAGTATGG
110879456 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
110879480 CTTTCCATGG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:110886842 original size:35 final size:35
Alignment explanation
Indices: 110886798--110886963 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
110886788 TCCTCATTGA
** *
110886798 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
110886833 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
110886872 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
110886907 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
110886942 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
110886964 CTTTCCATGG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:110886883 original size:74 final size:73
Alignment explanation
Indices: 110886793--110886963 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
110886783 GGTTTTCCTC
** * * **
110886793 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
110886856 TCAGTATGG
65 TCAGTATGG
*
110886865 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
110886930 CTCAGTATGG
64 CTCAGTATGG
110886940 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
110886964 CTTTCCATGG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:110897199 original size:26 final size:27
Alignment explanation
Indices: 110897170--110897232 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
110897160 TATAGAATTT
* * *
110897170 ATTTATTATATTATTATAAAACCAA-A
1 ATTTATTATATTATAAAAAAAACAATA
*
110897196 ATTTA-TATCTTATAAAAAAAACAATA
1 ATTTATTATATTATAAAAAAAACAATA
*
110897222 AATTATTATAT
1 ATTTATTATAT
110897233 CCTTTATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 15 0.52
26 10 0.34
27 4 0.14
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTTATTATATTATAAAAAAAACAATA
Found at i:110902283 original size:21 final size:21
Alignment explanation
Indices: 110902257--110902298 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
110902247 TTGGTTTTGG
110902257 CTTTGACTAAAATTTATGTGA
1 CTTTGACTAAAATTTATGTGA
110902278 CTTTGACTAAAATTTATGTGA
1 CTTTGACTAAAATTTATGTGA
110902299 ATAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
CTTTGACTAAAATTTATGTGA
Found at i:110905982 original size:24 final size:25
Alignment explanation
Indices: 110905955--110906025 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 25
110905945 GAGCTTACTG
*
110905955 TTCAGCTTAATAAAGCTTACCGTT-
1 TTCAGCTCAATAAAGCTTACCGTTA
* **
110905979 TTCAGCTCAATAGAGCTTATTGTTCA
1 TTCAGCTCAATAAAGCTTACCGTT-A
110906005 TT-AGCTCAATAAAGCTTACCG
1 TTCAGCTCAATAAAGCTTACCG
110906026 ACCATGACTC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 20 0.53
25 16 0.42
26 2 0.05
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (25 bp):
TTCAGCTCAATAAAGCTTACCGTTA
Found at i:110905986 original size:46 final size:45
Alignment explanation
Indices: 110905897--110906026 Score: 143
Period size: 46 Copynumber: 2.8 Consensus size: 45
110905887 CACAGCTCGT
* ** *
110905897 AAGAGCTTACTGTTTCAGCTTATTGGAGCTTAACGATTTAGCTCAA
1 AAGAGCTTACTG-TTCAGCTTAATAAAGCTTACCGATTTAGCTCAA
*
110905943 AAGAGCTTACTGTTCAGCTTAATAAAGCTTACCGTTTTCAGCTCAA
1 AAGAGCTTACTGTTCAGCTTAATAAAGCTTACCGATTT-AGCTCAA
* * *
110905989 TAGAGCTTATTGTTCATTAGCTCAATAAAGCTTACCGA
1 AAGAGCTTACTGTTC---AGCTTAATAAAGCTTACCGA
110906027 CCATGACTCG
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
45 21 0.30
46 32 0.45
49 18 0.25
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (45 bp):
AAGAGCTTACTGTTCAGCTTAATAAAGCTTACCGATTTAGCTCAA
Found at i:110910279 original size:20 final size:20
Alignment explanation
Indices: 110910246--110910290 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
110910236 ATAGAAACTG
* *
110910246 ATAAAATTGTTATTTTGGAA
1 ATAAAATTGTTATTTAGAAA
110910266 ATAAAATT-TATATTTAGAAA
1 ATAAAATTGT-TATTTAGAAA
110910286 ATAAA
1 ATAAA
110910291 TTCTCACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (20 bp):
ATAAAATTGTTATTTAGAAA
Found at i:110913562 original size:40 final size:40
Alignment explanation
Indices: 110913507--110913583 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
110913497 TCGTGACACG
*
110913507 CTCCCTGTTATGTCGCGACACCCCTTGTGTTGCAACAACA
1 CTCCCTGTTATGTCGCGACAACCCTTGTGTTGCAACAACA
110913547 CTCCCT-TGTATGTCGCGACAACCCTTGTGTTGCAACA
1 CTCCCTGT-TATGTCGCGACAACCCTTGTGTTGCAACA
110913584 CCGACCACGC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.19, C:0.34, G:0.18, T:0.29
Consensus pattern (40 bp):
CTCCCTGTTATGTCGCGACAACCCTTGTGTTGCAACAACA
Found at i:110914338 original size:23 final size:18
Alignment explanation
Indices: 110914323--110914365 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
110914313 AATACTTAAG
110914323 TATA-TAATATAATAATA
1 TATATTAATATAATAATA
110914340 TATATTAATATAATAATA
1 TATATTAATATAATAATA
110914358 TAATATTA
1 T-ATATTA
110914366 GAAAACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATATTAATATAATAATA
Found at i:110914339 original size:8 final size:8
Alignment explanation
Indices: 110914326--110914362 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
110914316 ACTTAAGTAT
110914326 ATAATATA
1 ATAATATA
110914334 ATAATATA
1 ATAATATA
110914342 TATTAATATA
1 -A-TAATATA
110914352 ATAATATA
1 ATAATATA
110914360 ATA
1 ATA
110914363 TTAGAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 18 0.67
9 2 0.07
10 7 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATAATATA
Found at i:110914417 original size:17 final size:18
Alignment explanation
Indices: 110914395--110914436 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
110914385 AAATAAAACA
*
110914395 AAAGAAT-AAGAACAGAG
1 AAAGAATGAAAAACAGAG
*
110914412 AAAGAAATGAAAAAGAGAG
1 AAAG-AATGAAAAACAGAG
110914431 AAAGAA
1 AAAGAA
110914437 AGAAGGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 12 0.57
ACGTcount: A:0.69, C:0.02, G:0.24, T:0.05
Consensus pattern (18 bp):
AAAGAATGAAAAACAGAG
Found at i:110921875 original size:15 final size:15
Alignment explanation
Indices: 110921857--110921901 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
110921847 AATACTTAAG
110921857 TATATAATATAATAA
1 TATATAATATAATAA
*
110921872 TATATATTA-ATATAA
1 TATATAATATA-ATAA
110921887 TATATAATATAATAA
1 TATATAATATAATAA
110921902 AACATAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.92
16 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:110921908 original size:15 final size:15
Alignment explanation
Indices: 110921858--110921908 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
110921848 ATACTTAAGT
*
110921858 ATATAATATAATAAT
1 ATATAATATAATAAA
110921873 ATAT-AT-TAATATAA
1 ATATAATATAATA-AA
110921887 TATATAATATAATAAA
1 -ATATAATATAATAAA
*
110921903 ACATAA
1 ATATAA
110921909 AAGAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.17
14 3 0.10
15 13 0.43
16 4 0.13
17 5 0.17
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATATAATAAA
Found at i:110922860 original size:44 final size:43
Alignment explanation
Indices: 110922782--110922867 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 43
110922772 ACAGGGATAA
*
110922782 TTCGACCTTGAGTCGATGAGGCACTAATATTGTCGTATTGTTAC
1 TTCGACCTTGAGTCGATGAGGCACT-ATATTGTCGTACTGTTAC
* * *
110922826 TTCGACTTTGTGTCGATGAGGCACT-TCGTGTGTCGTACTGTT
1 TTCGACCTTGAGTCGATGAGGCACTAT-AT-TGTCGTACTGTT
110922868 TTCGATGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 1 0.03
44 34 0.94
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (43 bp):
TTCGACCTTGAGTCGATGAGGCACTATATTGTCGTACTGTTAC
Found at i:110929504 original size:21 final size:22
Alignment explanation
Indices: 110929478--110929524 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
110929468 AGGCTCAGAG
*
110929478 ACGGCCGTGTAACCTATC-CAC
1 ACGGCCATGTAACCTATCTCAC
**
110929499 ACGGCCATGTGGCCTATCTCAC
1 ACGGCCATGTAACCTATCTCAC
110929521 ACGG
1 ACGG
110929525 GCACGACTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.19
Consensus pattern (22 bp):
ACGGCCATGTAACCTATCTCAC
Found at i:110947250 original size:22 final size:22
Alignment explanation
Indices: 110947222--110947266 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
110947212 TATTATTCAC
110947222 AAATTTGTAATTTAATTTTTTT
1 AAATTTGTAATTTAATTTTTTT
110947244 AAATTTGTAATTTAATTTTTTT
1 AAATTTGTAATTTAATTTTTTT
110947266 A
1 A
110947267 CTTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
AAATTTGTAATTTAATTTTTTT
Found at i:110947671 original size:14 final size:14
Alignment explanation
Indices: 110947652--110947686 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
110947642 GGAAAGTAAG
110947652 TCATTTTTCAAAAA
1 TCATTTTTCAAAAA
* *
110947666 TCATTTTTCGAAAG
1 TCATTTTTCAAAAA
110947680 TCATTTT
1 TCATTTT
110947687 CAATGAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (14 bp):
TCATTTTTCAAAAA
Found at i:110948722 original size:14 final size:14
Alignment explanation
Indices: 110948692--110948724 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
110948682 TTGTCAAGCG
110948692 TTTT-TTTTAAATA
1 TTTTATTTTAAATA
110948705 -TTTATTTTAAATA
1 TTTTATTTTAAATA
110948718 TTTTATT
1 TTTTATT
110948725 GAGTTAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.17
13 9 0.50
14 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTTTAAATA
Found at i:110950776 original size:2 final size:2
Alignment explanation
Indices: 110950769--110950804 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
110950759 AATTTGGGTT
110950769 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110950805 AAGTCAAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110953853 original size:18 final size:18
Alignment explanation
Indices: 110953816--110953854 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
110953806 TTGGAAATCA
*
110953816 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
110953834 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
110953852 AAA
1 AAA
110953855 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:110959030 original size:233 final size:233
Alignment explanation
Indices: 110958616--110959078 Score: 802
Period size: 233 Copynumber: 2.0 Consensus size: 233
110958606 CTTTTGCGCA
110958616 AAATTTCCTAGAACCACCACCCCTATAAAATGGTCTAGAACCTCGATTAAACTGCGCAGTGCTTT
1 AAATTTCCTAGAACCACCACCCCTATAAAATGGTCTAGAACCTCGATTAAACTGCGCAGTGCTTT
* * * *
110958681 TTTCATTATTACCACTGTGTTGAGCAACATTAGCCTGTAAAGGTACATTAGAAACAAAATCTTGT
66 TATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGCACATTAAAAACAAAATCTTGT
*
110958746 TGTCGAGCTTCACAATCAGTAAGCATCTCAGCAAGAAGATCAAGAGGGAGACACATTGCTGAAGC
131 TGTCGAGCTTAACAATCAGTAAGCATCTCAGCAAGAAGATCAAGAGGGAGACACATTGCTGAAGC
110958811 TACAACTCAAATTGACTCATACTCCGCTGACAGACACG
196 TACAACTCAAATTGACTCATACTCCGCTGACAGACACG
* * * *
110958849 AAATTTTCTAGAACCACCACCCTTATAAAGTGGTCTAGAACCTCGATTGAACTGC-CTAGTGCTT
1 AAATTTCCTAGAACCACCACCCCTATAAAATGGTCTAGAACCTCGATTAAACTGCGC-AGTGCTT
110958913 TTATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGCACATTAAAAACAAAATCTTG
65 TTATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGCACATTAAAAACAAAATCTTG
*
110958978 TTGTCGGGCTTAACAATCAGTAAGCATCTCAGCAAGAAGATCAAGAGGGAGACACATTGCTGAAG
130 TTGTCGAGCTTAACAATCAGTAAGCATCTCAGCAAGAAGATCAAGAGGGAGACACATTGCTGAAG
* *
110959043 CTACAACTCGAATTGACTTATACTCCGCTGACAGAC
195 CTACAACTCAAATTGACTCATACTCCGCTGACAGAC
110959079 CAGCAAGAAT
Statistics
Matches: 217, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
232 1 0.00
233 216 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (233 bp):
AAATTTCCTAGAACCACCACCCCTATAAAATGGTCTAGAACCTCGATTAAACTGCGCAGTGCTTT
TATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGCACATTAAAAACAAAATCTTGT
TGTCGAGCTTAACAATCAGTAAGCATCTCAGCAAGAAGATCAAGAGGGAGACACATTGCTGAAGC
TACAACTCAAATTGACTCATACTCCGCTGACAGACACG
Found at i:110963370 original size:40 final size:41
Alignment explanation
Indices: 110963317--110963426 Score: 159
Period size: 40 Copynumber: 2.7 Consensus size: 41
110963307 GCTAACTGAA
* * *
110963317 AAACGCCGTAAAAGGTAAAGTATTAGCGGTATTTTT-GCAT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTCGCAT
* * *
110963357 AAACACCGCAAAAGGTAAAGCAATAGCGGCATTTTTCTCAT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTCGCAT
110963398 AAACGCCGTAAAAGGTAAAGCAATAGCGG
1 AAACGCCGTAAAAGGTAAAGCAATAGCGG
110963427 AAACGCCGCT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
40 31 0.51
41 30 0.49
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (41 bp):
AAACGCCGTAAAAGGTAAAGCAATAGCGGCATTTTTCGCAT
Found at i:110963444 original size:29 final size:29
Alignment explanation
Indices: 110963398--110963455 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
110963388 TTTTTCTCAT
110963398 AAACGCCGTAAAAGGTAAAGCAATAGCGG
1 AAACGCCGTAAAAGGTAAAGCAATAGCGG
*
110963427 AAACGCCGCT-AAATGTAAAGCAATAGCGG
1 AAACGCCG-TAAAAGGTAAAGCAATAGCGG
110963456 CGTTTTTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (29 bp):
AAACGCCGTAAAAGGTAAAGCAATAGCGG
Found at i:110963916 original size:15 final size:16
Alignment explanation
Indices: 110963885--110963919 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
110963875 TTTGCACTCC
*
110963885 TTTTTTTTTCTTTTCT
1 TTTTTTTTTCTTGTCT
110963901 TTTTTTTTTC-TGTCT
1 TTTTTTTTTCTTGTCT
110963916 TTTT
1 TTTT
110963920 AGAATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTCTTGTCT
Done.